Citrus Sinensis ID: 010136

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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-------510-------
Protein Sequence
MPAIASHNSIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPISTPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFALQGVRFFRNCLQ
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHcccccccEEEEcccccHHHHHHHHHHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccEEEEEEEcccccccccHHHHHHHHHccccccccEEEEEEEccccHHHHHcccccccccccEEEEcccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHcccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccccccccccEEEEcccHHHHHHHHHccHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccccccccccEEcccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHHHHHHccccccEEEEEEccEcccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccccccEEEEEEcHHHHHHHccccEEEEEcccccccccEEEEEEEEccccccHHccHHHHHHccccEEEEcccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccEcHHHHHHHHHHHHccHHHHHHHccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccccccccEEEEEEEccHHHHHHHHHccHHHHHHHc
Coil and Loop (DISEMBL)
mpaiashnsimavksenagevarsnggstpqkrrlrSDAAavenmspistpmklkpprrcvnsspnsgangiEMEINEKLMSARKSPVKKKLcdsfkskpnwnpqdVEQMSAVREALhvstapstivcrEDEQKKVLEFCKKNleeekagslyvcgcpgtgkslsmEKVQHYLVDWAkeaglqqpevfsinctsltnTSEIFSKILLKlqprkklngstsplqyLQNLYSQKLHSSVMKMMLIIADELDYLITRDRavlhdlfmlttfpfsRFILIGIANAIDLADRflprlqsmnckplvVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSntfkspvvdtikslPQHQQILLCSAVKffrggkkdmtVGELNKSYMNicktslippvgtleFFSMCRVLHdqgvlkvgrddklkrvtlkadesDITFALQGVRFFRNCLQ
Flexible Loop (DISEMBL)
mpaiashnsimavksenagevarsnggstpqkrrlrsdaaavenmspistpmklkpprrcvnsspnsgangiEMEINEKLMSARKSPVKKKLCDSfkskpnwnpqDVEQMSAVREALHvstapstivcredeQKKVLEFCKKNleeekagslyvCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQgvlkvgrddklkrvtlkadesditfalqgvrFFRNCLQ
Low Complexity Region (SEG)
MPAIASHNSIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPISTPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFALQGVRFFRNCLQ
Disordered region (IsUnstruct)
**************************************************************************************************************************PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEIL************************AASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFALQGVRFFRNC**
Disordered Region (DISOPRED)
****************************************************************************************************************VREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP******STSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEM******************************QVRVDHMAVALSNTF*********SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLK********RVTLKADESDITFALQGVRFFRNCLQ
Disordered Region (DISEMBL)
********SIMAVKSE***********************AAVENMSPISTPMKLKPPRRCVNSSPNSGANGIEMEINEKLMS*********LCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR***********EQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFALQGVRFFRNCLQ
Disordered Region (DISPRO)
********************************************************************************************************QDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR****************************SQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFALQGVRFFRNCLQ
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPAIASHNSIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPISTPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAxxxxxxxxxxxxxxxxxxxxxQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFALQGVRFFRNCLQ
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	517	2.2.26 [Sep-21-2011]
O89033	562	Cell division control pro	yes	no	0.735	0.676	0.341	6e-50
Q99741	560	Cell division control pro	yes	no	0.731	0.675	0.320	1e-44
P41411	577	Cell division control pro	yes	no	0.723	0.648	0.298	6e-40
P09119	513	Cell division control pro	yes	no	0.704	0.709	0.283	4e-36
P54789	707	Origin recognition comple	no	no	0.698	0.510	0.274	1e-32
Q9JI69	850	Origin recognition comple	no	no	0.713	0.434	0.291	3e-32
Q80Z32	848	Origin recognition comple	no	no	0.713	0.435	0.291	4e-32
Q9Z1N2	840	Origin recognition comple	no	no	0.713	0.439	0.291	5e-32
Q6BSE2	810	Origin recognition comple	no	no	0.626	0.4	0.270	5e-31
Q13415	861	Origin recognition comple	no	no	0.713	0.428	0.279	5e-31

>sp|O89033|CDC6_MOUSE Cell division control protein 6 homolog OS=Mus musculus GN=Cdc6 PE=2 SV=2

 Score =  199 bits (505), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 139/407 (34%), Positives = 227/407 (55%), Gaps = 27/407 (6%)

Query: 120 STAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE 179
           +  P  +  RE E   +  F K+++  +KAGSLY+ G PGTGK+  + ++   L D+ KE
Sbjct: 168 TAVPDRLPAREQEMGVIRNFLKEHICGKKAGSLYLSGAPGTGKTACLSRI---LQDFKKE 224

Query: 180 A-GLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVM 238
             G +      +NC SL +   +F  I  ++  R++L       + L     + L +   
Sbjct: 225 VKGFKS---ILLNCMSLRSAQAVFPAIAQEIG-REELCRPAG--KDLMRKLEKHLTAEKG 278

Query: 239 KMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSM-NC 297
            M++++ DE+D L ++ + VL+ LF       SR +LIGIAN +DL DR LPRL++  NC
Sbjct: 279 PMIVLVLDEMDQLDSKGQDVLYTLFEWPWLSNSRLVLIGIANTLDLTDRILPRLEARENC 338

Query: 298 KPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKALSVCRS 356
           KP ++ F  Y+++QI  ILQ+RL ++S   V    A++ CARKV+A SGD+RKAL VCR 
Sbjct: 339 KPQLLNFPPYTRNQIAAILQDRLSQVSKDQVLDSAAIQFCARKVSAVSGDIRKALDVCRR 398

Query: 357 AIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVV- 415
           AIEI+E+++R       S +  + L + ++ S       +V + H++  +S    + V  
Sbjct: 399 AIEIVESDVR-------SQTVLKPLSECKSPSESP-VPKRVGLAHISQVISEVDGNRVTL 450

Query: 416 ---DTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGTLEFFS 471
              +T  SLP  Q+IL+CS +   R  K K++T+G+L ++Y +IC+   +  V   E  S
Sbjct: 451 SQENTQDSLPLQQKILVCSLLLLTRRLKIKEVTLGKLYEAYSSICRKQQVTAVDQSECLS 510

Query: 472 MCRVLHDQGV--LKVGRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
           +  +L  +G+  LK  ++ +L +V+LK +E +I   L G  F  N L
Sbjct: 511 LSGLLESRGLVGLKKNKESRLTKVSLKIEEKEIEHVLNGKAFTGNIL 557

Involved in the initiation of DNA replication. Also participates in checkpoint controls that ensure DNA replication is completed before mitosis is initiated.
Mus musculus (taxid: 10090)

>sp|Q99741|CDC6_HUMAN Cell division control protein 6 homolog OS=Homo sapiens GN=CDC6 PE=1 SV=1

 Score =  181 bits (458), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 131/409 (32%), Positives = 217/409 (53%), Gaps = 31/409 (7%)

Query: 120 STAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE 179
           +  P  +  RE E   +  F ++++  +KAGSLY+ G PGTGK+  + ++   L D  KE
Sbjct: 166 TAVPDRLPAREREMDVIRNFLREHICGKKAGSLYLSGAPGTGKTACLSRI---LQDLKKE 222

Query: 180 AGLQQPEVFSINCTSLTNTSEIFSKILLKL-QPRKKLNGSTSPLQYLQNLYSQKLHSSVM 238
             L+  +   +NC SL     +F  I  ++ Q           ++ L+       H +  
Sbjct: 223 --LKGFKTIMLNCMSLRTAQAVFPAIAQEICQEEVSRPAGKDMMRKLEK------HMTAE 274

Query: 239 K--MMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSM- 295
           K  M++++ DE+D L ++ + VL+ LF       S  +LIGIAN +DL DR LPRLQ+  
Sbjct: 275 KGPMIVLVLDEMDQLDSKGQDVLYTLFEWPWLSNSHLVLIGIANTLDLTDRILPRLQARE 334

Query: 296 NCKPLVVTFRAYSKDQIIRILQERLMELSY-IVFQPQALELCARKVAAASGDMRKALSVC 354
            CKP ++ F  Y+++QI+ ILQ+RL ++S   V    A++ CARKV+A SGD+RKAL VC
Sbjct: 335 KCKPQLLNFPPYTRNQIVTILQDRLNQVSRDQVLDNAAVQFCARKVSAVSGDVRKALDVC 394

Query: 355 RSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS----NTF 410
           R AIEI+E++++       S +  + L + ++ S       +V + H++  +S    N  
Sbjct: 395 RRAIEIVESDVK-------SQTILKPLSECKSPSE-PLIPKRVGLIHISQVISEVDGNRM 446

Query: 411 KSPVVDTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGTLEF 469
                    S P  Q+IL+CS +   R  K K++T+G+L ++Y  +C+   +  V   E 
Sbjct: 447 TLSQEGAQDSFPLQQKILVCSLMLLIRQLKIKEVTLGKLYEAYSKVCRKQQVAAVDQSEC 506

Query: 470 FSMCRVLHDQGVLKVGR--DDKLKRVTLKADESDITFALQGVRFFRNCL 516
            S+  +L  +G+L + R  + +L +V  K +E +I  AL+      N L
Sbjct: 507 LSLSGLLEARGILGLKRNKETRLTKVFFKIEEKEIEHALKDKALIGNIL 555

Involved in the initiation of DNA replication. Also participates in checkpoint controls that ensure DNA replication is completed before mitosis is initiated.

Homo sapiens (taxid: 9606)

>sp|P41411|CDC18_SCHPO Cell division control protein 18 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cdc18 PE=1 SV=1

 Score =  165 bits (418), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 134/449 (29%), Positives = 219/449 (48%), Gaps = 75/449 (16%)

Query: 111 SAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKV- 169
           S  + +L  S   + +V RE+E+  V  F +++L+    G+LYV G PGTGK++ +  V 
Sbjct: 154 STAKLSLRKSYRSAGVVGRENEKSIVESFFRQHLDANAGGALYVSGAPGTGKTVLLHNVL 213

Query: 170 QHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY 229
            H + D+ K        V  INC ++     IF KI  K+   + L      + +   L 
Sbjct: 214 DHVVSDYPKV------NVCYINCMTINEPKAIFEKIHSKIVKEEILENEDHHINFQCELE 267

Query: 230 SQKLHSS--VMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADR 287
           S    S+  +   ++I+ DE+D+LI R++ VL+ LF   + P SR IL+GIANA+D+ DR
Sbjct: 268 SHFTQSANELYNPVIIVLDEMDHLIAREQQVLYTLFEWPSRPTSRLILVGIANALDMTDR 327

Query: 288 FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-------------------------- 321
           FLPRL++ +  P +++F  Y+  +I  I++ RL                           
Sbjct: 328 FLPRLRTKHITPKLLSFTPYTAQEISTIIKARLKTAATTSEKNNPFTPIKSISEVSDDSI 387

Query: 322 --------ELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMN 373
                   E  +I   P A+ELCARKVAA+SGD+RKAL +CR AIE+ E E +      N
Sbjct: 388 NVVSQHADETPFI--HPAAIELCARKVAASSGDLRKALDICRHAIELAEREWK--AQHDN 443

Query: 374 SASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAV 433
           + S+     D   AS          + H+  A S   +S     +K+L   Q+ +LC+ V
Sbjct: 444 TLSS----VDIPRAS----------IAHVVRATSAMSQSASA-RLKNLGLQQKAILCTLV 488

Query: 434 KFFRGGKKDMTVGELNKSYMNIC-KTSLIPPVGTLEFFSMCRVLHDQGVLKV---GRDDK 489
                 K  ++V ++ + Y ++C +  LI P+ + EF  +   L    ++++    R+ K
Sbjct: 489 V---CEKTSLSVADVFEKYSSLCLRDRLIYPLTSSEFCDVANSLETLAIIRLRTKQRNGK 545

Query: 490 LKR--VTLKADESDITFALQGV----RFF 512
            +   ++L   E D+  A+  +    RFF
Sbjct: 546 PQDRIISLLVPEMDVITAVGDIGTLKRFF 574

Part of the checkpoint control that prevents mitosis from occurring until S phase is completed. Plays a key role in coupling S phase to start and mitosis. Acts at the initiation of DNA replication and plays a major role in controlling the onset of S-phase. Together with orp1, involved in the maintenance of replication forks and activation of cds1-dependent S-phase checkpoint.

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

>sp|P09119|CDC6_YEAST Cell division control protein 6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CDC6 PE=1 SV=3

 Score =  153 bits (386), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 117/413 (28%), Positives = 198/413 (47%), Gaps = 49/413 (11%)

Query: 115 EALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGK------------ 162
           E ++++++   +  R  E ++V+ F  K + E ++ SLY+ G PGTGK            
Sbjct: 67  ELVNLNSSDGALPARTAEYEQVMNFLAKAISEHRSDSLYITGPPGTGKTAQLDMIIRQKF 126

Query: 163 -----SLSMEKVQHYL---------VDWAK--EAGLQQPEVFSINCTSLTNTSEIFSKIL 206
                SLS  + +  L         + W +  +  L+   V SINC SL   S IF KI 
Sbjct: 127 QSLPLSLSTPRSKDVLRHTNPNLQNLSWFELPDGRLESVAVTSINCISLGEPSSIFQKIF 186

Query: 207 LKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMK--MMLIIADELDYLI------TRDRAV 258
              Q    LNG T  ++ +Q+L  QK      K    +++ DE+D L+      T+    
Sbjct: 187 DSFQ---DLNGPTLQIKNMQHL--QKFLEPYHKKTTFVVVLDEMDRLLHANTSETQSVRT 241

Query: 259 LHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQ-SMNCKPLVVTFRAYSKDQIIRILQ 317
           + +LF+L   P   F+LIG+AN++D+ DRFL RL       P  + F+ Y+ +Q+  I+ 
Sbjct: 242 ILELFLLAKLPTVSFVLIGMANSLDMKDRFLSRLNLDRGLLPQTIVFQPYTAEQMYEIVI 301

Query: 318 ERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVS----KMN 373
           +++  L  I+FQP A++  A+K A  +GD+RK   V R +IEI E E R  +S     +N
Sbjct: 302 QKMSSLPTIIFQPMAIKFAAKKCAGNTGDLRKLFDVLRGSIEIYELEKRFLLSPTRGSLN 361

Query: 374 SASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDT-IKSLPQHQQILLCSA 432
           SA             ++     ++ ++++A   S    +    T I  L   Q+++LC+ 
Sbjct: 362 SAQVPLTPTTSPVKKSYPEPQGKIGLNYIAKVFSKFVNNNSTRTRIAKLNIQQKLILCTI 421

Query: 433 VKFFRGGKKDMTVGELNKSYMN-ICKTSLIPPVGTLEFFSMCRVLHDQGVLKV 484
           ++  +    D T+ E    Y+  I KT  + P+   EF  +C +L   G++ +
Sbjct: 422 IQSLKLN-SDATIDESFDHYIKAITKTDTLAPLQRNEFLEICTILETCGLVSI 473

Appears to have an important and perhaps unique dual role in S phase, it is first required for the initiation of DNA replication and then actively participates in the suppression of nuclear division. Interacts with the origin recognition complex (ORC). Targeted for degradation by the E3 ubiquitin ligase complex SCF(Cdc4).

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

>sp|P54789|ORC1_SCHPO Origin recognition complex subunit 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=orc1 PE=1 SV=1

 Score =  141 bits (356), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 112/408 (27%), Positives = 189/408 (46%), Gaps = 47/408 (11%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
           R  LHV++ PST+ CR++E   +    +  +EEE    LY+ G PGTGK+ ++ +V   L
Sbjct: 326 RAMLHVASVPSTLQCRDNEFSTIFSNLESAIEEETGACLYISGTPGTGKTATVHEVIWNL 385

Query: 174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL 233
            + ++E  L +     IN   +T+ ++ +S +   L   +      +P+  +  L ++  
Sbjct: 386 QELSREGQLPEFSFCEINGMRVTSANQAYSILWESLTGER-----VTPIHAMDLLDNRFT 440

Query: 234 HSSVMKMM-LIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRL 292
           H+S  +   +++ DELD L+T ++ VL++ F   + P SR I++ +AN +DL +R L   
Sbjct: 441 HASPNRSSCVVLMDELDQLVTHNQKVLYNFFNWPSLPHSRLIVVAVANTMDLPERILSNR 500

Query: 293 QSMNCKPLVVTFRAYSKDQIIRILQERLMEL-SYIVFQPQALELCARKVAAASGDMRKAL 351
            S       V F  Y+  Q+  I+  RL  +    VF   A+   ARKVAA SGD R+AL
Sbjct: 501 ISSRLGLSRVPFEPYTHTQLEIIIAARLEAVRDDDVFSSDAIRFAARKVAAVSGDARRAL 560

Query: 352 SVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK 411
            +CR A E+ E +         +     GL  Q                    A+S    
Sbjct: 561 DICRRASELAENK---------NGKVTPGLIHQ--------------------AISEMTA 591

Query: 412 SPVVDTIKSLPQHQQILLCSAV-KFFRGGKKDMTVGELNKSYMNICKTSLIPPV----GT 466
           SP+   +++L   Q++ LC+ V +  R G  +  V E+ +    + +    P      G 
Sbjct: 592 SPLQKVLRNLSFMQKVFLCAIVNRMRRSGFAESYVYEVLEEAERLLRVMTTPDAEAKFGE 651

Query: 467 L-----EFFSMCRVLHDQGVLKV-GRDDKLKRVTLKADESDITFALQG 508
           L     EF  +   L + GVL +  +  +  RV L   + +I  A +G
Sbjct: 652 LILRRPEFGYVLSSLSENGVLYLENKSSRNARVRLAIADDEIKLAFRG 699

Component of the origin recognition complex (ORC) that binds origins of replication. It has a role in both chromosomal replication and mating type transcriptional silencing. ORC binds to multiple sites within the ars1 origin of DNA replication in an ATP-independent manner.

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

>sp|Q9JI69|ORC1_CRIGR Origin recognition complex subunit 1 OS=Cricetulus griseus GN=ORC1 PE=2 SV=1

 Score =  140 bits (353), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 119/408 (29%), Positives = 195/408 (47%), Gaps = 39/408 (9%)

Query: 108 EQMSAVREA---LHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSL 164
           E  S + EA   LHVS  P ++ CRE E + +  F +  L +   G +Y+ G PGTGK+ 
Sbjct: 472 EPTSVLEEARLMLHVSAVPDSLPCREQEFQDIYSFVESKLLDGTGGCMYISGVPGTGKTA 531

Query: 165 SMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQY 224
           ++ +V   L   A+   +   E   +N   LT   +++ +IL      +KL G  +   +
Sbjct: 532 TVNEVIRCLQQAAQTNDVPPFEYVDVNGMKLTEPHQVYVQIL------QKLTGQKATANH 585

Query: 225 LQNLYSQKLHS--SVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI 282
              L +++  S  S  +  +++ DELD L T  + V+++LF   T   +R I++ IAN +
Sbjct: 586 AAQLLAKRFCSQGSQQETTVLLVDELDLLWTSKQDVMYNLFDWPTHKGARLIVLAIANTM 645

Query: 283 DLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA 342
           DL +R +    S       ++F+ YS +Q+  IL  RL  L    F+  A++L ARKVAA
Sbjct: 646 DLPERIMMNRVSSRLGLTRMSFQPYSHNQLKEILVSRLKHLK--AFEDDAIQLVARKVAA 703

Query: 343 ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHM 402
            SGD R+ L +CR A EI E     S +  NS                      V V H+
Sbjct: 704 LSGDARRCLDICRRATEICEL----SHNHGNSLGP-------------------VTVSHL 740

Query: 403 AVALSNTFKSPVVDTIKSLPQHQQILLCSAV-KFFRGGKKDMTVGELNKSYMNICKTSLI 461
             A+   F S  +  IK+    +Q  L + + +F R G ++ T  ++   ++ +C+   +
Sbjct: 741 MEAIDEMFSSSYITAIKNCSLLEQGFLRAIIAEFRRSGLEEATFQQIYSQHVALCRMEGL 800

Query: 462 PPVGTLEFFSMCRVLHDQGVLKV--GRDDKLKRVTLKADESDITFALQ 507
           P     E  ++C  L    +L V   R+D L RV L   + D+ +AL+
Sbjct: 801 PYPTMSETMAVCSNLGSCRLLLVEPSRNDLLLRVRLNVSQDDVLYALK 848

Component of the origin recognition complex (ORC) that binds origins of replication. DNA-binding is ATP-dependent, however specific DNA sequences that define origins of replication have not been identified so far. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication.

Cricetulus griseus (taxid: 10029)

>sp|Q80Z32|ORC1_RAT Origin recognition complex subunit 1 OS=Rattus norvegicus GN=Orc1 PE=2 SV=1

 Score =  139 bits (351), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 119/408 (29%), Positives = 198/408 (48%), Gaps = 39/408 (9%)

Query: 108 EQMSAVREA---LHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSL 164
           E  S + EA   LHVS  P ++ CRE E + +  F +  L +   G +Y+ G PGTGK+ 
Sbjct: 470 EPASVLEEARLRLHVSAVPDSLPCREQEFQDIYSFVESKLLDGTGGCMYISGVPGTGKTA 529

Query: 165 SMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQY 224
           ++ +V   L   A+   +   E   +N   LT   +++ +IL      +KL G  +   +
Sbjct: 530 TVHEVIRCLQQAAQTNDVPPFEYVEVNGMKLTEPHQVYVQIL------QKLTGQKATANH 583

Query: 225 LQNLYSQKLHS--SVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI 282
              L +++  S  S  +  +++ DELD L T  + VL++LF   T   +R +++ IAN +
Sbjct: 584 AAELLAKQFCSRGSQKETTVLLVDELDLLWTHKQDVLYNLFDWPTHKGARLVVLTIANTM 643

Query: 283 DLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA 342
           DL +R +    +       ++F+ YS  Q+ +IL  RL  L    F+  A++L ARKVAA
Sbjct: 644 DLPERIMMNRVASRLGLTRMSFQPYSHSQLKQILVSRLKHLK--AFEDDAVQLVARKVAA 701

Query: 343 ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHM 402
            SGD R+ L +CR A EI E             S ++G  D Q           V V H+
Sbjct: 702 LSGDARRCLDICRRATEICE------------VSHQRG--DSQCL---------VTVAHL 738

Query: 403 AVALSNTFKSPVVDTIKSLPQHQQILLCSAV-KFFRGGKKDMTVGELNKSYMNICKTSLI 461
             A+   F S  +  IK+    +Q  L + + +F R G ++ T  ++   ++ +C+   +
Sbjct: 739 MEAIDEMFSSSYITAIKNSSVLEQSFLRAIIAEFRRSGLEEATFQQIYSQHVALCRMEGL 798

Query: 462 PPVGTLEFFSMCRVLHDQGVLKV--GRDDKLKRVTLKADESDITFALQ 507
           P     E  ++C  L    +L V   R+D L RV L   ++D+ +AL+
Sbjct: 799 PYPTMSETMAVCSRLGSCRILLVEPSRNDLLLRVRLNVSQNDVLYALK 846

Component of the origin recognition complex (ORC) that binds origins of replication. DNA-binding is ATP-dependent, however specific DNA sequences that define origins of replication have not been identified so far. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication.

Rattus norvegicus (taxid: 10116)

>sp|Q9Z1N2|ORC1_MOUSE Origin recognition complex subunit 1 OS=Mus musculus GN=Orc1 PE=1 SV=2

 Score =  139 bits (351), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 119/408 (29%), Positives = 196/408 (48%), Gaps = 39/408 (9%)

Query: 108 EQMSAVREA---LHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSL 164
           E  SA+ EA   LHVS  P ++ CRE E + +  F +  L +   G +Y+ G PGTGK+ 
Sbjct: 462 EPASALEEARLRLHVSAVPDSLPCREQEFQDIYSFVESKLLDGTGGCMYISGVPGTGKTA 521

Query: 165 SMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQY 224
           ++ +V   L   A+   +   +   +N   LT   +++ +IL      KKL G  +   +
Sbjct: 522 TVHEVIRCLQQAAETDDVPPFQYVEVNGMKLTEPHQVYVQIL------KKLTGQKATANH 575

Query: 225 LQNLYSQKL--HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI 282
              L +++     S  +  +++ DELD L T  + V+++LF   T   +  I++ IAN +
Sbjct: 576 AAELLAKQFCGQGSQKETTVLLVDELDLLWTHKQDVMYNLFDWPTHKGAHLIVLTIANTM 635

Query: 283 DLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA 342
           DL +R +    S       ++F+ YS  Q+ +IL  RL  L    F+  A++L ARKVAA
Sbjct: 636 DLPERIMMNRVSSRLGLTRMSFQPYSHSQLKQILVSRLRNLR--AFEDDAIQLVARKVAA 693

Query: 343 ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHM 402
            SGD R+ L +CR A EI E      +S +   S                  S V V H+
Sbjct: 694 LSGDARRCLDICRRATEICE------LSHLRGDSL-----------------SLVTVAHL 730

Query: 403 AVALSNTFKSPVVDTIKSLPQHQQILLCSAV-KFFRGGKKDMTVGELNKSYMNICKTSLI 461
             A+   F S  +  IK+    +Q  L + + +F R G ++ T  ++   ++ +C+   +
Sbjct: 731 MEAIDEMFSSSYITAIKNSSVVEQSFLRAIIAEFRRSGLEEATFQQIYSQHVALCRMEGL 790

Query: 462 PPVGTLEFFSMCRVLHDQGVLKV--GRDDKLKRVTLKADESDITFALQ 507
           P     E  ++C  L    +L V   R+D L RV L   ++D+ FAL+
Sbjct: 791 PYPTMSETMAVCSRLGSCRLLLVEPSRNDLLLRVRLNVSQNDVLFALK 838

Component of the origin recognition complex (ORC) that binds origins of replication. DNA-binding is ATP-dependent, however specific DNA sequences that define origins of replication have not been identified so far. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication.

Mus musculus (taxid: 10090)

>sp|Q6BSE2|ORC1_DEBHA Origin recognition complex subunit 1 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=ORC1 PE=3 SV=2

 Score =  136 bits (342), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 94/347 (27%), Positives = 177/347 (51%), Gaps = 23/347 (6%)

Query: 108 EQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSME 167
           E    ++E LH ST  S++ CREDE   +    +  ++E+    LYV G PG GK+ ++ 
Sbjct: 375 EAFKELKEKLHTSTRLSSLPCREDEFTSIYLNLETAIQEQTGCCLYVSGTPGVGKTATVR 434

Query: 168 KVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN 227
           +V   L +  +   L   +   IN   L + +  + K+  K+    K+  S + L  L++
Sbjct: 435 EVIAQLRELTEMGELNDFDYLEINGLKLLSPNVAYEKLWEKISGL-KVTASNAAL-LLES 492

Query: 228 LYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADR 287
            +SQ    +  K ++++ DELD ++T+ + V+++ F   T+  S+ I+I +AN +DL +R
Sbjct: 493 YFSQ---DTPRKPLIVLMDELDQIVTKKQNVMYNFFNWPTYSNSKLIVIAVANTMDLPER 549

Query: 288 FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS-----YIVFQPQALELCARKVAA 342
            L    S       + F  Y+ +Q+  I++ RL  L+      ++    A+   +RKVA+
Sbjct: 550 VLSNKISSRLGLRRIQFIGYTFEQLGSIIKHRLDMLTKQNKRKVIINSDAIGFASRKVAS 609

Query: 343 ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHM 402
            SGD R+AL++CR A+EI E +    +S       EQ + ++            V++ H+
Sbjct: 610 VSGDARRALTICRRAVEIAEKDF---LSSKEDPGNEQEIENESY---------HVQISHI 657

Query: 403 AVALSNTFKSPVVDTIKSLPQHQQILLCSA-VKFFRGGKKDMTVGEL 448
           + A++ T  SP+   + SLP   +++L    ++  R G  + ++G++
Sbjct: 658 SKAINETVNSPISQFLMSLPFASKLVLAGVLLRMKRSGLAENSLGDI 704

Component of the origin recognition complex (ORC) that binds origins of replication. It has a role in both chromosomal replication and mating type transcriptional silencing. Binds to the ARS consensus sequence (ACS) of origins of replication in an ATP-dependent manner.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|Q13415|ORC1_HUMAN Origin recognition complex subunit 1 OS=Homo sapiens GN=ORC1 PE=1 SV=2

 Score =  135 bits (341), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 114/408 (27%), Positives = 190/408 (46%), Gaps = 39/408 (9%)

Query: 108 EQMSAVREA---LHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSL 164
           E  S + EA   LHVS  P ++ CRE E + +  F +  L +   G +Y+ G PGTGK+ 
Sbjct: 483 EPASVLEEARLRLHVSAVPESLPCREQEFQDIYNFVESKLLDHTGGCMYISGVPGTGKTA 542

Query: 165 SMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQY 224
           ++ +V   L   A+   +   +   +N   LT   +++ +IL      +KL G  +   +
Sbjct: 543 TVHEVIRCLQQAAQANDVPPFQYIEVNGMKLTEPHQVYVQIL------QKLTGQKATANH 596

Query: 225 LQNLYSQKL--HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI 282
              L +++     S  +  +++ DELD L T  + ++++LF   T   +R +++ IAN +
Sbjct: 597 AAELLAKQFCTRGSPQETTVLLVDELDLLWTHKQDIMYNLFDWPTHKEARLVVLAIANTM 656

Query: 283 DLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA 342
           DL +R +    S       + F+ Y+  Q+ +IL+ RL  L    F+  A++L ARKVAA
Sbjct: 657 DLPERIMMNRVSSRLGLTRMCFQPYTYSQLQQILRSRLKHLK--AFEDDAIQLVARKVAA 714

Query: 343 ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHM 402
            SGD R+ L +CR A EI E                   F QQ   +       V + H 
Sbjct: 715 LSGDARRCLDICRRATEICE-------------------FSQQKPDSPGL----VTIAHS 751

Query: 403 AVALSNTFKSPVVDTIK-SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLI 461
             A+   F S  +  IK S    Q  L     +F R G ++ T  ++   ++ +C+   +
Sbjct: 752 MEAVDEMFSSSYITAIKNSSVLEQSFLRAILAEFRRSGLEEATFQQIYSQHVALCRMEGL 811

Query: 462 PPVGTLEFFSMCRVLHDQGVLKV--GRDDKLKRVTLKADESDITFALQ 507
           P     E  ++C  L    +L V   R+D L RV L   + D+ +AL+
Sbjct: 812 PYPTMSETMAVCSHLGSCRLLLVEPSRNDLLLRVRLNVSQDDVLYALK 859

Component of the origin recognition complex (ORC) that binds origins of replication. DNA-binding is ATP-dependent, however specific DNA sequences that define origins of replication have not been identified so far. ORC is required to assemble the pre-replication complex necessary to initiate DNA replication.

Homo sapiens (taxid: 9606)

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	517
224059306	498	predicted protein [Populus trichocarpa]	0.957	0.993	0.707	0.0
297745925	509	unnamed protein product [Vitis vinifera]	0.965	0.980	0.690	0.0
359478562	497	PREDICTED: cell division control protein	0.949	0.987	0.692	0.0
255569307	523	cdc6, putative [Ricinus communis] gi|223	0.924	0.913	0.692	0.0
449450928	500	PREDICTED: cell division control protein	0.916	0.948	0.622	1e-176
30684328	508	cell division control 6 [Arabidopsis tha	0.955	0.972	0.608	1e-173
30680045	505	cell division control protein 6 [Arabido	0.957	0.980	0.598	1e-173
297822687	493	predicted protein [Arabidopsis lyrata su	0.940	0.985	0.615	1e-173
14578037	539	cell division control protein 6 [Arabido	0.955	0.916	0.576	1e-170
18402117	539	cell division control 6 [Arabidopsis tha	0.955	0.916	0.575	1e-168

>gi|224059306|ref|XP_002299817.1| predicted protein [Populus trichocarpa] gi|222847075|gb|EEE84622.1| predicted protein [Populus trichocarpa]

 Score =  744 bits (1921), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 368/520 (70%), Positives = 428/520 (82%), Gaps = 25/520 (4%)

Query: 1   MPAIAS-HNSIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPISTPMKLKPPRR 59
           MP+IA   +SIMAVKS+   E++RSNG +TPQKRRLRS+A  V + SPIS+P+K K PRR
Sbjct: 1   MPSIAGCSSSIMAVKSD---EISRSNGETTPQKRRLRSNADLVMHESPISSPLKRKSPRR 57

Query: 60  CVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHV 119
           CV+SSPN+  NGIE     KL    KSPVKK+L ++   KPNWNP+DV+Q+S V+E LHV
Sbjct: 58  CVDSSPNTPTNGIE-----KLEKKCKSPVKKELSNNLSEKPNWNPRDVKQVSVVKEVLHV 112

Query: 120 STAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE 179
           STAPS+ VCREDEQK+V +FCK  +E+EKAGSLYVCGCPGTGKSLSMEKV+  LVDWAKE
Sbjct: 113 STAPSSAVCREDEQKRVFDFCKACIEQEKAGSLYVCGCPGTGKSLSMEKVKQCLVDWAKE 172

Query: 180 AGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMK 239
           AG Q P+V ++NCTSLT TSEIF K++ K QP KK+NGSTSPLQ+LQNLYSQ+  S   K
Sbjct: 173 AGFQPPDVLTMNCTSLTKTSEIFKKVMEKNQPGKKINGSTSPLQHLQNLYSQQQKSLGSK 232

Query: 240 MMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKP 299
           MMLIIADELDYLIT+DRAVL+DLFMLTTFPFSR ILIG+ANAIDLADRFLPRL+S+NCKP
Sbjct: 233 MMLIIADELDYLITKDRAVLYDLFMLTTFPFSRCILIGVANAIDLADRFLPRLKSLNCKP 292

Query: 300 LVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIE 359
           +V+TFRAYSKDQI+RILQERL+ + + VF P A+ELCARKVAAASGDMRKAL VCRSAIE
Sbjct: 293 MVITFRAYSKDQILRILQERLLAVPHTVFHPHAMELCARKVAAASGDMRKALCVCRSAIE 352

Query: 360 ILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIK 419
           ILEAE+RES S + S                E     VR+DHMAVALS  F+SP VDTI+
Sbjct: 353 ILEAELRESTSILPSDK--------------ELQLQLVRIDHMAVALSKAFRSPTVDTIQ 398

Query: 420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQ 479
           SLPQHQQ++LC+AVKFFRGGKKD TVGELNKSYM ICK+++IPPVG LEF SMCRV+ DQ
Sbjct: 399 SLPQHQQMILCAAVKFFRGGKKDTTVGELNKSYMEICKSTIIPPVGILEFLSMCRVVADQ 458

Query: 480 GVLKVG--RDDKLKRVTLKADESDITFALQGVRFFRNCLQ 517
           G+LK+G  RDDKLKRVTLK DE+DITFALQGVR FRNCLQ
Sbjct: 459 GLLKLGQSRDDKLKRVTLKVDEADITFALQGVRVFRNCLQ 498

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745925|emb|CBI15981.3| unnamed protein product [Vitis vinifera]

 Score =  716 bits (1848), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 357/517 (69%), Positives = 416/517 (80%), Gaps = 18/517 (3%)

Query: 9   SIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPIS--TPMKLKPPRRCVNSSPN 66
           SI AV+SE++GEV RS  GSTPQKRR  S         PIS  +P+K K PRR VN SP 
Sbjct: 3   SIGAVRSESSGEV-RSGSGSTPQKRRSISGG-------PISPPSPVKWKSPRRSVNGSPK 54

Query: 67  SGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTI 126
           + +  IE + + K     KSP+K  L + F  K  WNP D +QMSA +EALHVST PST+
Sbjct: 55  TPSKEIEKDSDAKATRLHKSPMKN-LSEIFLDKSKWNPGDSKQMSAAKEALHVSTVPSTV 113

Query: 127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPE 186
           VCREDEQ ++++FCK  +E EKAGSLY CGCPGTGKSLSMEKV+  LVDWA +AG Q P+
Sbjct: 114 VCREDEQNRIMDFCKACIEHEKAGSLYACGCPGTGKSLSMEKVRRALVDWAGQAGFQPPD 173

Query: 187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIAD 246
           + SINCTSLTNT EIFSKIL K QPRKK   STSPLQ+L+N+YS+K  SS MKMMLIIAD
Sbjct: 174 LLSINCTSLTNTQEIFSKILEKHQPRKKTKSSTSPLQHLRNIYSKKQQSSGMKMMLIIAD 233

Query: 247 ELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRA 306
           ELDYLITRDR VLHDLFMLTT PFS  ILIG++NAIDLADRFLP+LQS+NCKP+VVTFRA
Sbjct: 234 ELDYLITRDRTVLHDLFMLTTLPFSSCILIGVSNAIDLADRFLPKLQSLNCKPMVVTFRA 293

Query: 307 YSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR 366
           YSKDQI++ILQ+RLM L + VFQPQALELCARKVAAASGDMRKALSVCRS +EI+EAE+R
Sbjct: 294 YSKDQILKILQQRLMALPFPVFQPQALELCARKVAAASGDMRKALSVCRSVLEIVEAELR 353

Query: 367 ESVSKMNSASAEQGLFDQQAASAFEFFNSQ----VRVDHMAVALSNTFKSPVVDTIKSLP 422
           ESV+ + S S+E+G FDQQ   A +   +Q    VRVDHMA ALS TF+SP+VDTI+SLP
Sbjct: 354 ESVNSL-SVSSEKGAFDQQTLPALDSLTNQEINIVRVDHMATALSKTFRSPIVDTIQSLP 412

Query: 423 QHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVL 482
           QHQQI+LCSAVK FRGGKKD TVGELNKSY++ICK+ L+PP+G LE  SMCRVL DQG+L
Sbjct: 413 QHQQIILCSAVKLFRGGKKDTTVGELNKSYVDICKSVLVPPIGILELSSMCRVLSDQGLL 472

Query: 483 KVG--RDDKLKRVTLKADESDITFALQGVRFFRNCLQ 517
           K+G  R+DKLKRVTLK DE+DI FALQG+RFFRNCLQ
Sbjct: 473 KLGQAREDKLKRVTLKVDEADIAFALQGIRFFRNCLQ 509

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359478562|ref|XP_003632136.1| PREDICTED: cell division control protein 6 homolog [Vitis vinifera]

 Score =  710 bits (1832), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/513 (69%), Positives = 412/513 (80%), Gaps = 22/513 (4%)

Query: 9   SIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPIS--TPMKLKPPRRCVNSSPN 66
           SI AV+SE++GEV RS  GSTPQKRR  S         PIS  +P+K K PRR VN SP 
Sbjct: 3   SIGAVRSESSGEV-RSGSGSTPQKRRSISGG-------PISPPSPVKWKSPRRSVNGSPK 54

Query: 67  SGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTI 126
           + +  IE + + K     KSP+K  L + F  K  WNP D +QMSA +EALHVST PST+
Sbjct: 55  TPSKEIEKDSDAKATRLHKSPMKN-LSEIFLDKSKWNPGDSKQMSAAKEALHVSTVPSTV 113

Query: 127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPE 186
           VCREDEQ ++++FCK  +E EKAGSLY CGCPGTGKSLSMEKV+  LVDWA +AG Q P+
Sbjct: 114 VCREDEQNRIMDFCKACIEHEKAGSLYACGCPGTGKSLSMEKVRRALVDWAGQAGFQPPD 173

Query: 187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIAD 246
           + SINCTSLTNT EIFSKIL K QPRKK   STSPLQ+L+N+YS+K  SS MKMMLIIAD
Sbjct: 174 LLSINCTSLTNTQEIFSKILEKHQPRKKTKSSTSPLQHLRNIYSKKQQSSGMKMMLIIAD 233

Query: 247 ELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRA 306
           ELDYLITRDR VLHDLFMLTT PFS  ILIG++NAIDLADRFLP+LQS+NCKP+VVTFRA
Sbjct: 234 ELDYLITRDRTVLHDLFMLTTLPFSSCILIGVSNAIDLADRFLPKLQSLNCKPMVVTFRA 293

Query: 307 YSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR 366
           YSKDQI++ILQ+RLM L + VFQPQALELCARKVAAASGDMRKALSVCRS +EI+EAE+R
Sbjct: 294 YSKDQILKILQQRLMALPFPVFQPQALELCARKVAAASGDMRKALSVCRSVLEIVEAELR 353

Query: 367 ESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQ 426
           ESV+ + S S+E+G FDQQ           VRVDHMA ALS TF+SP+VDTI+SLPQHQQ
Sbjct: 354 ESVNSL-SVSSEKGAFDQQTLP--------VRVDHMATALSKTFRSPIVDTIQSLPQHQQ 404

Query: 427 ILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG- 485
           I+LCSAVK FRGGKKD TVGELNKSY++ICK+ L+PP+G LE  SMCRVL DQG+LK+G 
Sbjct: 405 IILCSAVKLFRGGKKDTTVGELNKSYVDICKSVLVPPIGILELSSMCRVLSDQGLLKLGQ 464

Query: 486 -RDDKLKRVTLKADESDITFALQGVRFFRNCLQ 517
            R+DKLKRVTLK DE+DI FALQG+RFFRNCLQ
Sbjct: 465 AREDKLKRVTLKVDEADIAFALQGIRFFRNCLQ 497

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569307|ref|XP_002525621.1| cdc6, putative [Ricinus communis] gi|223535057|gb|EEF36739.1| cdc6, putative [Ricinus communis]

 Score =  691 bits (1783), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/511 (69%), Positives = 410/511 (80%), Gaps = 33/511 (6%)

Query: 1   MPAIASHNSIMAVKSENAGEVARSNGGSTPQKRRLRSDA-AAVENMSPISTPMKLKPPRR 59
           MP++A+  ++ AVKS N  ++       TPQKR LRS+A AA    SP+S+P+K K PRR
Sbjct: 1   MPSLAAGRNV-AVKS-NTEQM-------TPQKRTLRSNAGAAAVQESPVSSPVKWKSPRR 51

Query: 60  CVNSSPNSGAN-GIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALH 118
           C  SSPN+  + GIE           KSP KK LCD    K NWNP+D+EQMSAV+EALH
Sbjct: 52  CFVSSPNTTPDVGIEKMC--------KSPAKK-LCDDLIDKANWNPRDMEQMSAVKEALH 102

Query: 119 VSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAK 178
           VSTAPST+VCREDEQKKV +FCK  +E+EKAGSLYVCGCPGTGKSLSM KV+  LVDW K
Sbjct: 103 VSTAPSTVVCREDEQKKVFDFCKACIEQEKAGSLYVCGCPGTGKSLSMAKVKQQLVDWTK 162

Query: 179 EAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVM 238
           EAG Q P+V S+NCTSLTNT EIFSKI+ K  PRK+ +GS+S L +LQNLYSQ  H    
Sbjct: 163 EAGFQCPDVLSMNCTSLTNTCEIFSKIIGKNSPRKRNSGSSSHLLHLQNLYSQH-HLPGS 221

Query: 239 KMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCK 298
           KMMLIIADELDYLIT+DRAVLHDLFMLTTFPFSR ILIGIANAIDLADRFLPRLQS+NCK
Sbjct: 222 KMMLIIADELDYLITKDRAVLHDLFMLTTFPFSRCILIGIANAIDLADRFLPRLQSLNCK 281

Query: 299 PLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI 358
           P+V+TFRAYSKDQI+RILQERLM LS+ +F PQALELCARKVAAASGDMRKAL VCRSA+
Sbjct: 282 PMVITFRAYSKDQILRILQERLMALSWTIFHPQALELCARKVAAASGDMRKALCVCRSAV 341

Query: 359 EILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTI 418
           EILEAE++ES S MNS   E+ L DQQ           VR+DHMAVALS  ++SPVVDTI
Sbjct: 342 EILEAELKESTSNMNSFELEKELPDQQI----------VRIDHMAVALSKAYRSPVVDTI 391

Query: 419 KSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHD 478
           +SLPQHQQ++LCSAVKFFRGGKKD T+GELNKSY +ICK+++IPPVG LEF +MC VL+D
Sbjct: 392 QSLPQHQQVILCSAVKFFRGGKKDTTIGELNKSYADICKSTMIPPVGFLEFLNMCTVLND 451

Query: 479 QGVLKVG--RDDKLKRVTLKADESDITFALQ 507
           QG+LK+G  RDDKL+RVTLK D +DITFALQ
Sbjct: 452 QGLLKLGQSRDDKLRRVTLKVDAADITFALQ 482

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450928|ref|XP_004143214.1| PREDICTED: cell division control protein 6 homolog [Cucumis sativus] gi|449520665|ref|XP_004167354.1| PREDICTED: cell division control protein 6 homolog [Cucumis sativus]

 Score =  623 bits (1607), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 303/487 (62%), Positives = 382/487 (78%), Gaps = 13/487 (2%)

Query: 32  KRRLRSDAAAVENMSPISTPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKK 91
           KR+ RS +   +  SP STP+  K PRRC+NSSP +     E+ +     ++ +  +K+ 
Sbjct: 22  KRKPRSSSVQRQR-SPASTPINWKSPRRCLNSSPKTPP---EVSLLRSFQNSLQCLLKEL 77

Query: 92  LCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGS 151
           +      KP+WNP+D+E +   +EALH+STAP+TI+CREDEQ K+  FCK ++E+EKAGS
Sbjct: 78  IV-----KPDWNPKDIEHVKTAKEALHISTAPTTIMCREDEQSKIFNFCKASVEQEKAGS 132

Query: 152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP 211
           LYVCGCPGTGKSLSMEKV+  L  WA+E+GLQ P++ SINCTSL NTS IF+KI+ + QP
Sbjct: 133 LYVCGCPGTGKSLSMEKVKDQLAAWAEESGLQLPDILSINCTSLANTSYIFTKIMGETQP 192

Query: 212 RKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFS 271
           +KK NGS +PLQ+LQ LYSQK  SS +KM LIIADELDYLIT+D+AVLHDLFMLTTFPFS
Sbjct: 193 KKKRNGSLTPLQHLQRLYSQKAESSCVKMKLIIADELDYLITKDKAVLHDLFMLTTFPFS 252

Query: 272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ 331
           R ILIGIANAIDLADRFLPRLQ++NCKP +VT+RAYSK+QI++ILQ+RL  L ++VF  Q
Sbjct: 253 RCILIGIANAIDLADRFLPRLQALNCKPQIVTYRAYSKEQILKILQQRLTRLPFVVFHSQ 312

Query: 332 ALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFE 391
           ALELCARKVAA SGDMRKAL VCR+AIE+LE E++ S  ++N   A       +     E
Sbjct: 313 ALELCARKVAAVSGDMRKALCVCRNAIELLEVEIKASSKELNHDDACDTSAPPEPVKRSE 372

Query: 392 FFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKS 451
             +  VR+DHMAVAL+ TFKSP V+TI+SLPQHQQI+LCS VK  RGGKKD T+GELNKS
Sbjct: 373 --SQIVRLDHMAVALAKTFKSPAVETIQSLPQHQQIILCSVVKLVRGGKKDTTIGELNKS 430

Query: 452 YMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG--RDDKLKRVTLKADESDITFALQGV 509
           Y+++CK++LIPPVG+LE  +M  VL+DQG+LK+G  RD+K +RV LK DE+D+TFALQG+
Sbjct: 431 YIDMCKSTLIPPVGSLELSNMFTVLNDQGLLKLGQSRDNKTRRVLLKVDEADVTFALQGI 490

Query: 510 RFFRNCL 516
           RFFRNCL
Sbjct: 491 RFFRNCL 497

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30684328|ref|NP_850137.1| cell division control 6 [Arabidopsis thaliana] gi|15384672|emb|CAC59688.1| putative CDC6 [Arabidopsis thaliana] gi|18056480|emb|CAC81074.1| CDC6 protein [Arabidopsis thaliana] gi|330253199|gb|AEC08293.1| cell division control 6 [Arabidopsis thaliana]

 Score =  616 bits (1588), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 322/529 (60%), Positives = 391/529 (73%), Gaps = 35/529 (6%)

Query: 1   MPAIASHNS-----IMAVKSENAGEVARSNGGSTPQKRRLRSDAAA------VENMSPIS 49
           MPAIA  +S     ++  +SE+ G V RS   +T +KR+L SD+AA      V  ++ IS
Sbjct: 1   MPAIAGPSSSPQKHVVGSRSESIGGV-RSAEVNTSRKRKLISDSAAEVSATVVLPVNSIS 59

Query: 50  TPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQ 109
           TPMK K PRRC  S P +    I+ + NEKL    ++PV   +C   KSK  WNP+D EQ
Sbjct: 60  TPMKWKSPRRCAVSIPKTSDEEIKEDSNEKL----ENPVIS-VCLEVKSK--WNPKDDEQ 112

Query: 110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKV 169
           M AV+EALHVS APST+VCREDEQ++V EF K  +E++KAGSLY+CGCPGTGKSLSMEKV
Sbjct: 113 MKAVKEALHVSKAPSTVVCREDEQRRVFEFVKGCMEQKKAGSLYICGCPGTGKSLSMEKV 172

Query: 170 QHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY 229
           +    +WAK+AGL  PE  S+NCTSLT +++IFSKIL   +  KK NGS SPLQ LQ L+
Sbjct: 173 RLQAEEWAKQAGLHCPETVSVNCTSLTKSTDIFSKILGNYESGKKANGSFSPLQQLQRLF 232

Query: 230 SQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFL 289
           SQK   S  KMMLIIADE+DYLITRDR VLH+LFMLTT P SR ILIG+ANAIDLADRFL
Sbjct: 233 SQKQQQSRSKMMLIIADEMDYLITRDRGVLHELFMLTTLPLSRCILIGVANAIDLADRFL 292

Query: 290 PRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRK 349
           P+L+S+NCKPLVVTFRAYSKDQI+RILQERL+ L ++ FQ  ALE+CARKV+AASGDMRK
Sbjct: 293 PKLKSLNCKPLVVTFRAYSKDQILRILQERLVALPFVAFQSNALEICARKVSAASGDMRK 352

Query: 350 ALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT 409
           AL VCRSA+EILE E+R             G  DQ+           V++DHM  ALS T
Sbjct: 353 ALCVCRSALEILEIEVR-------------GSIDQEPKGPVPECQV-VKMDHMIAALSKT 398

Query: 410 FKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEF 469
           FKSP+VDTI+SLPQHQQI++CSA K FRG KKD T+ ELNK Y+ ICK+S+I P G  EF
Sbjct: 399 FKSPIVDTIQSLPQHQQIIVCSAAKAFRGSKKDRTIAELNKLYLEICKSSMITPAGITEF 458

Query: 470 FSMCRVLHDQGVLK--VGRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
            +MC VL+DQG+LK  + RDDKLKRV+L+ DE+DITFAL+ +RFFRNCL
Sbjct: 459 SNMCTVLNDQGILKLSLARDDKLKRVSLRVDEADITFALKEIRFFRNCL 507

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30680045|ref|NP_172207.2| cell division control protein 6 [Arabidopsis thaliana] gi|18056482|emb|CAC83650.1| CDC6b protein [Arabidopsis thaliana] gi|22795810|emb|CAD22139.1| putative cdc6-2 protein [Arabidopsis thaliana] gi|332189978|gb|AEE28099.1| cell division control protein 6 [Arabidopsis thaliana]

 Score =  614 bits (1584), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 309/516 (59%), Positives = 384/516 (74%), Gaps = 21/516 (4%)

Query: 3   AIASHNSIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPISTPMKLKPPRRCVN 62
           +++S+  I+A+ +    E   S     P+KR++RSD+AAV   S +STP KLK      +
Sbjct: 8   SLSSYKHIVAIGTTVKSESLESAAYEIPRKRKMRSDSAAVSGNS-VSTPKKLK--SHLPS 64

Query: 63  SSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTA 122
           S PN G +  E E+ E      + PV   + D   +K  W+P+D EQM AV+EALHVS A
Sbjct: 65  SVPNPGMS--EKEVVEDSNEILRYPVNLAVSDCLGTKSKWSPRDEEQMRAVKEALHVSKA 122

Query: 123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL 182
           PSTI+CREDEQ ++ EF K  ++++KAGSLY+CGCPGTGKSLSMEKV   + DW+ +AGL
Sbjct: 123 PSTILCREDEQIRIFEFVKGCIDQQKAGSLYICGCPGTGKSLSMEKVVQQVGDWSTQAGL 182

Query: 183 QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMML 242
              +  S+NCTSL+ T++IFSKIL +++P K  N ++SPLQ+LQNL+SQK  SS  +MML
Sbjct: 183 PPVDTLSVNCTSLSKTTDIFSKILGEIKPGKNANTNSSPLQHLQNLFSQKQESSSSRMML 242

Query: 243 IIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVV 302
           IIADE+DYLIT+DR VL+DLFMLTT PFSR ILIG+ANAIDLADRFLP+L+S+NCKP+V+
Sbjct: 243 IIADEMDYLITKDRGVLYDLFMLTTLPFSRCILIGVANAIDLADRFLPKLKSLNCKPMVI 302

Query: 303 TFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILE 362
           TFRAYSKDQI+RILQERL  LSY+ FQP+ALELCARKVAAASGDMRKAL VCRSA+EILE
Sbjct: 303 TFRAYSKDQILRILQERLRVLSYVAFQPKALELCARKVAAASGDMRKALCVCRSALEILE 362

Query: 363 AEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLP 422
            E R S    +                    +S VR+DHMA ALS TFKSPVV+TI+SLP
Sbjct: 363 IETRGSTGPESQGPTPD--------------DSVVRMDHMAAALSKTFKSPVVETIQSLP 408

Query: 423 QHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVL 482
           QHQQI++C+A K FRG KKD TVGELNK Y+ ICK+ +I P G  EF +MC VL+DQG+L
Sbjct: 409 QHQQIIICAAAKAFRGSKKDATVGELNKLYLEICKSWMISPAGITEFTNMCTVLNDQGIL 468

Query: 483 KVG--RDDKLKRVTLKADESDITFALQGVRFFRNCL 516
           KVG  R DKLKRV+L+ DESDITFALQ +RFFRNCL
Sbjct: 469 KVGQARRDKLKRVSLRVDESDITFALQEIRFFRNCL 504

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297822687|ref|XP_002879226.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297325065|gb|EFH55485.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  613 bits (1581), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 314/510 (61%), Positives = 385/510 (75%), Gaps = 24/510 (4%)

Query: 13  VKSENAGEVARSNGGSTPQKRRLRSDAAAV---ENMSPISTPMKLKPPRRCVNSSPNSGA 69
           ++SE  G + RS   +T +KR+LRSD+AA      + P+++ MK K PRRC  S P +  
Sbjct: 1   MRSEIIGGL-RSAEVNTSRKRKLRSDSAAEVAGTTVLPVNS-MKWKSPRRCAISIPKTSD 58

Query: 70  NGIEMEINEKLMSARKSPVKK-KLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVC 128
             I+ + N  L S   S VK   +C   KSK  WNP+D +QM AV+EALHVS APST+VC
Sbjct: 59  EEIKEDSNGNLTSPVISAVKNLSVCLDVKSK--WNPRDDDQMKAVKEALHVSKAPSTVVC 116

Query: 129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVF 188
           REDEQ++V EF K  +E++KAGSLY+CGCPGTGKSLSMEKV+    DWAK+AGL  PE+ 
Sbjct: 117 REDEQRRVYEFVKGCMEQKKAGSLYICGCPGTGKSLSMEKVRQQAEDWAKQAGLPCPEIV 176

Query: 189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADEL 248
           S+NCTSLT T++IFSKIL   +  KK NGS+SPLQ LQ+L+SQK   S  KMMLIIADE+
Sbjct: 177 SVNCTSLTKTTDIFSKILGNNESGKKANGSSSPLQQLQSLFSQKQQRSSSKMMLIIADEM 236

Query: 249 DYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYS 308
           DYLITRDR VLH+LFMLTT PFSR ILIG+ANAIDLADRFLP+L+S+NCKPLVVTFRAYS
Sbjct: 237 DYLITRDRGVLHELFMLTTLPFSRCILIGVANAIDLADRFLPKLKSLNCKPLVVTFRAYS 296

Query: 309 KDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRES 368
           KDQI+RILQERL+ L ++ FQ  ALE+CARKV+AASGDMRKAL VCRSA+EILE E+R +
Sbjct: 297 KDQILRILQERLVALPFVAFQSNALEICARKVSAASGDMRKALCVCRSALEILEIEVRGT 356

Query: 369 VSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQIL 428
           + +     A +G                V++DHM  ALS TFKSPVVDTI+SLPQHQQI+
Sbjct: 357 IDQEPQGPAPEGQV--------------VKMDHMIAALSKTFKSPVVDTIQSLPQHQQII 402

Query: 429 LCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKV--GR 486
           +CSA K FRG KKD T+ ELNK Y+ ICK+S+I P G  EF +MC VL+DQG+LK+   R
Sbjct: 403 VCSAAKAFRGSKKDRTIAELNKLYLEICKSSMITPAGITEFTNMCTVLNDQGILKLSHAR 462

Query: 487 DDKLKRVTLKADESDITFALQGVRFFRNCL 516
           DDKLKRV+L+ DE+DITFAL+ +RFFRNCL
Sbjct: 463 DDKLKRVSLRVDEADITFALKEIRFFRNCL 492

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|14578037|gb|AAK68875.1|AF275940_1 cell division control protein 6 [Arabidopsis thaliana]

 Score =  603 bits (1554), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 323/560 (57%), Positives = 391/560 (69%), Gaps = 66/560 (11%)

Query: 1   MPAIASHNS-----IMAVKSENAGEVARSNGGSTPQKRRLRSDAAA------VENMSPIS 49
           MPAIA  +S     ++  +SE+ G V RS   +T +KR+L SD+AA      V  ++ IS
Sbjct: 1   MPAIAGPSSSPQKHVVGSRSESIGGV-RSAEVNTSRKRKLISDSAAEVSATVVLPVNSIS 59

Query: 50  TPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQ 109
           TPMK K PRRC  S PN+    I+ + NEKL +   S     +C   KSK  WNP+D EQ
Sbjct: 60  TPMKWKSPRRCAVSIPNTSDEEIKEDSNEKLENPEIS-----VCLEVKSK--WNPKDDEQ 112

Query: 110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKV 169
           M AV+EALHVS APST+VCREDEQ++V EF K  +E++KAGSLY+CGCPGTGKSLSMEKV
Sbjct: 113 MKAVKEALHVSKAPSTVVCREDEQRRVFEFVKGCMEQKKAGSLYICGCPGTGKSLSMEKV 172

Query: 170 QHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY 229
           +    +WAK+AGL  PE  S+NCTSLT +++IFSKIL   +  KK NGS SPLQ LQ L+
Sbjct: 173 RLQAEEWAKQAGLHCPETVSVNCTSLTKSTDIFSKILGNYESGKKANGSFSPLQQLQRLF 232

Query: 230 SQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG------------ 277
           SQK   S  KMMLIIADE+DYLITRDR VLH+LFMLTT PFSR ILIG            
Sbjct: 233 SQKQQQSRSKMMLIIADEMDYLITRDRGVLHELFMLTTLPFSRCILIGTVFCVINVHFLK 292

Query: 278 -------------------IANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE 318
                              +ANAIDLADRFLP+L+S+NCKPLVVTFRAYSKDQI+RILQE
Sbjct: 293 SVSYGQTSFKFKVRICPPGVANAIDLADRFLPKLKSLNCKPLVVTFRAYSKDQILRILQE 352

Query: 319 RLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAE 378
           RL+ L ++ FQ  ALE+CARKV+AASGDMRKAL VCRSA+EILE E+R            
Sbjct: 353 RLVALPFVAFQSNALEICARKVSAASGDMRKALCVCRSALEILEIEVR------------ 400

Query: 379 QGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRG 438
            G  DQ+           V++DHM  ALS TFKSP+VDTI+SLPQHQQI++CSA K FRG
Sbjct: 401 -GSIDQEPKGPVPECQV-VKMDHMIAALSKTFKSPIVDTIQSLPQHQQIIVCSAAKAFRG 458

Query: 439 GKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKV--GRDDKLKRVTLK 496
            KKD T+ ELNK Y+ ICK+S+I P G  EF +MC VL+DQG+LK+   RDDKLKRV+L+
Sbjct: 459 SKKDRTIAELNKLYLEICKSSMITPAGITEFSNMCTVLNDQGILKLSHARDDKLKRVSLR 518

Query: 497 ADESDITFALQGVRFFRNCL 516
            DE+DITFAL+ +RFFRNCL
Sbjct: 519 VDEADITFALKEIRFFRNCL 538

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18402117|ref|NP_565686.1| cell division control 6 [Arabidopsis thaliana] gi|20197388|gb|AAC35241.2| putative CDC6 protein [Arabidopsis thaliana] gi|330253198|gb|AEC08292.1| cell division control 6 [Arabidopsis thaliana]

 Score =  598 bits (1541), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 322/560 (57%), Positives = 392/560 (70%), Gaps = 66/560 (11%)

Query: 1   MPAIASHNS-----IMAVKSENAGEVARSNGGSTPQKRRLRSDAAA------VENMSPIS 49
           MPAIA  +S     ++  +SE+ G V RS   +T +KR+L SD+AA      V  ++ IS
Sbjct: 1   MPAIAGPSSSPQKHVVGSRSESIGGV-RSAEVNTSRKRKLISDSAAEVSATVVLPVNSIS 59

Query: 50  TPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQ 109
           TPMK K PRRC  S P +    I+ + NEKL    ++PV   +C   KSK  WNP+D EQ
Sbjct: 60  TPMKWKSPRRCAVSIPKTSDEEIKEDSNEKL----ENPVIS-VCLEVKSK--WNPKDDEQ 112

Query: 110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKV 169
           M AV+EALHVS APST+VCREDEQ++V EF K  +E++KAGSLY+CGCPGTGKSLSMEKV
Sbjct: 113 MKAVKEALHVSKAPSTVVCREDEQRRVFEFVKGCMEQKKAGSLYICGCPGTGKSLSMEKV 172

Query: 170 QHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY 229
           +    +WAK+AGL  PE  S+NCTSLT +++IFSKIL   +  KK NGS SPLQ LQ L+
Sbjct: 173 RLQAEEWAKQAGLHCPETVSVNCTSLTKSTDIFSKILGNYESGKKANGSFSPLQQLQRLF 232

Query: 230 SQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG------------ 277
           SQK   S  KMMLIIADE+DYLITRDR VLH+LFMLTT P SR ILIG            
Sbjct: 233 SQKQQQSRSKMMLIIADEMDYLITRDRGVLHELFMLTTLPLSRCILIGTVFCVINVHFLK 292

Query: 278 -------------------IANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE 318
                              +ANAIDLADRFLP+L+S+NCKPLVVTFRAYSKDQI+RILQE
Sbjct: 293 SVSYGQTSFKFKVRICPPGVANAIDLADRFLPKLKSLNCKPLVVTFRAYSKDQILRILQE 352

Query: 319 RLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAE 378
           RL+ L ++ FQ  ALE+CARKV+AASGDMRKAL VCRSA+EILE E+R S+         
Sbjct: 353 RLVALPFVAFQSNALEICARKVSAASGDMRKALCVCRSALEILEIEVRGSI--------- 403

Query: 379 QGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRG 438
               DQ+           V++DHM  ALS TFKSP+VDTI+SLPQHQQI++CSA K FRG
Sbjct: 404 ----DQEPKGPVPECQV-VKMDHMIAALSKTFKSPIVDTIQSLPQHQQIIVCSAAKAFRG 458

Query: 439 GKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLK--VGRDDKLKRVTLK 496
            KKD T+ ELNK Y+ ICK+S+I P G  EF +MC VL+DQG+LK  + RDDKLKRV+L+
Sbjct: 459 SKKDRTIAELNKLYLEICKSSMITPAGITEFSNMCTVLNDQGILKLSLARDDKLKRVSLR 518

Query: 497 ADESDITFALQGVRFFRNCL 516
            DE+DITFAL+ +RFFRNCL
Sbjct: 519 VDEADITFALKEIRFFRNCL 538

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	517
TAIR|locus:2007332	505	AT1G07270 [Arabidopsis thalian	0.957	0.980	0.602	3.5e-155
TAIR|locus:2060659	539	CDC6 "cell division control 6"	0.458	0.439	0.629	1.3e-154
RGD|1309157	561	Cdc6 "cell division cycle 6" [	0.740	0.682	0.357	1.2e-51
FB|FBgn0035918	662	Cdc6 "Cdc6" [Drosophila melano	0.729	0.569	0.320	6.8e-51
MGI|MGI:1345150	562	Cdc6 "cell division cycle 6" [	0.738	0.679	0.359	8.3e-51
UNIPROTKB|E2R6N1	559	CDC6 "Uncharacterized protein"	0.733	0.677	0.351	7.4e-50
ZFIN|ZDB-GENE-050506-131	588	cdc6 "cell division cycle 6 ho	0.721	0.634	0.337	4.1e-49
UNIPROTKB|E1BAQ1	560	CDC6 "Uncharacterized protein"	0.731	0.675	0.342	8.5e-49
UNIPROTKB|F1RXE3	560	CDC6 "Uncharacterized protein"	0.713	0.658	0.347	2.6e-47
UNIPROTKB|Q99741	560	CDC6 "Cell division control pr	0.736	0.680	0.336	3.8e-46

TAIR|locus:2007332 AT1G07270 [Arabidopsis thaliana (taxid:3702)]

 Score = 1513 (537.7 bits), Expect = 3.5e-155, P = 3.5e-155
 Identities = 311/516 (60%), Positives = 386/516 (74%)

Query:     3 AIASHNSIMAVKSENAGEVARSNGGSTPQKRRLRSDAAAVENMSPISTPMKLKPPRRCVN 62
             +++S+  I+A+ +    E   S     P+KR++RSD+AAV   S +STP KLK      +
Sbjct:     8 SLSSYKHIVAIGTTVKSESLESAAYEIPRKRKMRSDSAAVSGNS-VSTPKKLKS--HLPS 64

Query:    63 SSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTA 122
             S PN G +  E E+ E      + PV   + D   +K  W+P+D EQM AV+EALHVS A
Sbjct:    65 SVPNPGMS--EKEVVEDSNEILRYPVNLAVSDCLGTKSKWSPRDEEQMRAVKEALHVSKA 122

Query:   123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL 182
             PSTI+CREDEQ ++ EF K  ++++KAGSLY+CGCPGTGKSLSMEKV   + DW+ +AGL
Sbjct:   123 PSTILCREDEQIRIFEFVKGCIDQQKAGSLYICGCPGTGKSLSMEKVVQQVGDWSTQAGL 182

Query:   183 QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMML 242
                +  S+NCTSL+ T++IFSKIL +++P K  N ++SPLQ+LQNL+SQK  SS  +MML
Sbjct:   183 PPVDTLSVNCTSLSKTTDIFSKILGEIKPGKNANTNSSPLQHLQNLFSQKQESSSSRMML 242

Query:   243 IIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVV 302
             IIADE+DYLIT+DR VL+DLFMLTT PFSR ILIG+ANAIDLADRFLP+L+S+NCKP+V+
Sbjct:   243 IIADEMDYLITKDRGVLYDLFMLTTLPFSRCILIGVANAIDLADRFLPKLKSLNCKPMVI 302

Query:   303 TFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILE 362
             TFRAYSKDQI+RILQERL  LSY+ FQP+ALELCARKVAAASGDMRKAL VCRSA+EILE
Sbjct:   303 TFRAYSKDQILRILQERLRVLSYVAFQPKALELCARKVAAASGDMRKALCVCRSALEILE 362

Query:   363 AEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLP 422
              E R S     +    QG             +S VR+DHMA ALS TFKSPVV+TI+SLP
Sbjct:   363 IETRGS-----TGPESQGPTPD---------DSVVRMDHMAAALSKTFKSPVVETIQSLP 408

Query:   423 QHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVL 482
             QHQQI++C+A K FRG KKD TVGELNK Y+ ICK+ +I P G  EF +MC VL+DQG+L
Sbjct:   409 QHQQIIICAAAKAFRGSKKDATVGELNKLYLEICKSWMISPAGITEFTNMCTVLNDQGIL 468

Query:   483 KVG--RDDKLKRVTLKADESDITFALQGVRFFRNCL 516
             KVG  R DKLKRV+L+ DESDITFALQ +RFFRNCL
Sbjct:   469 KVGQARRDKLKRVSLRVDESDITFALQEIRFFRNCL 504

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006260 "DNA replication" evidence=ISS

GO:0051726 "regulation of cell cycle" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2060659 CDC6 "cell division control 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 780 (279.6 bits), Expect = 1.3e-154, Sum P(2) = 1.3e-154
 Identities = 160/254 (62%), Positives = 194/254 (76%)

Query:   266 TTFPFS-RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS 324
             T+F F  R    G+ANAIDLADRFLP+L+S+NCKPLVVTFRAYSKDQI+RILQERL+ L 
Sbjct:   299 TSFKFKVRICPPGVANAIDLADRFLPKLKSLNCKPLVVTFRAYSKDQILRILQERLVALP 358

Query:   325 YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQ 384
             ++ FQ  ALE+CARKV+AASGDMRKAL VCRSA+EILE E+R S+             DQ
Sbjct:   359 FVAFQSNALEICARKVSAASGDMRKALCVCRSALEILEIEVRGSI-------------DQ 405

Query:   385 QAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMT 444
             +           V++DHM  ALS TFKSP+VDTI+SLPQHQQI++CSA K FRG KKD T
Sbjct:   406 EPKGPVPECQV-VKMDHMIAALSKTFKSPIVDTIQSLPQHQQIIVCSAAKAFRGSKKDRT 464

Query:   445 VGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG--RDDKLKRVTLKADESDI 502
             + ELNK Y+ ICK+S+I P G  EF +MC VL+DQG+LK+   RDDKLKRV+L+ DE+DI
Sbjct:   465 IAELNKLYLEICKSSMITPAGITEFSNMCTVLNDQGILKLSLARDDKLKRVSLRVDEADI 524

Query:   503 TFALQGVRFFRNCL 516
             TFAL+ +RFFRNCL
Sbjct:   525 TFALKEIRFFRNCL 538

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006260 "DNA replication" evidence=ISS

GO:0051726 "regulation of cell cycle" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0006261 "DNA-dependent DNA replication" evidence=RCA

RGD|1309157 Cdc6 "cell division cycle 6" [Rattus norvegicus (taxid:10116)]

 Score = 536 (193.7 bits), Expect = 1.2e-51, P = 1.2e-51
 Identities = 147/411 (35%), Positives = 235/411 (57%)

Query:   117 LHVSTA-PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD 175
             L ++TA P  +  RE E   + +F K+++  +KAGSLY+ G PGTGK+  + ++   L D
Sbjct:   163 LVLNTAVPDRLPAREQEMGVIRDFLKEHICGKKAGSLYLSGAPGTGKTACLSRI---LQD 219

Query:   176 WAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHS 235
             + KE  ++  +   +NC SL N   +F  I  ++  R++L   T   + L     + L +
Sbjct:   220 FKKE--VKGFKTIVLNCMSLRNAQAVFPAIAQEIG-REELCRPTG--KDLMRKLEKHLTA 274

Query:   236 SVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSM 295
                 M++++ DE+D L ++ + VL+ LF       SR +LIGIAN +DL DR LPRL++ 
Sbjct:   275 ERGPMIVLVLDEMDQLDSKGQDVLYTLFEWPWLSNSRLVLIGIANTLDLTDRILPRLEAR 334

Query:   296 N-CKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKALSV 353
               CKP ++ F  Y+++QI  ILQ+RL ++S   V    A++ CARKV+A SGD+RKAL V
Sbjct:   335 EGCKPKLLNFPPYTRNQIAAILQDRLSQVSKDQVLDSAAIQFCARKVSAVSGDIRKALDV 394

Query:   354 CRSAIEILEAEMR-ESVSKMNSA--SAEQGLFDQQAASAFEFFNSQV--RVDHMAVALSN 408
             CR AIEI+E+++R ++V K  S   S  + L  ++   A     SQV   VD   V LS 
Sbjct:   395 CRRAIEIVESDVRSQTVLKPLSECKSPCESLVPKRVGLAHI---SQVISGVDGNRVTLSQ 451

Query:   409 TFKSPVVDTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGTL 467
                    +T  SLP  Q+IL+CS +   +  K K++T+G+L ++Y ++C+   +  V   
Sbjct:   452 E------NTQDSLPLQQKILVCSLLLLTKRLKIKEVTLGKLYEAYSSVCRKQQVAAVDQS 505

Query:   468 EFFSMCRVLHDQGV--LKVGRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
             E  S+  +L  +G+  LK  ++ +L +V+LK +E +I   L+G  F  N L
Sbjct:   506 ECLSLSGLLESRGIVGLKKNKESRLTKVSLKIEEKEIEHVLKGKAFIGNIL 556

GO:0000922 "spindle pole" evidence=IEA;ISO

GO:0003682 "chromatin binding" evidence=IEA;ISO

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0005819 "spindle" evidence=ISO

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

GO:0019900 "kinase binding" evidence=IEA;ISO

GO:0051233 "spindle midzone" evidence=IEA;ISO

GO:0051301 "cell division" evidence=IEA

GO:0051984 "positive regulation of chromosome segregation" evidence=IEA;ISO

GO:0071777 "positive regulation of cell cycle cytokinesis" evidence=IEA;ISO

GO:0090007 "regulation of mitotic anaphase" evidence=IEA;ISO

FB|FBgn0035918 Cdc6 "Cdc6" [Drosophila melanogaster (taxid:7227)]

 Score = 485 (175.8 bits), Expect = 6.8e-51, Sum P(2) = 6.8e-51
 Identities = 127/396 (32%), Positives = 218/396 (55%)

Query:   129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVF 188
             RE + +++ EF   +LE + +GSLYV G PGTGK+  +  +     D++K   LQ+  V+
Sbjct:   270 RESQLQELREFFSNHLESQTSGSLYVSGQPGTGKTACLSLLLRD-PDFSKR--LQR--VY 324

Query:   189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADEL 248
              INCTS+ +   ++ K+  +LQ   K++G T    +L+ +  Q+   +  +M+L++ DE+
Sbjct:   325 -INCTSIASVGAVYKKLCTELQ--LKVSGRTER-DHLEAI--QRHLKTAKRMLLLVLDEI 378

Query:   249 DYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSM-NCKPLVVTFRAY 307
             D L T  + VL+ +F     P SR +L+GIAN++DL DR L RL +    KP ++ F  Y
Sbjct:   379 DQLCTSRQEVLYTIFEWPALPGSRILLVGIANSLDLTDRALMRLNARCELKPRLMHFPPY 438

Query:   308 SKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR 366
             SK QI+ I + RL E   + VF P  L+L A KV+A SGD+R+AL + R  +EI E + R
Sbjct:   439 SKQQIVEIFKSRLAEAEVLDVFPPVTLQLLAAKVSAISGDVRRALDIGRRVVEIAEQQKR 498

Query:   367 ESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP--VVDTIK-SLPQ 423
             +   + N  + +    D   A   +     V+V  +A  L+  + +   + + I+ S P 
Sbjct:   499 DGEKEFNMKALQLEGKDAVEAKEKQDTLKPVQVTQVAAVLNKVYGASQNLEEDIEASFPL 558

Query:   424 HQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVL 482
              Q+++LC+ V   R  + KD+++G L++ Y  +C    I  +   EF     ++  +G+L
Sbjct:   559 QQKLMLCTLVLMLRNERNKDISMGRLHEVYRRVCAKRNILALDQAEFTGTVDLVETRGIL 618

Query:   483 KVGR--DDKLKRVTLKADESDITFALQGVRFFRNCL 516
             ++ R  + +L +V L+ DE ++  AL   +   + L
Sbjct:   619 RIMRKKEPRLHKVLLQWDEEEVHAALSDKQLIASIL 654

GO:0003689 "DNA clamp loader activity" evidence=ISS

GO:0006267 "pre-replicative complex assembly" evidence=ISS

GO:0005656 "pre-replicative complex" evidence=ISS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

MGI|MGI:1345150 Cdc6 "cell division cycle 6" [Mus musculus (taxid:10090)]

 Score = 528 (190.9 bits), Expect = 8.3e-51, P = 8.3e-51
 Identities = 148/412 (35%), Positives = 231/412 (56%)

Query:   117 LHVSTA-PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD 175
             L ++TA P  +  RE E   +  F K+++  +KAGSLY+ G PGTGK+  + ++   L D
Sbjct:   164 LVLNTAVPDRLPAREQEMGVIRNFLKEHICGKKAGSLYLSGAPGTGKTACLSRI---LQD 220

Query:   176 WAKEA-GLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLH 234
             + KE  G +      +NC SL +   +F  I  ++  R++L       + L     + L 
Sbjct:   221 FKKEVKGFKS---ILLNCMSLRSAQAVFPAIAQEIG-REELCRPAG--KDLMRKLEKHLT 274

Query:   235 SSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQS 294
             +    M++++ DE+D L ++ + VL+ LF       SR +LIGIAN +DL DR LPRL++
Sbjct:   275 AEKGPMIVLVLDEMDQLDSKGQDVLYTLFEWPWLSNSRLVLIGIANTLDLTDRILPRLEA 334

Query:   295 M-NCKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKALS 352
               NCKP ++ F  Y+++QI  ILQ+RL ++S   V    A++ CARKV+A SGD+RKAL 
Sbjct:   335 RENCKPQLLNFPPYTRNQIAAILQDRLSQVSKDQVLDSAAIQFCARKVSAVSGDIRKALD 394

Query:   353 VCRSAIEILEAEMR-ESVSKMNSA--SAEQGLFDQQAASAFEFFNSQV--RVDHMAVALS 407
             VCR AIEI+E+++R ++V K  S   S  +    ++   A     SQV   VD   V LS
Sbjct:   395 VCRRAIEIVESDVRSQTVLKPLSECKSPSESPVPKRVGLAHI---SQVISEVDGNRVTLS 451

Query:   408 NTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGT 466
                     +T  SLP  Q+IL+CS +   R  K K++T+G+L ++Y +IC+   +  V  
Sbjct:   452 QE------NTQDSLPLQQKILVCSLLLLTRRLKIKEVTLGKLYEAYSSICRKQQVTAVDQ 505

Query:   467 LEFFSMCRVLHDQGV--LKVGRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
              E  S+  +L  +G+  LK  ++ +L +V+LK +E +I   L G  F  N L
Sbjct:   506 SECLSLSGLLESRGLVGLKKNKESRLTKVSLKIEEKEIEHVLNGKAFTGNIL 557

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000922 "spindle pole" evidence=ISO

GO:0003682 "chromatin binding" evidence=IDA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IDA

GO:0005819 "spindle" evidence=IDA

GO:0006260 "DNA replication" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

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

GO:0019900 "kinase binding" evidence=ISO

GO:0051233 "spindle midzone" evidence=ISO

GO:0051301 "cell division" evidence=IEA

GO:0051984 "positive regulation of chromosome segregation" evidence=ISO

GO:0071777 "positive regulation of cell cycle cytokinesis" evidence=ISO

GO:0090007 "regulation of mitotic anaphase" evidence=ISO

UNIPROTKB|E2R6N1 CDC6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 519 (187.8 bits), Expect = 7.4e-50, P = 7.4e-50
 Identities = 145/413 (35%), Positives = 225/413 (54%)

Query:   117 LHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDW 176
             LH +  P  +  RE E   +  F ++++  +KAGSLY+ G PGTGK+  + ++   L D 
Sbjct:   163 LHTAV-PDRLPAREKEMNVIRNFLREHICGKKAGSLYLSGAPGTGKTACLSRI---LQDL 218

Query:   177 AKEAGLQQPEVFSINCTSLTNTSEIFSKILLKL-QPRKKLNGSTSPLQYLQNLYSQKLHS 235
              KE  L+  +   +NC SL N   +F  I  ++ Q           ++ L+N      H 
Sbjct:   219 EKE--LKDFKTIMLNCMSLRNAQAVFPAIAQEICQEEVSRPAGRDMMKKLEN------HM 270

Query:   236 SVMK--MMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQ 293
             +  K  M++++ DE+D L ++ + VL+ LF       SR +LIGIAN +DL DR LPRLQ
Sbjct:   271 TAEKGPMIVLVLDEVDQLDSKGQDVLYTLFEWPWLSNSRLVLIGIANTLDLTDRILPRLQ 330

Query:   294 SMN-CKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKAL 351
             +   CKP ++ F  Y+K+QI  ILQERL  +S   V    A++ CARKV+A SGD+RKAL
Sbjct:   331 AREKCKPQLLNFPPYTKNQIATILQERLDLVSRAQVLDNAAIQFCARKVSALSGDVRKAL 390

Query:   352 SVCRSAIEILEAEMR-ESVSKMNS--ASAEQGLFDQQAASAFEFFNSQV--RVDHMAVAL 406
              VCR AIEI+E++++ ++V K  S   S  + L  ++         SQV   VD   + L
Sbjct:   391 DVCRRAIEIVESDVKSQTVLKPLSECTSPSESLVPKRVGL---IHISQVISEVDGNRMTL 447

Query:   407 SNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVG 465
             S   K    D   S P  Q+IL+CS +   R  K K++T+G+L ++Y N+C+   +  V 
Sbjct:   448 S---KEGAQD---SFPLQQKILVCSLLLLIRQLKIKEVTLGKLYEAYSNVCRKQQVAAVD 501

Query:   466 TLEFFSMCRVLHDQGVL--KVGRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
               E  S+  +L  +G+L  K  ++ +  +V+LK +E ++  AL+      N L
Sbjct:   502 QSECLSLSGLLEARGILGLKKNKETRFTKVSLKIEEKEVEHALKDKALIGNIL 554

GO:0090007 "regulation of mitotic anaphase" evidence=IEA

GO:0071777 "positive regulation of cell cycle cytokinesis" evidence=IEA

GO:0051984 "positive regulation of chromosome segregation" evidence=IEA

GO:0051233 "spindle midzone" evidence=IEA

GO:0019900 "kinase binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

ZFIN|ZDB-GENE-050506-131 cdc6 "cell division cycle 6 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 512 (185.3 bits), Expect = 4.1e-49, P = 4.1e-49
 Identities = 139/412 (33%), Positives = 225/412 (54%)

Query:   104 PQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKS 163
             P       +V++ALH +  P  ++ RE E+  ++ F + ++  EK  SLY+ G PGTGK+
Sbjct:   194 PMKKSGFQSVKQALHTAV-PERLLSREAERAAIVSFLQNHVVAEKPSSLYISGAPGTGKT 252

Query:   164 LSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQ 223
               +  V        ++A L+  +   INC +L ++  IF  +  +L+  K  N      +
Sbjct:   253 ACLNCVLQ-----EQKALLKGIQTVVINCMNLRSSHAIFPLLGEQLEVPKG-NSQARLEK 306

Query:   224 YLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID 283
             YL         +S    +L++ DE+D L ++ + VL+ +F     P SR  LIGIANA+D
Sbjct:   307 YL---------TSSGPTVLLVLDEMDQLDSKSQEVLYTIFEWPYLPKSRVCLIGIANALD 357

Query:   284 LADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVA 341
             L DR LPRLQ+  +C+P ++ F  YS +++  I+Q+RL ++S   V    A++ CARKV+
Sbjct:   358 LTDRILPRLQAKPHCRPKLLNFPPYSHEELNAIVQDRLTQVSGEGVLDAAAVQFCARKVS 417

Query:   342 AASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDH 401
             A SGD RKAL +CR A+EI+EA  R   SKM S        +  A+S      S+V V  
Sbjct:   418 AVSGDARKALDICRRAVEIVEAGDR---SKMAS--------EPTASSKV----SRVSVPQ 462

Query:   402 MAVALSNTFKSPVVDTI---KSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICK 457
             +A  LS  +   +  +    +S P  Q++L+C  +   R GK K++ +G+L + Y  +CK
Sbjct:   463 VARVLSEVYGDRMASSSGDGESFPLQQKLLVCCLLLIIRNGKSKEIQLGKLCEVYSKLCK 522

Query:   458 TSLIPPVGTLEFFSMCRVLHDQGVL--KVGRDDKLKRVTLKADESDITFALQ 507
                +  VG  E  S+C +L  +G+L  K  +D +L +++LK +E D+  AL+
Sbjct:   523 QRQVGGVGQTECLSLCSLLESRGILTLKKAKDARLTKISLKIEERDVEHALK 574

GO:0005524 "ATP binding" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|E1BAQ1 CDC6 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 509 (184.2 bits), Expect = 8.5e-49, P = 8.5e-49
 Identities = 141/412 (34%), Positives = 228/412 (55%)

Query:   119 VSTA-PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWA 177
             ++TA P  +  RE E   +  F ++++  +KAGSLY+ G PGTGK+  + ++   L D  
Sbjct:   164 LTTAVPDQLPAREKEMDVIRNFLREHIYGKKAGSLYLSGAPGTGKTACLSRI---LQDLK 220

Query:   178 KEAGLQQPEVFSINCTSLTNTSEIFSKILLKL-QPRKKLNGSTSPLQYLQNLYSQKLHSS 236
             KE  L+  +   +NC SL +   +F  I  ++ Q           ++ L+N      H +
Sbjct:   221 KE--LKGFKTIVLNCMSLRSAQAVFPAIAQEICQEEVSRPAGKDMMRRLEN------HMT 272

Query:   237 VMK--MMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQS 294
               K  M++++ DE+D L +R + VL+ LF       SR +LIGIAN +DL DR LPRLQ+
Sbjct:   273 AEKGPMIVLVLDEMDQLDSRGQDVLYTLFEWPWLSNSRLVLIGIANTLDLTDRILPRLQA 332

Query:   295 MN-CKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKALS 352
                CKP ++ F  Y+K+QI  ILQ+RL + S   V    A++ CARKV+A SGD+RKAL 
Sbjct:   333 REKCKPQLLNFPPYTKNQIATILQDRLNQASNDQVLDNAAIQFCARKVSAVSGDVRKALD 392

Query:   353 VCRSAIEILEAEMR-ESVSKMNSA--SAEQGLFDQQAASAFEFFNSQV--RVDHMAVALS 407
             +CR AIE++E++++ +++ K  S   S  + L  ++         SQV   VD   + LS
Sbjct:   393 ICRRAIEVVESDVKSQTILKPLSECKSPSESLVPKRVGV---IHISQVISEVDGNRMTLS 449

Query:   408 NTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGT 466
                +    D   S P  Q+IL+CS +   R  K K++T+G+L+++Y N+C+   +  V  
Sbjct:   450 ---QEGAQD---SFPLQQKILVCSLLLLTRRLKIKEVTLGKLHEAYSNVCRKQQVAAVAQ 503

Query:   467 LEFFSMCRVLHDQGV--LKVGRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
              E  S+  +L  +G+  LK  ++ +  +V+LK +E++I  AL+      N L
Sbjct:   504 SECLSLSGLLEARGIFGLKKNKETRFTKVSLKIEETEIEHALKDKALVGNIL 555

GO:0090007 "regulation of mitotic anaphase" evidence=IEA

GO:0071777 "positive regulation of cell cycle cytokinesis" evidence=IEA

GO:0051984 "positive regulation of chromosome segregation" evidence=IEA

GO:0051233 "spindle midzone" evidence=IEA

GO:0019900 "kinase binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|F1RXE3 CDC6 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 140/403 (34%), Positives = 224/403 (55%)

Query:   119 VSTA-PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWA 177
             ++TA P  +  RE E   +  F ++++  EKAGSLY+ G PGTGK+  + ++   L D  
Sbjct:   164 LTTAVPDQLPAREKEMDVLRNFLREHICGEKAGSLYLSGAPGTGKTACLSRI---LQDLK 220

Query:   178 KEAGLQQPEVFSINCTSLTNTSEIFSKILLKL-QPRKKLNGSTSPLQYLQNLYSQKLHSS 236
             KE  L+  +   +NC SL +   +F  I  ++ Q           ++ L+N      H +
Sbjct:   221 KE--LKGFKTVMLNCMSLRSAQAVFPAIAQEICQEEVSRPAGKDLMRKLEN------HMT 272

Query:   237 VMK--MMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQS 294
               K  M++++ DE+D L ++ + VL+ LF       SR +LIGIAN +DL DR LPRLQ+
Sbjct:   273 AEKGPMIVLVLDEMDQLDSKGQDVLYTLFEWPWLSSSRLVLIGIANTLDLTDRILPRLQA 332

Query:   295 MN-CKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKALS 352
                CKP ++ F  Y+K+QI  ILQ+RL + S   V    A++ CARKV+A SGD+RKAL 
Sbjct:   333 REKCKPRLLNFPPYTKNQIATILQDRLNQASKDQVLDSAAVQFCARKVSAVSGDVRKALD 392

Query:   353 VCRSAIEILEAEMR-ESVSKMNSA--SAEQGLFDQQAASAFEFFNSQV--RVDHMAVALS 407
             VCR AIEI+E++++ +++ K  S   S  + L  ++         SQV   VD   +ALS
Sbjct:   393 VCRRAIEIVESDVKSQTLLKPLSECKSPSESLVPKRVGV---IHISQVLSEVDGNRMALS 449

Query:   408 NTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGT 466
                +    D     P  Q+IL+CS +   R  K K++T+G+L ++Y N+C+   +  V  
Sbjct:   450 ---QEGAQDCF---PLQQKILVCSLLLLTRHLKTKEVTLGKLYEAYSNVCRKQQVAAVDQ 503

Query:   467 LEFFSMCRVLHDQGV--LKVGRDDKLKRVTLKADESDITFALQ 507
              E  S+  +L  +G+  LK  ++ +  +V+LK +E +I  A++
Sbjct:   504 SECLSLSGLLEARGIFGLKKSKETRFTKVSLKIEEKEIEHAVK 546

GO:0090007 "regulation of mitotic anaphase" evidence=IEA

GO:0071777 "positive regulation of cell cycle cytokinesis" evidence=IEA

GO:0051984 "positive regulation of chromosome segregation" evidence=IEA

GO:0051233 "spindle midzone" evidence=IEA

GO:0019900 "kinase binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q99741 CDC6 "Cell division control protein 6 homolog" [Homo sapiens (taxid:9606)]

 Score = 484 (175.4 bits), Expect = 3.8e-46, P = 3.8e-46
 Identities = 139/413 (33%), Positives = 227/413 (54%)

Query:   117 LHVSTA-PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD 175
             L ++TA P  +  RE E   +  F ++++  +KAGSLY+ G PGTGK+  + ++   L D
Sbjct:   162 LVLNTAVPDRLPAREREMDVIRNFLREHICGKKAGSLYLSGAPGTGKTACLSRI---LQD 218

Query:   176 WAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHS 235
               KE  L+  +   +NC SL     +F  I  ++   +    +   +  ++ L  +K H 
Sbjct:   219 LKKE--LKGFKTIMLNCMSLRTAQAVFPAIAQEICQEEVSRPAGKDM--MRKL--EK-HM 271

Query:   236 SVMK--MMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQ 293
             +  K  M++++ DE+D L ++ + VL+ LF       S  +LIGIAN +DL DR LPRLQ
Sbjct:   272 TAEKGPMIVLVLDEMDQLDSKGQDVLYTLFEWPWLSNSHLVLIGIANTLDLTDRILPRLQ 331

Query:   294 SMN-CKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARKVAAASGDMRKAL 351
             +   CKP ++ F  Y+++QI+ ILQ+RL ++S   V    A++ CARKV+A SGD+RKAL
Sbjct:   332 AREKCKPQLLNFPPYTRNQIVTILQDRLNQVSRDQVLDNAAVQFCARKVSAVSGDVRKAL 391

Query:   352 SVCRSAIEILEAEMR-ESVSKMNSA--SAEQGLFDQQAASAFEFFNSQV--RVDHMAVAL 406
              VCR AIEI+E++++ +++ K  S   S  + L  ++         SQV   VD   + L
Sbjct:   392 DVCRRAIEIVESDVKSQTILKPLSECKSPSEPLIPKRVGL---IHISQVISEVDGNRMTL 448

Query:   407 SNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVG 465
             S   +    D   S P  Q+IL+CS +   R  K K++T+G+L ++Y  +C+   +  V 
Sbjct:   449 S---QEGAQD---SFPLQQKILVCSLMLLIRQLKIKEVTLGKLYEAYSKVCRKQQVAAVD 502

Query:   466 TLEFFSMCRVLHDQGVL--KVGRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
               E  S+  +L  +G+L  K  ++ +L +V  K +E +I  AL+      N L
Sbjct:   503 QSECLSLSGLLEARGILGLKRNKETRLTKVFFKIEEKEIEHALKDKALIGNIL 555

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

GO:0005524 "ATP binding" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0000076 "DNA replication checkpoint" evidence=TAS

GO:0000079 "regulation of cyclin-dependent protein serine/threonine kinase activity" evidence=TAS

GO:0000166 "nucleotide binding" evidence=TAS

GO:0005737 "cytoplasm" evidence=TAS

GO:0007089 "traversing start control point of mitotic cell cycle" evidence=TAS

GO:0008156 "negative regulation of DNA replication" evidence=TAS

GO:0008285 "negative regulation of cell proliferation" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000083 "regulation of transcription involved in G1/S phase of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006260 "DNA replication" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0019900 "kinase binding" evidence=IPI

GO:0090007 "regulation of mitotic anaphase" evidence=IMP

GO:0071777 "positive regulation of cell cycle cytokinesis" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0000922 "spindle pole" evidence=IDA

GO:0051233 "spindle midzone" evidence=IDA

GO:0051984 "positive regulation of chromosome segregation" evidence=IDA

---

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	517
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	7e-41
PTZ00112	1164	PTZ00112, PTZ00112, origin recognition complex 1 p	5e-31
TIGR02928	365	TIGR02928, TIGR02928, orc1/cdc6 family replication	2e-24
PRK00411	394	PRK00411, cdc6, cell division control protein 6; R	2e-21
cd08768	87	cd08768, Cdc6_C, Winged-helix domain of essential	1e-12
smart01074	84	smart01074, Cdc6_C, CDC6, C terminal	1e-12
pfam13401	124	pfam13401, AAA_22, AAA domain	5e-10
pfam09079	85	pfam09079, Cdc6_C, CDC6, C terminal	2e-09
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-08
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	6e-04

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score =  150 bits (381), Expect = 7e-41
 Identities = 94/398 (23%), Positives = 166/398 (41%), Gaps = 55/398 (13%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
           ++ L     P  +  RE+E  ++  F    L  E+  ++ + G  GTGK+ ++     ++
Sbjct: 7   KDVLLEDYIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATV----KFV 62

Query: 174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ--NLYSQ 231
           ++  +E+     EV  INC  L    ++ SKIL      K      +    L+       
Sbjct: 63  MEELEES-SANVEVVYINCLELRTPYQVLSKIL-----NKLGKVPLTGDSSLEILKRLYD 116

Query: 232 KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPR 291
            L      +++I+ DE+D L+ +D  VL+ L         +  +I ++N     D   PR
Sbjct: 117 NLSKKGKTVIVIL-DEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPR 175

Query: 292 LQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVAAASGDMRKA 350
           ++S      +V F  Y+ +++  IL+ER+ E  S  V     L+L A  VAA SGD RKA
Sbjct: 176 VKSSLGPSEIV-FPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKA 234

Query: 351 LSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF 410
           + + R A EI E E                             + +V  DH+  A     
Sbjct: 235 IDILRRAGEIAERE----------------------------GSRKVSEDHVREAQEEIE 266

Query: 411 KSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFF 470
           +  + + +K+LP HQ+I+L + V+       +++ GEL   Y ++C+           F 
Sbjct: 267 RDVLEEVLKTLPLHQKIVLLAIVE----LTVEISTGELYDVYESLCER---LRTSQRRFS 319

Query: 471 SMCRVLHDQGVL-----KVGRDDKLKRVTLKADESDIT 503
            +   L   G++       G   + + ++L  D   I 
Sbjct: 320 DIISELEGLGIVSASLISRGERGRTREISLDLDPEVIR 357

Length = 366

>gnl|CDD|240274 PTZ00112, PTZ00112, origin recognition complex 1 protein; Provisional

 Score =  127 bits (321), Expect = 5e-31
 Identities = 104/348 (29%), Positives = 160/348 (45%), Gaps = 29/348 (8%)

Query: 26  GGSTPQKRRLRSDAAAVENMSPISTPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARK 85
           GG     ++   + A     S   T  K K      N S  S           + +  + 
Sbjct: 655 GGQKKNSKKEYMNPAQTTTSSKAKTHSKTKNDH---NKSKTSKNKEPSSTSFLQDVKKKS 711

Query: 86  SPVKKKLCDSFKS-KPNW---------NPQDVEQMSAVREALHVSTAPSTIVCREDEQKK 135
            P         K  + N+         +P D     A+R  + +   P  + CRE E K+
Sbjct: 712 DPHNVDFKSFIKQDQENYYVNLLRNITDPTD----KAIR-MMQLDVVPKYLPCREKEIKE 766

Query: 136 VLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS 194
           V  F +  +++  +   LY+ G PGTGK+ ++  V   L    K+  L    VF IN  +
Sbjct: 767 VHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMN 826

Query: 195 LTNTS---EIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYL 251
           + + +   ++  K L   +P   LN      + L  L++Q    +    +LII DE+DYL
Sbjct: 827 VVHPNAAYQVLYKQLFNKKPPNALNS----FKILDRLFNQNKKDNRNVSILII-DEIDYL 881

Query: 252 ITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQ 311
           IT+ + VL  LF   T   S+ +LI I+N +DL +R +PR +S      +V F  Y  D+
Sbjct: 882 ITKTQKVLFTLFDWPTKINSKLVLIAISNTMDLPERLIPRCRSRLAFGRLV-FSPYKGDE 940

Query: 312 IIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIE 359
           I +I++ERL     I+    A++LCARKVA  SGD+RKAL +CR A E
Sbjct: 941 IEKIIKERLENCKEII-DHTAIQLCARKVANVSGDIRKALQICRKAFE 987

Length = 1164

>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation protein

 Score =  104 bits (262), Expect = 2e-24
 Identities = 81/383 (21%), Positives = 159/383 (41%), Gaps = 54/383 (14%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
           R+ L     P  IV R+++ +++ +  +  L   +  ++++ G  GTGK+   + V   L
Sbjct: 5   RDLLEPDYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKEL 64

Query: 174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPL------QYLQN 227
            + A++  ++      +NC  L    ++  ++  +L+     +G   P       +  + 
Sbjct: 65  EEAAEDRDVRV-VTVYVNCQILDTLYQVLVELANQLRG----SGEEVPTTGLSTSEVFRR 119

Query: 228 LYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDL---FMLTTFPFSRFILIGIANAIDL 284
           LY ++L+      ++I+ DE+DYL+  D  +L+ L           ++  +IGI+N +  
Sbjct: 120 LY-KELNER-GDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKF 177

Query: 285 ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALE-----LCARK 339
            +   PR++S  C    + F  Y  +++  IL+ R    +   F    L+     LCA  
Sbjct: 178 RENLDPRVKSSLC-EEEIIFPPYDAEELRDILENR----AEKAFYDGVLDDGVIPLCAAL 232

Query: 340 VAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRV 399
            A   GD RKA+ + R A EI E E  E                            +V  
Sbjct: 233 AAQEHGDARKAIDLLRVAGEIAEREGAE----------------------------RVTE 264

Query: 400 DHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTS 459
           DH+  A     K  +++ I+ LP H +++L +        +     GE+ + Y  +C+  
Sbjct: 265 DHVEKAQEKIEKDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCEDI 324

Query: 460 LIPPVGTLEFFSMCRVLHDQGVL 482
            + P+       +   L   G++
Sbjct: 325 GVDPLTQRRISDLLNELDMLGLV 347

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 365

>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed

 Score = 96.1 bits (240), Expect = 2e-21
 Identities = 86/365 (23%), Positives = 149/365 (40%), Gaps = 86/365 (23%)

Query: 108 EQM----SAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKS 163
           EQ+     A+R AL  S  P  ++                            G PGTGK+
Sbjct: 37  EQIEELAFALRPALRGSR-PLNVLIY--------------------------GPPGTGKT 69

Query: 164 LSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQ 223
            +++KV   L + A +          INC        IFS+I       ++L G   P  
Sbjct: 70  TTVKKVFEELEEIAVKV-----VYVYINCQIDRTRYAIFSEIA------RQLFGHPPPSS 118

Query: 224 YLQNLYSQKLHSSVMK------MMLIIA-DELDYLITRDRA-VLHDLF-MLTTFPFSRFI 274
               L   +L   + +       +LI+A D+++YL  ++   VL+ L      +P +R  
Sbjct: 119 ---GLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIG 175

Query: 275 LIGIANAIDLADRFLPRLQS-MNCKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQA 332
           +IGI++ +       PR++S     P  + F  Y+ D+I  IL++R+ E  Y  V   + 
Sbjct: 176 VIGISSDLTFLYILDPRVKSVFR--PEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEV 233

Query: 333 LELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEF 392
           L+L A   A   GD R A+ + R A  I  AE   S                        
Sbjct: 234 LDLIADLTAREHGDARVAIDLLRRAGLI--AEREGS------------------------ 267

Query: 393 FNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSY 452
              +V  + +  A   +    + + +++LP H+++LL + V+  + G  ++T GE+ + Y
Sbjct: 268 --RKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEY 325

Query: 453 MNICK 457
             +C+
Sbjct: 326 KELCE 330

Length = 394

>gnl|CDD|176573 cd08768, Cdc6_C, Winged-helix domain of essential DNA replication protein Cell division control protein (Cdc6), which mediates DNA binding

 Score = 63.0 bits (154), Expect = 1e-12
 Identities = 22/87 (25%), Positives = 45/87 (51%), Gaps = 6/87 (6%)

Query: 422 PQHQQILLCSAVK-FFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQG 480
           P HQ+++L + +  F RGG+++ T GE+ + Y  +C+   + P+       +   L   G
Sbjct: 1   PLHQKLVLLALLLLFKRGGEEEATTGEVYEVYEELCEEIGVDPLTQRRISDLLSELEMLG 60

Query: 481 VLKV-----GRDDKLKRVTLKADESDI 502
           +L+      GR  + ++++L  D  D+
Sbjct: 61  LLETEVSSKGRRGRTRKISLNVDPDDV 87

This model characterizes the winged-helix, C-terminal domain of the Cell division control protein (Cdc6_C). Cdc6 (also known as Cell division cycle 6 or Cdc18) functions as a regulator at the early stages of DNA replication, by helping to recruit and load the Minichromosome Maintenance Complex (MCM) onto DNA and may have additional roles in the control of mitotic entry. Precise duplication of chromosomal DNA is required for genomic stability during replication. Cdc6 has an essential role in DNA replication and irregular expression of Cdc6 may lead to genomic instability. Cdc6 over-expression is observed in many cancerous lesions. DNA replication begins when an origin recognition complex (ORC) binds to a replication origin site on the chromatin. Studies indicate that Cdc6 interacts with ORC through the Orc1 subunit, and that this association increases the specificity of the ORC-origins interaction. Further studies suggest that hydrolysis of Cdc6-bound ATP promotes the association of the replication licensing factor Cdt1 with origins through an interaction with Orc6 and this in turn promotes the loading of MCM2-7 helicase onto chromatin. The MCM2-7 complex promotes the unwinding of DNA origins, and the binding of additional factors to initiate the DNA replication. S-Cdk (S-phase cyclin and cyclin-dependent kinase complex) prevents rereplication by causing the Cdc6 protein to dissociate from ORC and prevents the Cdc6 and MCM proteins from reassembling at any origin. By phosphorylating Cdc6, S-Cdk also triggers Cdc6's ubiquitination. The Cdc6 protein is composed of three domains, an N-terminal AAA+ domain with Walker A and B, and Sensor-1 and -2 motifs. The central region contains a conserved nucleotide binding/ATPase domain and is a member of the ATPase superfamily. The C-terminal domain (Cdc6_C) is a conserved winged-helix domain that possibly mediates protein-protein interactions or direct DNA interactions. Cdc6 is conserved in eukaryotes, and related genes are found in Archaea. The winged helix fold structure of Cdc6_C is similar to the structures of other eukaryotic replication initiators without apparent sequence similarity. Length = 87

>gnl|CDD|215013 smart01074, Cdc6_C, CDC6, C terminal

 Score = 63.0 bits (154), Expect = 1e-12
 Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 5/84 (5%)

Query: 428 LLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVL----- 482
           LL   +   RGGK+++T GE+ + Y  +CK   + P+     + +   L   G++     
Sbjct: 1   LLAIVLLLTRGGKEEVTTGEVYEVYKELCKELGVDPLTYTRIYDLLNELEMLGIIELRVS 60

Query: 483 KVGRDDKLKRVTLKADESDITFAL 506
             GR  + + ++L  D  D+  AL
Sbjct: 61  NRGRRGRTREISLNVDPDDVLEAL 84

The C terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8). It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity. Length = 84

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

 Score = 56.9 bits (138), Expect = 5e-10
 Identities = 30/133 (22%), Positives = 46/133 (34%), Gaps = 20/133 (15%)

Query: 147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL 206
             AG   + G  G+GK+  +      L        L    V  +   SL    ++  KIL
Sbjct: 2   RGAGIGVLTGESGSGKTTLLR----RLARQ-----LPNRRVVYVEAPSLGTPKDLLRKIL 52

Query: 207 LKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAV--LHDLFM 264
             L        +   L+ +       L        L+I DE  +L     A+  L DL+ 
Sbjct: 53  RALGLPLSGGTTAELLEAIL----DALKR--RGRPLLIIDEAQHL--SLEALEELRDLYD 104

Query: 265 LTTFPFSRFILIG 277
           L+       IL+G
Sbjct: 105 LSEKGIQ-VILVG 116

Length = 124

>gnl|CDD|220104 pfam09079, Cdc6_C, CDC6, C terminal

 Score = 54.2 bits (131), Expect = 2e-09
 Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 7/85 (8%)

Query: 429 LCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKV--- 484
           L +     + G   ++T GE+ + Y  +C+   + P+       +   L   G+L+    
Sbjct: 1   LYAIALLLKRGGTPEVTTGEVYEVYKELCEELGVDPLTQRRISDLLSELEMLGILETRVV 60

Query: 485 ---GRDDKLKRVTLKADESDITFAL 506
                  + K+++L  D  D+  AL
Sbjct: 61  SRGRGGGRTKKISLNVDPDDVLEAL 85

The C terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8). It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity. Length = 85

>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 = 53.7 bits (129), Expect = 1e-08
 Identities = 26/166 (15%), Positives = 46/166 (27%), Gaps = 29/166 (17%)

Query: 132 EQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN 191
            Q++ +E  ++ LE     +L + G PGTGK+     +       A E          +N
Sbjct: 2   GQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAI-------ANELFRPGAPFLYLN 54

Query: 192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYL 251
            + L     +                          +      +   K  ++  DE+D L
Sbjct: 55  ASDLLEGLVVAELFGHF------------------LVRLLFELAEKAKPGVLFIDEIDSL 96

Query: 252 ITRDRAVLHDL---FMLTTFPFSRFILIGIANAIDLADRFLPRLQS 294
               +  L  +               +IG  N   L       L  
Sbjct: 97  SRGAQNALLRVLETLNDLRIDRENVRVIGATN-RPLLGDLDRALYD 141

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|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated

 Score = 42.1 bits (99), Expect = 6e-04
 Identities = 26/56 (46%), Positives = 32/56 (57%), Gaps = 4/56 (7%)

Query: 318 ERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRES-VSKM 372
           ER++    I F+PQAL L AR   AA G MR ALS+   AI     E+ E+ VS M
Sbjct: 188 ERILGEERIAFEPQALRLLAR---AAQGSMRDALSLTDQAIAYSANEVTETAVSGM 240

Length = 830

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	517
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	100.0
PTZ00112	1164	origin recognition complex 1 protein; Provisional	100.0
KOG1514	767	consensus Origin recognition complex, subunit 1, a	100.0
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	100.0
PRK00411	394	cdc6 cell division control protein 6; Reviewed	100.0
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	100.0
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.94
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.94
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.92
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.92
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	99.91
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.9
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.89
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.89
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.87
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.86
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.86
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.85
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.85
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.85
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.84
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.84
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.84
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.84
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.83
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.83
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.83
PLN03025	319	replication factor C subunit; Provisional	99.82
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.82
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.81
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.81
CHL00195	489	ycf46 Ycf46; Provisional	99.8
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.8
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.8
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.8
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.8
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.8
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.8
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.79
KOG2028	554	consensus ATPase related to the helicase subunit o	99.79
CHL00176	638	ftsH cell division protein; Validated	99.79
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.79
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.79
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.79
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.78
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.78
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.78
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.78
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.78
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.77
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.77
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.77
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.77
PRK13342	413	recombination factor protein RarA; Reviewed	99.77
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.77
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.77
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.77
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.77
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.76
PRK04195	482	replication factor C large subunit; Provisional	99.76
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.76
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.75
PRK13341	725	recombination factor protein RarA/unknown domain f	99.75
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.75
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.75
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.74
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.74
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.74
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.74
PRK06893	229	DNA replication initiation factor; Validated	99.74
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.73
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.73
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.73
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.73
PRK12402	337	replication factor C small subunit 2; Reviewed	99.73
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.73
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.73
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.73
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.72
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.72
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.72
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.72
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.72
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.71
PRK08727	233	hypothetical protein; Validated	99.71
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.7
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.7
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.7
CHL00181	287	cbbX CbbX; Provisional	99.7
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.7
PRK08084	235	DNA replication initiation factor; Provisional	99.69
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.69
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.69
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.68
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.68
PHA02544	316	44 clamp loader, small subunit; Provisional	99.68
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.68
CHL00206	2281	ycf2 Ycf2; Provisional	99.68
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.67
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.67
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.67
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.67
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.67
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.67
CHL00095	821	clpC Clp protease ATP binding subunit	99.66
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.66
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.66
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.65
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.65
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.65
PRK05642	234	DNA replication initiation factor; Validated	99.64
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.63
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.63
PRK12422	445	chromosomal replication initiation protein; Provis	99.63
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.63
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.63
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.62
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.61
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.59
PRK04132	846	replication factor C small subunit; Provisional	99.58
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.58
PRK06620	214	hypothetical protein; Validated	99.56
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.55
PF00004	132	AAA: ATPase family associated with various cellula	99.55
PRK09087	226	hypothetical protein; Validated	99.55
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.54
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.53
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.53
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.53
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.52
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.52
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.52
PRK10865	857	protein disaggregation chaperone; Provisional	99.52
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.5
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.48
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.46
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	99.45
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.44
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.43
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.43
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.43
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.43
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	99.42
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.41
cd08768	87	Cdc6_C Winged-helix domain of essential DNA replic	99.41
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.41
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.4
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.39
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	99.38
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	99.37
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.36
PF09079	85	Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The	99.36
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.36
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.34
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.34
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.34
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.34
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.33
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.32
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.3
PRK10865	857	protein disaggregation chaperone; Provisional	99.3
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.29
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.29
CHL00095	821	clpC Clp protease ATP binding subunit	99.29
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	99.29
PRK13531	498	regulatory ATPase RavA; Provisional	99.28
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.28
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.28
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.27
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.27
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.27
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.24
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.24
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.24
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	99.23
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	99.23
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.21
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.21
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.21
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.2
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.2
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.18
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.18
COG0714	329	MoxR-like ATPases [General function prediction onl	99.17
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.16
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	99.16
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.14
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.13
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.12
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.1
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.1
smart00350	509	MCM minichromosome maintenance proteins.	99.09
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.08
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.08
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.07
PF14516	331	AAA_35: AAA-like domain	99.07
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.07
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.06
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.06
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.05
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	99.05
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.05
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.03
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.03
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.01
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.98
PRK13765	637	ATP-dependent protease Lon; Provisional	98.98
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.98
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.98
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.95
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.88
PRK15115	444	response regulator GlrR; Provisional	98.86
COG2204	464	AtoC Response regulator containing CheY-like recei	98.86
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.84
PHA02244	383	ATPase-like protein	98.84
PF05729	166	NACHT: NACHT domain	98.83
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.82
PF13173	128	AAA_14: AAA domain	98.82
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.81
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.81
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.8
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	98.8
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.79
PRK09862	506	putative ATP-dependent protease; Provisional	98.79
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.79
PRK08116	268	hypothetical protein; Validated	98.78
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.77
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	98.76
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.76
smart00382	148	AAA ATPases associated with a variety of cellular	98.75
PF14629	203	ORC4_C: Origin recognition complex (ORC) subunit 4	98.74
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.74
PRK12377	248	putative replication protein; Provisional	98.73
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.72
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.72
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.71
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.71
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.68
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.68
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.68
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.67
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.66
PF07726	131	AAA_3: ATPase family associated with various cellu	98.65
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	98.64
PRK07952	244	DNA replication protein DnaC; Validated	98.61
PRK08181	269	transposase; Validated	98.6
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.6
PRK06921	266	hypothetical protein; Provisional	98.6
PTZ00202	550	tuzin; Provisional	98.6
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.57
PRK06835	329	DNA replication protein DnaC; Validated	98.56
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.53
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.49
PRK14700	300	recombination factor protein RarA; Provisional	98.48
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	98.48
PRK06526	254	transposase; Provisional	98.42
PRK08939	306	primosomal protein DnaI; Reviewed	98.4
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.38
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.37
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.32
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.31
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.31
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.3
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	98.29
PRK04841	903	transcriptional regulator MalT; Provisional	98.28
PRK00771	437	signal recognition particle protein Srp54; Provisi	98.25
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.22
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.21
COG3899	849	Predicted ATPase [General function prediction only	98.2
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.19
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.18
PHA00729	226	NTP-binding motif containing protein	98.17
PRK09183	259	transposase/IS protein; Provisional	98.17
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.17
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.16
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	98.14
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.11
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.09
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.07
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.04
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.02
cd01128	249	rho_factor Transcription termination factor rho is	98.01
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.0
PRK13695	174	putative NTPase; Provisional	97.97
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	97.93
PRK06581	263	DNA polymerase III subunit delta'; Validated	97.86
PRK04296	190	thymidine kinase; Provisional	97.84
PRK12608	380	transcription termination factor Rho; Provisional	97.84
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	97.83
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.81
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	97.81
PRK10536	262	hypothetical protein; Provisional	97.8
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.79
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.75
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.74
TIGR00767	415	rho transcription termination factor Rho. Members	97.72
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	97.71
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.71
PRK14974	336	cell division protein FtsY; Provisional	97.71
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	97.68
PRK09376	416	rho transcription termination factor Rho; Provisio	97.68
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.66
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	97.66
PRK08485	206	DNA polymerase III subunit delta'; Validated	97.66
PRK10875	615	recD exonuclease V subunit alpha; Provisional	97.62
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.58
) 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	97.57
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	97.57
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.57
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.55
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	97.55
PHA02774	613	E1; Provisional	97.51
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.48
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.47
PRK15455	644	PrkA family serine protein kinase; Provisional	97.47
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	97.46
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.44
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.42
TIGR00959	428	ffh signal recognition particle protein. This mode	97.38
PRK10867	433	signal recognition particle protein; Provisional	97.37
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	97.35
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.34
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.32
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.3
PRK11823	446	DNA repair protein RadA; Provisional	97.3
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	97.28
COG1485	367	Predicted ATPase [General function prediction only	97.26
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.26
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	97.23
PF13245	76	AAA_19: Part of AAA domain	97.23
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.22
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.22
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.19
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.19
PRK08118	167	topology modulation protein; Reviewed	97.18
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.15
KOG0479	818	consensus DNA replication licensing factor, MCM3 c	97.14
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.14
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	97.12
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.12
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.12
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.12
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.12
PHA02624	647	large T antigen; Provisional	97.11
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	97.1
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.1
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.07
PRK07452	326	DNA polymerase III subunit delta; Validated	97.06
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.06
PTZ00494	664	tuzin-like protein; Provisional	97.02
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.0
KOG2383	467	consensus Predicted ATPase [General function predi	96.99
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.96
PRK06067	234	flagellar accessory protein FlaH; Validated	96.96
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.96
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.96
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.95
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.91
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.9
PRK06696	223	uridine kinase; Validated	96.88
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.87
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.87
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.87
PRK14712	1623	conjugal transfer nickase/helicase TraI; Provision	96.86
PRK05973	237	replicative DNA helicase; Provisional	96.83
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.82
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.81
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.8
PRK13826	1102	Dtr system oriT relaxase; Provisional	96.8
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	96.77
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.77
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.77
PF07034	330	ORC3_N: Origin recognition complex (ORC) subunit 3	96.76
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	96.76
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.76
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.76
PF13479	213	AAA_24: AAA domain	96.75
PRK07261	171	topology modulation protein; Provisional	96.75
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.75
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.75
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.74
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.73
PRK13709	1747	conjugal transfer nickase/helicase TraI; Provision	96.73
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.71
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.71
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.71
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.67
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.66
PRK14709	469	hypothetical protein; Provisional	96.64
PRK00131	175	aroK shikimate kinase; Reviewed	96.63
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.62
PRK13808	333	adenylate kinase; Provisional	96.6
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.58
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.56
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.55
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.53
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.53
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.52
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.51
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.51
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	96.5
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.49
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.49
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	96.49
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.46
PRK03839	180	putative kinase; Provisional	96.45
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.45
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.45
PRK00625	173	shikimate kinase; Provisional	96.44
PRK06547	172	hypothetical protein; Provisional	96.44
PRK10416	318	signal recognition particle-docking protein FtsY;	96.41
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	96.4
PRK04328	249	hypothetical protein; Provisional	96.38
PRK09354	349	recA recombinase A; Provisional	96.38
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	96.36
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.35
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.33
PRK10646	153	ADP-binding protein; Provisional	96.32
PRK14531	183	adenylate kinase; Provisional	96.3
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	96.29
PRK07078	759	hypothetical protein; Validated	96.29
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.28
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.28
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.27
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.26
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.25
PRK13947	171	shikimate kinase; Provisional	96.23
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.23
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.23
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.23
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.21
PRK06762	166	hypothetical protein; Provisional	96.2
PRK04040	188	adenylate kinase; Provisional	96.2
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.2
COG1067	647	LonB Predicted ATP-dependent protease [Posttransla	96.19
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.18
PRK13851	344	type IV secretion system protein VirB11; Provision	96.18
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.17
PRK14532	188	adenylate kinase; Provisional	96.17
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.16
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.15
PLN02200	234	adenylate kinase family protein	96.11
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.1
KOG1805	1100	consensus DNA replication helicase [Replication, r	96.09
PRK14530	215	adenylate kinase; Provisional	96.09
KOG1808	1856	consensus AAA ATPase containing von Willebrand fac	96.06
PRK05541	176	adenylylsulfate kinase; Provisional	96.05
PRK05629	318	hypothetical protein; Validated	96.05
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.02
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.02
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.01
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.01
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	96.0
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.0
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	95.98
COG1061	442	SSL2 DNA or RNA helicases of superfamily II [Trans	95.96
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.96
PRK06217	183	hypothetical protein; Validated	95.95
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.95
PRK13949	169	shikimate kinase; Provisional	95.92
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	95.92
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.91
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.91
PRK14527	191	adenylate kinase; Provisional	95.9
PRK08233	182	hypothetical protein; Provisional	95.89
PRK00889	175	adenylylsulfate kinase; Provisional	95.88
PRK00279	215	adk adenylate kinase; Reviewed	95.88
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.88
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	95.88
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.87
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.86
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.79
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.79
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	95.79
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.78
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.77
PTZ00088	229	adenylate kinase 1; Provisional	95.76
PRK11131	1294	ATP-dependent RNA helicase HrpA; Provisional	95.76
PRK10436	462	hypothetical protein; Provisional	95.75
PRK06851	367	hypothetical protein; Provisional	95.72
KOG0920	924	consensus ATP-dependent RNA helicase A [RNA proces	95.7
PLN02459	261	probable adenylate kinase	95.7
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.7
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.69
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.69
smart00178	184	SAR Sar1p-like members of the Ras-family of small	95.68
PLN02674	244	adenylate kinase	95.68
PRK02496	184	adk adenylate kinase; Provisional	95.67
PRK14528	186	adenylate kinase; Provisional	95.66
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	95.65
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.64
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.63
TIGR00376	637	DNA helicase, putative. The gene product may repre	95.61
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	95.59
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.58
PF13555	62	AAA_29: P-loop containing region of AAA domain	95.58
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	95.57
COG0802	149	Predicted ATPase or kinase [General function predi	95.56
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	95.55
TIGR01587	358	cas3_core CRISPR-associated helicase Cas3. This mo	95.55

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

Probab=100.00  E-value=4.5e-61  Score=470.52  Aligned_cols=449  Identities=40%  Similarity=0.585  Sum_probs=375.8

Q ss_pred             CCCCCCCcCCCC--------CCcCCCCCCCCCcchhhhHHHHhhhhcCCCchhhhhhhhccCCCCCCCChhHHHHHHhhc
Q 010136           46 SPISTPMKLKPP--------RRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREAL  117 (517)
Q Consensus        46 ~~~~~p~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  117 (517)
                      .|.++|.|+|..        +++..++|++.......+.|+.+++..-.. ...-.+.......|+|.+.+.-..+.+.+
T Consensus        65 ~p~s~P~k~K~~~~P~~~~~~rl~~~~~kt~~~~ske~ln~~~~np~~~~-~~~p~r~~s~~~~~~p~~ke~~~~~~~~l  143 (529)
T KOG2227|consen   65 PPLSSPEKLKLGLSPGHSDRRRLIISRPKTIKQESKEDLNKQLENPVDPE-GSLPARTASYETPMNPSAKEISEQRSESL  143 (529)
T ss_pred             CCCCCHHHhccCCCCCCCCcccccccchhhhcccChhHHhhhhcCCCccc-ccCchhhcCcccCCCcccHHHHHHHHHHH
Confidence            577788888888        777778888777666666665544443211 22122233334456777777888888888


Q ss_pred             CcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          118 HVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       118 ~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      ...+.|..++||+.|+..+..|+..++....++++|++|.||||||.+...++..+..+..     .+.++|+||++++.
T Consensus       144 ~~t~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~-----~~~~v~inc~sl~~  218 (529)
T KOG2227|consen  144 LNTAPPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSK-----SPVTVYINCTSLTE  218 (529)
T ss_pred             HhcCCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcc-----cceeEEEeeccccc
Confidence            8999999999999999999999999999999999999999999999999999988887653     25689999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          198 TSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       198 ~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +..+|..|+..+.........   ...+...|..+.. ....+.||++||+|+|..+.+.+||.||+|+..+++++++||
T Consensus       219 ~~aiF~kI~~~~~q~~~s~~~---~~~~~~~~~~h~~-q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiG  294 (529)
T KOG2227|consen  219 ASAIFKKIFSSLLQDLVSPGT---GMQHLEKFEKHTK-QSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIG  294 (529)
T ss_pred             hHHHHHHHHHHHHHHhcCCch---hHHHHHHHHHHHh-cccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeee
Confidence            999999999998433322111   2444455554443 234789999999999999999999999999999999999999


Q ss_pred             EECCCCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          278 IANAIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       278 ian~~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                      ++|.+|+.++++|+|..+ .+.+..+.|+||+.+|+.+||.+|+.......|-+.++++||+++++.+||+|+|+++|++
T Consensus       295 iANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~  374 (529)
T KOG2227|consen  295 IANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRR  374 (529)
T ss_pred             ehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            999999999999999994 5789999999999999999999999977777788899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHHHHHHHHH
Q 010136          357 AIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFF  436 (517)
Q Consensus       357 A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL~al~~l~  436 (517)
                      |+++|+.+.+...+....   ....|+.         .+.|.++||..+++.++.++......+||.||+++||.++.++
T Consensus       375 aiEI~E~e~r~~~~~~l~---~~~~p~~---------~~~v~~~~va~viSk~~~s~~~~s~~slplqqkiilctl~~l~  442 (529)
T KOG2227|consen  375 AIEIAEIEKRKILDDPLS---PGTSPEK---------KKKVGVEHVAAVISKVDGSPSARSRESLPLQQKIILCTLVLLI  442 (529)
T ss_pred             HHHHHHHHHhhccccCCC---CCCCccc---------ccccchHHHHHHhhhhccChhhhhhhhcCcccchhHHHHHHHH
Confidence            999999998874211110   0011111         0379999999999999999988888899999999999999999


Q ss_pred             hcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec--cCCceeEEEeecCHHHHHHHHhCChhhhh
Q 010136          437 RGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG--RDDKLKRVTLKADESDITFALQGVRFFRN  514 (517)
Q Consensus       437 ~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~--~~~~~~~~~l~~~~~~i~~~l~~~~~~~~  514 (517)
                      ++.+.+++++++|+.|.++|+...+.|++.+||..+|+.|+++||+.+.  +.++.++|.|.||++||+.||.+...+..
T Consensus       443 r~~kkd~s~~eL~e~Y~k~C~~~~I~~ld~tEF~~i~~ilet~gil~l~~~k~~kl~kv~l~vde~~i~~Al~D~~l~~~  522 (529)
T KOG2227|consen  443 RGNKKDVSIAELYEAYLKACQKREIAPLDRTEFLSICDILETQGILRLRRKKEPKLKKVVLQVDEDDIMRALSDKALLIS  522 (529)
T ss_pred             hcccccccHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHhhhHHHHhhhcCCccceEEEecchHHHHHHHhHHHHHHH
Confidence            8877899999999999999999999999999999999999999999877  68999999999999999999999988877


Q ss_pred             hc
Q 010136          515 CL  516 (517)
Q Consensus       515 ~~  516 (517)
                      +|
T Consensus       523 il  524 (529)
T KOG2227|consen  523 IL  524 (529)
T ss_pred             hc
Confidence            65

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=100.00  E-value=9.2e-53  Score=440.28  Aligned_cols=373  Identities=27%  Similarity=0.406  Sum_probs=323.0

Q ss_pred             hHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCce
Q 010136          108 EQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPE  186 (517)
Q Consensus       108 ~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~  186 (517)
                      +.+..|+.+|+++|+|+.|+|||+|+++|..+|..++.+..+++ +||+|+||||||++++.|+++|.+.....+.+.+.
T Consensus       739 ~p~~~A~rvL~~DYVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~  818 (1164)
T PTZ00112        739 DPTDKAIRMMQLDVVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFN  818 (1164)
T ss_pred             ChHHHHHHHcCcccCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCce
Confidence            35678999999999999999999999999999999998666554 68999999999999999999998777666766689


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       187 ~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                      ++||||+.+.+++.+|..|+.+|.+..+ ..+....+.+..+|.... .......||||||||.|....+++||.|++|.
T Consensus       819 vVYINCm~Lstp~sIYqvI~qqL~g~~P-~~GlsS~evLerLF~~L~-k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~  896 (1164)
T PTZ00112        819 VFEINGMNVVHPNAAYQVLYKQLFNKKP-PNALNSFKILDRLFNQNK-KDNRNVSILIIDEIDYLITKTQKVLFTLFDWP  896 (1164)
T ss_pred             EEEEeCCccCCHHHHHHHHHHHHcCCCC-CccccHHHHHHHHHhhhh-cccccceEEEeehHhhhCccHHHHHHHHHHHh
Confidence            9999999999999999999999965543 345555677888876321 22345679999999999988889999999998


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      ....++++||||+|+++++++++++++|| +...+|.|+||+.+|+.+||..|+... ...++++++++||++++..+||
T Consensus       897 ~~s~SKLiLIGISNdlDLperLdPRLRSR-Lg~eeIvF~PYTaEQL~dILk~RAe~A-~gVLdDdAIELIArkVAq~SGD  974 (1164)
T PTZ00112        897 TKINSKLVLIAISNTMDLPERLIPRCRSR-LAFGRLVFSPYKGDEIEKIIKERLENC-KEIIDHTAIQLCARKVANVSGD  974 (1164)
T ss_pred             hccCCeEEEEEecCchhcchhhhhhhhhc-cccccccCCCCCHHHHHHHHHHHHHhC-CCCCCHHHHHHHHHhhhhcCCH
Confidence            77788999999999999999999999999 777789999999999999999999854 3689999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHH
Q 010136          347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQ  426 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k  426 (517)
                      +|+||++|+.|++++.   ..                            .|+.+||.+|+.+++.+++.+.|.+||.|+|
T Consensus       975 ARKALDILRrAgEike---gs----------------------------kVT~eHVrkAleeiE~srI~e~IktLPlHqK 1023 (1164)
T PTZ00112        975 IRKALQICRKAFENKR---GQ----------------------------KIVPRDITEATNQLFDSPLTNAINYLPWPFK 1023 (1164)
T ss_pred             HHHHHHHHHHHHhhcC---CC----------------------------ccCHHHHHHHHHHHHhhhHHHHHHcCCHHHH
Confidence            9999999999998631   11                            6999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc-CCCCccHHHHHHHHHHHHH----hcCCCCCChHHHHHHHHHHhhcCceeec----------------
Q 010136          427 ILLCSAVKFFRG-GKKDMTVGELNKSYMNICK----TSLIPPVGTLEFFSMCRVLHDQGVLKVG----------------  485 (517)
Q Consensus       427 ~iL~al~~l~~~-~~~~~~~~~l~~~y~~~~~----~~~~~~~~~~~~~~~~~~L~~~glI~~~----------------  485 (517)
                      ++|+|++.+... +...+++++||+.|..+|+    .+++.|+++ .|..++.+|..+|||-+.                
T Consensus      1024 LVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk~iGv~plTq-RV~d~L~eL~~LGIIl~ep~~~~~~~~~~~~~~~ 1102 (1164)
T PTZ00112       1024 MFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGKYIGMCSNNE-LFKIMLDKLVKMGILLIRPYIPLESLAKNKNKEA 1102 (1164)
T ss_pred             HHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhhhcCCCCcHH-HHHHHHHHHHhcCeEEecCCCchhhhhcccchhh
Confidence            999999988765 4547999999999999999    667899999 999999999999999743                


Q ss_pred             ---------c---CC-c---------------eeEEEeecCHHHHHHHHhCChhhhhhc
Q 010136          486 ---------R---DD-K---------------LKRVTLKADESDITFALQGVRFFRNCL  516 (517)
Q Consensus       486 ---------~---~~-~---------------~~~~~l~~~~~~i~~~l~~~~~~~~~~  516 (517)
                               +   .+ +               -+-+.|+++...|..||-+||++..-|
T Consensus      1103 ~~~~~~~~~~~~~~~~k~~~~~v~~~i~~~~gd~g~~~~~~~~~~~tal~~d~~~~~~l 1161 (1164)
T PTZ00112       1103 LLGFNESSKKNANETSKSTRTQVSAEIDKESGDMGLELNVETQLIITALMKDAECSQKL 1161 (1164)
T ss_pred             hhcccchhccccCccccccccccchhhhhhccccceeeeccHhHHHHHHhhCHhHHhhc
Confidence                     0   00 0               123789999999999999999987644

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=100.00  E-value=7.6e-52  Score=422.81  Aligned_cols=380  Identities=29%  Similarity=0.460  Sum_probs=337.2

Q ss_pred             hHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCce
Q 010136          108 EQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPE  186 (517)
Q Consensus       108 ~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~  186 (517)
                      ..++.+++.|+.+.+|+.|+|||.|+.+|..|+..++.. +.+.++||+|.||||||++++.|.++|.....+...+.|.
T Consensus       380 S~l~~ara~Lhls~vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~  459 (767)
T KOG1514|consen  380 SELSKARARLHLSAVPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD  459 (767)
T ss_pred             hHHHHHHHHhHHhhccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc
Confidence            457889999999999999999999999999999999987 4566999999999999999999999999999999999999


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       187 ~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                      |++||++.+.++.++|..||.++.+....+.  ...+.|...|.  .......++||+|||.|.|.++.|++||++|+|+
T Consensus       460 yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~--~al~~L~~~f~--~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWp  535 (767)
T KOG1514|consen  460 YVEINGLRLASPREIYEKIWEALSGERVTWD--AALEALNFRFT--VPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWP  535 (767)
T ss_pred             EEEEcceeecCHHHHHHHHHHhcccCcccHH--HHHHHHHHhhc--cCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCC
Confidence            9999999999999999999999988776542  33677888886  4456778899999999999999999999999999


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcc-cccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLP-RLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG  345 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~-~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G  345 (517)
                      ..++++++||+++|++|++++++. ++-|| ++..+|.|.||+++|+.+|+..||.++  ..|..++++++|+++++.+|
T Consensus       536 t~~~sKLvvi~IaNTmdlPEr~l~nrvsSR-lg~tRi~F~pYth~qLq~Ii~~RL~~~--~~f~~~aielvarkVAavSG  612 (767)
T KOG1514|consen  536 TLKNSKLVVIAIANTMDLPERLLMNRVSSR-LGLTRICFQPYTHEQLQEIISARLKGL--DAFENKAIELVARKVAAVSG  612 (767)
T ss_pred             cCCCCceEEEEecccccCHHHHhccchhhh-ccceeeecCCCCHHHHHHHHHHhhcch--hhcchhHHHHHHHHHHhccc
Confidence            999999999999999999999865 88888 888999999999999999999999987  68999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHH
Q 010136          346 DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQ  425 (517)
Q Consensus       346 d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~  425 (517)
                      |+|+|+++|++|.++|..+......       .  .            ...|++.||.+|+++++.++....+++|+.+|
T Consensus       613 DaRraldic~RA~Eia~~~~~~~k~-------~--~------------~q~v~~~~v~~Ai~em~~~~~~~~i~glS~~~  671 (767)
T KOG1514|consen  613 DARRALDICRRAAEIAEERNVKGKL-------A--V------------SQLVGILHVMEAINEMLASPYIKALKGLSFLQ  671 (767)
T ss_pred             cHHHHHHHHHHHHHHhhhhcccccc-------c--c------------cceeehHHHHHHHHHHhhhhHHHHhcchHHHH
Confidence            9999999999999999887652100       0  0            11799999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhc-CCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHH--HHHhhcCceeec--cCCceeEEEeecCHH
Q 010136          426 QILLCSAVKFFRG-GKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMC--RVLHDQGVLKVG--RDDKLKRVTLKADES  500 (517)
Q Consensus       426 k~iL~al~~l~~~-~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~--~~L~~~glI~~~--~~~~~~~~~l~~~~~  500 (517)
                      +++|+|++...++ +..+.++.+||..|..+|+..+-.-.+...+..+|  +.|...+|+-..  +..+..+++|+++..
T Consensus       672 k~fl~ai~~e~~~~g~~e~~~~~v~~~~~~i~~~~~~~~~~~~~~~~i~~~~~l~~e~l~l~~~~~~~r~~~v~L~~~~~  751 (767)
T KOG1514|consen  672 KIFLTAIVAETEGTGLEEATLDEVYSEVVTICRKNGGPKPSSDIAKVICGVNDLGSERLVLVEPEENDRSLRVKLNIPSD  751 (767)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHhcCCCCccHHHHHHHHhhhhccccceEEEecCccchhhhhhcCCCHH
Confidence            9999999998876 77889999999999999998865444444455556  777777777554  677899999999999


Q ss_pred             HHHHHHhCChhhhhh
Q 010136          501 DITFALQGVRFFRNC  515 (517)
Q Consensus       501 ~i~~~l~~~~~~~~~  515 (517)
                      |+..||++|..|+++
T Consensus       752 ei~~A~~~d~e~~~~  766 (767)
T KOG1514|consen  752 EIKYALKDDEELANM  766 (767)
T ss_pred             HHHHHhhcchhhccC
Confidence            999999999999876

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

Probab=100.00  E-value=1.4e-50  Score=405.77  Aligned_cols=355  Identities=28%  Similarity=0.391  Sum_probs=317.0

Q ss_pred             HHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEE
Q 010136          111 SAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI  190 (517)
Q Consensus       111 ~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~v  190 (517)
                      +.+++.|.++|+|+.+++|+.|++++..+|.+.+.++.+.+++|+|+||||||++++.+++++.+....     ..++||
T Consensus         4 ~~n~~vl~~~~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~-----~~~~yI   78 (366)
T COG1474           4 FKNKDVLLEDYIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSAN-----VEVVYI   78 (366)
T ss_pred             cccccccCCCCCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhcc-----CceEEE
Confidence            456778999999999999999999999999999999999999999999999999999999999876432     238999


Q ss_pred             eCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCC
Q 010136          191 NCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF  270 (517)
Q Consensus       191 n~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~  270 (517)
                      ||..+.+++++|..|+.+++.  .+..|.+..+.+..+++ . ....+...||+|||+|.|..+.++.||.|++|.....
T Consensus        79 Nc~~~~t~~~i~~~i~~~~~~--~p~~g~~~~~~~~~l~~-~-~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~  154 (366)
T COG1474          79 NCLELRTPYQVLSKILNKLGK--VPLTGDSSLEILKRLYD-N-LSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENK  154 (366)
T ss_pred             eeeeCCCHHHHHHHHHHHcCC--CCCCCCchHHHHHHHHH-H-HHhcCCeEEEEEcchhhhccccchHHHHHHhhccccc
Confidence            999999999999999999972  22234444444444443 1 2246788999999999999988899999999987778


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-hhccCCCChhHHHHHHHHHHHHhCCHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-ELSYIVFQPQALELCARKVAAASGDMRK  349 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-~~~~~~~~~~ai~~ia~~~~~~~Gd~R~  349 (517)
                      +++++|+++|+.++.+.++++++|+ +++..|.|+||+.+|+.+||..|++ ++....++++++++||..++..+||+|+
T Consensus       155 ~~v~vi~i~n~~~~~~~ld~rv~s~-l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~  233 (366)
T COG1474         155 VKVSIIAVSNDDKFLDYLDPRVKSS-LGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARK  233 (366)
T ss_pred             eeEEEEEEeccHHHHHHhhhhhhhc-cCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHH
Confidence            9999999999999999999999999 7888999999999999999999998 6888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHH
Q 010136          350 ALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILL  429 (517)
Q Consensus       350 al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL  429 (517)
                      |+++|+.|+++|+.++..                            .|+.+|+.+|..++......+.++.||.|+|++|
T Consensus       234 aidilr~A~eiAe~~~~~----------------------------~v~~~~v~~a~~~~~~~~~~~~~~~L~~~~ki~L  285 (366)
T COG1474         234 AIDILRRAGEIAEREGSR----------------------------KVSEDHVREAQEEIERDVLEEVLKTLPLHQKIVL  285 (366)
T ss_pred             HHHHHHHHHHHHHhhCCC----------------------------CcCHHHHHHHHHHhhHHHHHHHHHcCCHhHHHHH
Confidence            999999999999998877                            8999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCceeEEEeecCHHHHHH
Q 010136          430 CSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKLKRVTLKADESDITF  504 (517)
Q Consensus       430 ~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~~~~~l~~~~~~i~~  504 (517)
                      ++++...    ..++++++|+.|..+|+..+.   ++.+|.++++.|+.+|+|...     .+|+.+.+.+..+++.+..
T Consensus       286 ~~i~~~~----~~~~~~~~y~~y~~~~~~~~~---~~~~~~~ii~~L~~lgiv~~~~~~~g~~g~~~~i~~~~~~~~~~~  358 (366)
T COG1474         286 LAIVELT----VEISTGELYDVYESLCERLRT---SQRRFSDIISELEGLGIVSASLISRGERGRTREISLDLDPEVIRE  358 (366)
T ss_pred             HHHHHhc----CCCChHHHHHHHHHHHhhhCc---hHHHHHHHHHHHHhcCeEEeeeccCCCcCceeEeeecCCHHHHHH
Confidence            9998764    678999999999999999877   889999999999999999865     4678899999999988888


Q ss_pred             HHhCCh
Q 010136          505 ALQGVR  510 (517)
Q Consensus       505 ~l~~~~  510 (517)
                      ++..+.
T Consensus       359 ~~~~~~  364 (366)
T COG1474         359 ILKLDL  364 (366)
T ss_pred             HHHhhh
Confidence            887653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=100.00  E-value=2.2e-48  Score=402.17  Aligned_cols=370  Identities=22%  Similarity=0.347  Sum_probs=318.3

Q ss_pred             HHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE
Q 010136          110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS  189 (517)
Q Consensus       110 ~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~  189 (517)
                      ++..+..|+++++|+.++||++|+++|..++...+.+..+++++|+||||||||++++.+++++....     +.+.+++
T Consensus        16 ~~~~~~~l~~~~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~-----~~~~~v~   90 (394)
T PRK00411         16 IFKDEEVLEPDYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIA-----VKVVYVY   90 (394)
T ss_pred             eeCChhhCCCCCcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhc-----CCcEEEE
Confidence            66778889999999999999999999999999988877888999999999999999999999886532     2367999


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc-ccCchHHHHHhccC-C
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI-TRDRAVLHDLFMLT-T  267 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~-~~~~~~L~~l~~~~-~  267 (517)
                      +||....+.+.++..++.++.+......+.+..+.+..+..  .....+.+.||+|||+|.+. ...++.|+.++++. .
T Consensus        91 in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~  168 (394)
T PRK00411         91 INCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAE--YLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE  168 (394)
T ss_pred             EECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH--HHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc
Confidence            99999999999999999999764333334343333333332  12235667999999999998 44578899998864 3


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-hhccCCCChhHHHHHHHHHHHHhCC
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-ELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      ....++.+|+++|+.++.+.+++++.++ +....|.|+||+.+|+.+|++.++. ++....++++++++|++.++..+||
T Consensus       169 ~~~~~v~vI~i~~~~~~~~~l~~~~~s~-~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd  247 (394)
T PRK00411        169 YPGARIGVIGISSDLTFLYILDPRVKSV-FRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGD  247 (394)
T ss_pred             cCCCeEEEEEEECCcchhhhcCHHHHhc-CCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCc
Confidence            3455899999999999888889999998 7778999999999999999999986 4445678999999999999888999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHH
Q 010136          347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQ  426 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k  426 (517)
                      +|.|+++|+.|+++|..++..                            .|+.+||.+|+..+..+.....+.+||.+||
T Consensus       248 ~r~a~~ll~~a~~~a~~~~~~----------------------------~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k  299 (394)
T PRK00411        248 ARVAIDLLRRAGLIAEREGSR----------------------------KVTEEDVRKAYEKSEIVHLSEVLRTLPLHEK  299 (394)
T ss_pred             HHHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Confidence            999999999999998876655                            7999999999999988888899999999999


Q ss_pred             HHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCceeEEEeecCHHH
Q 010136          427 ILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKLKRVTLKADESD  501 (517)
Q Consensus       427 ~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~~~~~l~~~~~~  501 (517)
                      ++|+||+.+.+.+...++++++|+.|..+|+.++++|+++++|+++|+.|+++|||...     ++|+++.|+|.+++++
T Consensus       300 ~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~~~~~~~~~l~~L~~~glI~~~~~~~g~~g~~~~~~~~~~~~~  379 (394)
T PRK00411        300 LLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPRTHTRFYEYINKLDMLGIINTRYSGKGGRGRTRLISLSYDPED  379 (394)
T ss_pred             HHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHhcCCeEEEEecCCCCCCeEEEEecCCHHH
Confidence            99999998875444579999999999999999999999999999999999999999853     5789999999999999


Q ss_pred             HHHHHhCChhhhhh
Q 010136          502 ITFALQGVRFFRNC  515 (517)
Q Consensus       502 i~~~l~~~~~~~~~  515 (517)
                      |.+++..++.|+.+
T Consensus       380 ~~~~~~~~~~~~~~  393 (394)
T PRK00411        380 VLERLLEDYILKRL  393 (394)
T ss_pred             HHHHHHhhhhhhhc
Confidence            99999999988753

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=100.00  E-value=7.2e-48  Score=394.35  Aligned_cols=353  Identities=22%  Similarity=0.366  Sum_probs=301.8

Q ss_pred             HHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEE
Q 010136          111 SAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI  190 (517)
Q Consensus       111 ~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~v  190 (517)
                      +..++.|+++|+|+.++||++|++.|..+|..++.+..+++++|+||||||||++++.+++++.+.....+.+ +.++++
T Consensus         2 ~~~~~~l~~~~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~-~~~v~i   80 (365)
T TIGR02928         2 FRNRDLLEPDYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVR-VVTVYV   80 (365)
T ss_pred             cCChhhCCCCCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCc-eEEEEE
Confidence            4567899999999999999999999999999988877888999999999999999999999987655443443 689999


Q ss_pred             eCCCCCCHHHHHHHHHHHhCC--CCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhcc---
Q 010136          191 NCTSLTNTSEIFSKILLKLQP--RKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFML---  265 (517)
Q Consensus       191 n~~~~~s~~~i~~~i~~~l~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~---  265 (517)
                      ||....+.+.++..|+.++..  ......+.+..+.+..++..  .....++.||+|||+|.|....++.|+.|++|   
T Consensus        81 n~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~--l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~  158 (365)
T TIGR02928        81 NCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKE--LNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSN  158 (365)
T ss_pred             ECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHH--HHhcCCeEEEEECchhhhccCCcHHHHhHhccccc
Confidence            999999999999999999952  22222233333444444431  22345678999999999986667889999988   


Q ss_pred             CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-hhccCCCChhHHHHHHHHHHHHh
Q 010136          266 TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-ELSYIVFQPQALELCARKVAAAS  344 (517)
Q Consensus       266 ~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-~~~~~~~~~~ai~~ia~~~~~~~  344 (517)
                      ...++.++.+|+++|..++.+.+++++.++ |.+..+.|+||+.+|+.+||..++. ++....+++++++++++.++...
T Consensus       159 ~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~-~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~  237 (365)
T TIGR02928       159 GDLDNAKVGVIGISNDLKFRENLDPRVKSS-LCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEH  237 (365)
T ss_pred             cCCCCCeEEEEEEECCcchHhhcCHHHhcc-CCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhc
Confidence            344557899999999998888899999998 7777999999999999999999997 55556799999999999888889


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHH
Q 010136          345 GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQH  424 (517)
Q Consensus       345 Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~  424 (517)
                      ||+|.|+++|+.|+++|..++..                            .|+.+||.+|++.+..+...+.+.+||.+
T Consensus       238 Gd~R~al~~l~~a~~~a~~~~~~----------------------------~it~~~v~~a~~~~~~~~~~~~i~~l~~~  289 (365)
T TIGR02928       238 GDARKAIDLLRVAGEIAEREGAE----------------------------RVTEDHVEKAQEKIEKDRLLELIRGLPTH  289 (365)
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999876654                            79999999999999888889999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCceeEEEe
Q 010136          425 QQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKLKRVTL  495 (517)
Q Consensus       425 ~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~~~~~l  495 (517)
                      ++++|++++.+...+...++++++|+.|..+|+..+++|+++++|.++|+.|+.+|||+..     ++|+++.|+|
T Consensus       290 ~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~l~~l~~~gli~~~~~~~g~~g~~~~~~~  365 (365)
T TIGR02928       290 SKLVLLAIANLAANDEDPFRTGEVYEVYKEVCEDIGVDPLTQRRISDLLNELDMLGLVEAEERNKGRGGRTREYSL  365 (365)
T ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHhcCCeEEEEEcCCCCCcEEEEeC
Confidence            9999999999887666779999999999999999999999999999999999999999865     5778877764

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.

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

Probab=99.94  E-value=3.1e-26  Score=220.23  Aligned_cols=258  Identities=17%  Similarity=0.158  Sum_probs=195.2

Q ss_pred             hhhhccCCCCCCCChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCC--CCeEEEEcCCCCcHHHHHHHHH
Q 010136           93 CDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEK--AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~--~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      ++.+.+.|+..|+|+..+..++++|++..+             +.-++-.++++..  -.++|++||||||||+||++|+
T Consensus       200 rdIl~~np~ikW~DIagl~~AK~lL~EAVv-------------lPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvA  266 (491)
T KOG0738|consen  200 RDILQRNPNIKWDDIAGLHEAKKLLKEAVV-------------LPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVA  266 (491)
T ss_pred             HHHhccCCCcChHhhcchHHHHHHHHHHHh-------------hhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHH
Confidence            667788899999999999999999988765             4445555555443  4589999999999999999999


Q ss_pred             HHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcch
Q 010136          171 HYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDY  250 (517)
Q Consensus       171 ~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~  250 (517)
                      .+++          ..|+.|+.+.+.+++.                 |.+ ++.++-+|+   +++.+.|.+|||||||.
T Consensus       267 TEc~----------tTFFNVSsstltSKwR-----------------GeS-EKlvRlLFe---mARfyAPStIFiDEIDs  315 (491)
T KOG0738|consen  267 TECG----------TTFFNVSSSTLTSKWR-----------------GES-EKLVRLLFE---MARFYAPSTIFIDEIDS  315 (491)
T ss_pred             Hhhc----------CeEEEechhhhhhhhc-----------------cch-HHHHHHHHH---HHHHhCCceeehhhHHH
Confidence            9986          3799999999888776                 555 788888887   66788999999999999


Q ss_pred             hcccCc------------hHHHHHhccC--CCCCCc-EEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHH
Q 010136          251 LITRDR------------AVLHDLFMLT--TFPFSR-FILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRI  315 (517)
Q Consensus       251 L~~~~~------------~~L~~l~~~~--~~~~~~-v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~I  315 (517)
                      |+..+.            ..|...++-.  ...+.+ |.|+++||   ++|.|+.++++| |. .+|+++-++.+....+
T Consensus       316 lcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN---~PWdiDEAlrRR-lE-KRIyIPLP~~~~R~~L  390 (491)
T KOG0738|consen  316 LCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATN---FPWDIDEALRRR-LE-KRIYIPLPDAEARSAL  390 (491)
T ss_pred             HHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEEEeccC---CCcchHHHHHHH-Hh-hheeeeCCCHHHHHHH
Confidence            997632            1233333432  222333 55666666   999999999999 64 5899999999999999


Q ss_pred             HHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCc
Q 010136          316 LQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNS  395 (517)
Q Consensus       316 L~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  395 (517)
                      |...+...  ...++-.++.++++..+++|+  ..-++|+.|...+++....          .....++.+++.++.. .
T Consensus       391 i~~~l~~~--~~~~~~~~~~lae~~eGySGa--DI~nvCreAsm~~mRR~i~----------g~~~~ei~~lakE~~~-~  455 (491)
T KOG0738|consen  391 IKILLRSV--ELDDPVNLEDLAERSEGYSGA--DITNVCREASMMAMRRKIA----------GLTPREIRQLAKEEPK-M  455 (491)
T ss_pred             HHHhhccc--cCCCCccHHHHHHHhcCCChH--HHHHHHHHHHHHHHHHHHh----------cCCcHHhhhhhhhccc-c
Confidence            99887754  234455588899999999995  3337999999999987665          2222333444444444 3


Q ss_pred             cccHHHHHHHHHHhccChh
Q 010136          396 QVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       396 ~Vt~~~v~~a~~~~~~~~~  414 (517)
                      .|++.||+.|+.++..+..
T Consensus       456 pv~~~Dfe~Al~~v~pSvs  474 (491)
T KOG0738|consen  456 PVTNEDFEEALRKVRPSVS  474 (491)
T ss_pred             ccchhhHHHHHHHcCcCCC
Confidence            5999999999999887753

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

Probab=99.94  E-value=6.2e-26  Score=217.00  Aligned_cols=225  Identities=19%  Similarity=0.236  Sum_probs=176.5

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      ...+.+-|.++|+++|.+.+.--+..         .++.++++|||||||||.+|++|+++-.          ..|+.|.
T Consensus       148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~----------AtFIrvv  217 (406)
T COG1222         148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTD----------ATFIRVV  217 (406)
T ss_pred             CChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccC----------ceEEEec
Confidence            34457899999999999997654432         3478999999999999999999998754          4799999


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~  260 (517)
                      ++.+..+|-                 |.. ...++++|.   +++.+.|+||||||||.+..++           |..|.
T Consensus       218 gSElVqKYi-----------------GEG-aRlVRelF~---lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTml  276 (406)
T COG1222         218 GSELVQKYI-----------------GEG-ARLVRELFE---LAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTML  276 (406)
T ss_pred             cHHHHHHHh-----------------ccc-hHHHHHHHH---HHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHH
Confidence            977643333                 333 677899997   6678999999999999998653           34455


Q ss_pred             HHhccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          261 DLFMLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       261 ~l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      +|+...  -.+..+|-||++||.   ++-|+|++.+.+...+.|.|+.++.+...+||+-...+.  ..-++-.++.+|+
T Consensus       277 eLL~qlDGFD~~~nvKVI~ATNR---~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM--~l~~dvd~e~la~  351 (406)
T COG1222         277 ELLNQLDGFDPRGNVKVIMATNR---PDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM--NLADDVDLELLAR  351 (406)
T ss_pred             HHHHhccCCCCCCCeEEEEecCC---ccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhc--cCccCcCHHHHHH
Confidence            555431  235678999999996   556789998875557899999999999999999887754  2223334888998


Q ss_pred             HHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          339 KVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       339 ~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      .....+| |++   .+|.+|+.+|.++.+.                            .||++||.+|+.++...
T Consensus       352 ~~~g~sGAdlk---aictEAGm~AiR~~R~----------------------------~Vt~~DF~~Av~KV~~~  395 (406)
T COG1222         352 LTEGFSGADLK---AICTEAGMFAIRERRD----------------------------EVTMEDFLKAVEKVVKK  395 (406)
T ss_pred             hcCCCchHHHH---HHHHHHhHHHHHhccC----------------------------eecHHHHHHHHHHHHhc
Confidence            8777777 555   6899999999999988                            89999999999988653

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

Probab=99.92  E-value=3.4e-24  Score=219.47  Aligned_cols=259  Identities=18%  Similarity=0.210  Sum_probs=193.1

Q ss_pred             HhhhhcCCCchhhhhhhhccCCCCCCCChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCC
Q 010136           79 KLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCP  158 (517)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~p  158 (517)
                      ++...........+++.+.+.|+++|.|++.+...+..|+.....   +.+.     -..|..-.  -..+.++++||||
T Consensus       408 ~~~~A~~~i~psa~Re~~ve~p~v~W~dIGGlE~lK~elq~~V~~---p~~~-----pe~F~r~G--i~ppkGVLlyGPP  477 (693)
T KOG0730|consen  408 IFQEALMGIRPSALREILVEMPNVSWDDIGGLEELKRELQQAVEW---PLKH-----PEKFARFG--ISPPKGVLLYGPP  477 (693)
T ss_pred             HHHHHHhcCCchhhhheeccCCCCChhhccCHHHHHHHHHHHHhh---hhhc-----hHHHHHhc--CCCCceEEEECCC
Confidence            344444444455567777788888888887777777766654321   1111     11111111  1368899999999


Q ss_pred             CCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCC
Q 010136          159 GTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVM  238 (517)
Q Consensus       159 GtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  238 (517)
                      |||||+++++++++..          ..|++|.+..+-++|.                 |.+ ++.+++.|.+   ++..
T Consensus       478 GC~KT~lAkalAne~~----------~nFlsvkgpEL~sk~v-----------------GeS-Er~ir~iF~k---AR~~  526 (693)
T KOG0730|consen  478 GCGKTLLAKALANEAG----------MNFLSVKGPELFSKYV-----------------GES-ERAIREVFRK---ARQV  526 (693)
T ss_pred             CcchHHHHHHHhhhhc----------CCeeeccCHHHHHHhc-----------------Cch-HHHHHHHHHH---Hhhc
Confidence            9999999999999875          4799999988766665                 555 8899999984   4567


Q ss_pred             ceEEEEEeCcchhcccC--------chHHHHHhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCC
Q 010136          239 KMMLIIADELDYLITRD--------RAVLHDLFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~--------~~~L~~l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                      .|+|||+||||.+...+        ..+|.+|+....  ....+|.||++||   .++.+++++.+.+...+.|++++++
T Consensus       527 aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATN---Rpd~ID~ALlRPGRlD~iiyVplPD  603 (693)
T KOG0730|consen  527 APCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATN---RPDMIDPALLRPGRLDRIIYVPLPD  603 (693)
T ss_pred             CCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccC---ChhhcCHHHcCCcccceeEeecCcc
Confidence            78999999999998754        246666665521  2346899999999   5888999999943345799999999


Q ss_pred             HHHHHHHHHHHHhhhccCCCChh-HHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhh
Q 010136          309 KDQIIRILQERLMELSYIVFQPQ-ALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQA  386 (517)
Q Consensus       309 ~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  386 (517)
                      .+...+||+.+++++   .++++ .++.+|+.+..++| |++   .+|++|+.+|.++..+.                  
T Consensus       604 ~~aR~~Ilk~~~kkm---p~~~~vdl~~La~~T~g~SGAel~---~lCq~A~~~a~~e~i~a------------------  659 (693)
T KOG0730|consen  604 LEARLEILKQCAKKM---PFSEDVDLEELAQATEGYSGAEIV---AVCQEAALLALRESIEA------------------  659 (693)
T ss_pred             HHHHHHHHHHHHhcC---CCCccccHHHHHHHhccCChHHHH---HHHHHHHHHHHHHhccc------------------
Confidence            999999999999876   45555 58899998888888 454   79999999999887651                  


Q ss_pred             hhhhhccCccccHHHHHHHHHHhccCh
Q 010136          387 ASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       387 ~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                              ..|+.+||.+|+..+..+.
T Consensus       660 --------~~i~~~hf~~al~~~r~s~  678 (693)
T KOG0730|consen  660 --------TEITWQHFEEALKAVRPSL  678 (693)
T ss_pred             --------ccccHHHHHHHHHhhcccC
Confidence                    1799999999998887764

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.92  E-value=3.3e-23  Score=206.76  Aligned_cols=273  Identities=16%  Similarity=0.198  Sum_probs=199.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ++++|++++++.|..++...... ..+++++|+||||||||++++.+++++..          .+..+++........  
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~----------~~~~~~~~~~~~~~~--   71 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGV----------NLKITSGPALEKPGD--   71 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCC----------CEEEeccchhcCchh--
Confidence            46899999999999998765543 34678999999999999999999988742          334444433222111  


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC---------------
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT---------------  267 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~---------------  267 (517)
                                            +...+.     ....+.+|||||+|.+....++.|+.+++-..               
T Consensus        72 ----------------------l~~~l~-----~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~  124 (305)
T TIGR00635        72 ----------------------LAAILT-----NLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVR  124 (305)
T ss_pred             ----------------------HHHHHH-----hcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCcccccee
Confidence                                  222222     12234699999999998776677776654211               


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                      ....++++|+++|.   ...+.+.+.+| |. ..+.|.+|+.+++.+|+...+... ...+++++++.+++   .+.|++
T Consensus       125 ~~~~~~~li~~t~~---~~~l~~~l~sR-~~-~~~~l~~l~~~e~~~il~~~~~~~-~~~~~~~al~~ia~---~~~G~p  195 (305)
T TIGR00635       125 LDLPPFTLVGATTR---AGMLTSPLRDR-FG-IILRLEFYTVEELAEIVSRSAGLL-NVEIEPEAALEIAR---RSRGTP  195 (305)
T ss_pred             ecCCCeEEEEecCC---ccccCHHHHhh-cc-eEEEeCCCCHHHHHHHHHHHHHHh-CCCcCHHHHHHHHH---HhCCCc
Confidence            11234788888884   45677889998 63 478999999999999999887643 34789999999887   588999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHH
Q 010136          348 RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQI  427 (517)
Q Consensus       348 R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~  427 (517)
                      |.++.+|+.++..|......                            .|+.+++..++..+...     ..+++.+++.
T Consensus       196 R~~~~ll~~~~~~a~~~~~~----------------------------~it~~~v~~~l~~l~~~-----~~~l~~~~~~  242 (305)
T TIGR00635       196 RIANRLLRRVRDFAQVRGQK----------------------------IINRDIALKALEMLMID-----ELGLDEIDRK  242 (305)
T ss_pred             chHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHhCCC-----CCCCCHHHHH
Confidence            99999999988877654433                            69999999999884222     4689999999


Q ss_pred             HHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHH-HHhhcCceeeccCCc
Q 010136          428 LLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCR-VLHDQGVLKVGRDDK  489 (517)
Q Consensus       428 iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~-~L~~~glI~~~~~~~  489 (517)
                      +|.|++....++  ++++.       ++|..++.++.+.   ..+++ .|.+.|+|....+|+
T Consensus       243 ~L~al~~~~~~~--~~~~~-------~ia~~lg~~~~~~---~~~~e~~Li~~~li~~~~~g~  293 (305)
T TIGR00635       243 LLSVLIEQFQGG--PVGLK-------TLAAALGEDADTI---EDVYEPYLLQIGFLQRTPRGR  293 (305)
T ss_pred             HHHHHHHHhCCC--cccHH-------HHHHHhCCCcchH---HHhhhHHHHHcCCcccCCchh
Confidence            999998776432  45664       5588888766654   47778 699999997444554

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=99.91  E-value=5.8e-22  Score=188.04  Aligned_cols=363  Identities=15%  Similarity=0.165  Sum_probs=255.7

Q ss_pred             hhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          115 EALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       115 ~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +.|--+++  .+.|..++++.+..+++..+..+.++++++.||.|+|||.++...+.. .+..   | .++-.+.+|+.-
T Consensus        17 ~rl~~~~~--~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~-~q~~---~-E~~l~v~Lng~~   89 (408)
T KOG2228|consen   17 ERLCGPHI--NLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD-IQEN---G-ENFLLVRLNGEL   89 (408)
T ss_pred             HHhcCCCc--ceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh-HHhc---C-CeEEEEEECccc
Confidence            34444444  489999999999999999999999999999999999999999988776 2222   2 236788999988


Q ss_pred             CCCHHHHHHHHHHHhCCCCCC--CCCCCHHHHHHHHHHh--hhccCCCceEEEEEeCcchhccc-CchHHHHHhccCCCC
Q 010136          195 LTNTSEIFSKILLKLQPRKKL--NGSTSPLQYLQNLYSQ--KLHSSVMKMMLIIADELDYLITR-DRAVLHDLFMLTTFP  269 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~--~~~~~~~~~l~~~~~~--~~~~~~~~~~vI~iDEiD~L~~~-~~~~L~~l~~~~~~~  269 (517)
                      .. ...++..|..++......  ....+..+.+..++.-  +.....+.++|.|+||||.++.. +|..||++|+..+..
T Consensus        90 ~~-dk~al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~  168 (408)
T KOG2228|consen   90 QT-DKIALKGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSA  168 (408)
T ss_pred             hh-hHHHHHHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhc
Confidence            76 555666666665322111  1112224445544432  11223455688889999999765 789999999999888


Q ss_pred             CCcEEEEEEECCCCcchhhcccccccCCCceEEEeC-CCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          270 FSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFR-AYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       270 ~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~-p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                      ..++++||.|...|..+.+..|++|| |..++|.+. +....+..++++..+. ++ ..+.+ .++.+-+.+...=.|.|
T Consensus       169 r~Piciig~Ttrld~lE~LEKRVKSR-Fshr~I~m~~~~~l~~yv~l~r~ll~-v~-~e~~~-~~~~wn~~~~~~L~d~~  244 (408)
T KOG2228|consen  169 RAPICIIGVTTRLDILELLEKRVKSR-FSHRVIFMLPSLPLGDYVDLYRKLLS-VP-AEFSD-FAEKWNRSVQEVLSDHR  244 (408)
T ss_pred             CCCeEEEEeeccccHHHHHHHHHHhh-cccceeeccCCCChHHHHHHHHHHhc-CC-ccCcc-HHHHHHhhhhHhhcchh
Confidence            89999999999999999999999999 777656654 4577888888887663 11 12233 44444444433334555


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHH
Q 010136          349 KALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQIL  428 (517)
Q Consensus       349 ~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~i  428 (517)
                      .+-..++.-.......-..                      .-...|.+|.+++..+...+..++..+.+.+|+..++.+
T Consensus       245 sl~k~l~~~~~~l~~~l~~----------------------~vas~p~~ta~~~~~v~~~ys~d~Kie~l~gLSvLEL~L  302 (408)
T KOG2228|consen  245 SLSKNLRSLHDLLKNALNR----------------------LVASHPLMTAEDLAEVSRQYSVDPKIELLSGLSVLELYL  302 (408)
T ss_pred             hHHHHHHHhhHHHHhhhhh----------------------hhccCcchhHHHHHHHHHHhccChHHHHhcCchHHHHHH
Confidence            4333333333221111110                      000113799999999999999999999999999999999


Q ss_pred             HHHHHHHH-hcCCCCccHHHHHHHHHHHHHhcC--CCCCChHHHHHHHHHHhhcCceeec----cCC---ceeEEEeecC
Q 010136          429 LCSAVKFF-RGGKKDMTVGELNKSYMNICKTSL--IPPVGTLEFFSMCRVLHDQGVLKVG----RDD---KLKRVTLKAD  498 (517)
Q Consensus       429 L~al~~l~-~~~~~~~~~~~l~~~y~~~~~~~~--~~~~~~~~~~~~~~~L~~~glI~~~----~~~---~~~~~~l~~~  498 (517)
                      |.++.+.. ......+++..+|..|+++.++..  ..-..++.+.+.++.|..+++|.--    ..|   .++.-+|.+|
T Consensus       303 II~~~r~~~~ae~~sfNF~lvY~EfrK~iksi~hTs~~~~k~vvlnAfEhL~slelI~p~~~~~~~~lt~e~ql~kLlvd  382 (408)
T KOG2228|consen  303 IICMKRETLIAELNSFNFNLVYAEFRKFIKSIAHTSELWAKTVVLNAFEHLRSLELILPFEDIGGFGLTREYQLGKLLVD  382 (408)
T ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHhhHHHHHhHHHHHHHHhhhhheeeEEeecccCCcchhHHHHHhhhhhh
Confidence            99999844 336678999999999999998631  2333556677888999999998633    122   3345688899


Q ss_pred             HHHHHHHHhCChh
Q 010136          499 ESDITFALQGVRF  511 (517)
Q Consensus       499 ~~~i~~~l~~~~~  511 (517)
                      ...|..+++..+-
T Consensus       383 ~t~i~~~lrsyr~  395 (408)
T KOG2228|consen  383 ATQIHRGLRSYRP  395 (408)
T ss_pred             HHHHHHHHHhcCC
Confidence            9999999987653

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.90  E-value=8.8e-22  Score=197.96  Aligned_cols=272  Identities=15%  Similarity=0.162  Sum_probs=199.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLE-EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~-~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ++++|++++.+.+..++..... +...++++|+||||||||++++.+++++..          .+.++++.......   
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~----------~~~~~~~~~~~~~~---   91 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGV----------NIRITSGPALEKPG---   91 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCC----------CeEEEecccccChH---
Confidence            4799999999999988877554 344678999999999999999999998752          35555554432211   


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------------
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------------  268 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------------  268 (517)
                                           .+..++.     ......||||||||.+....++.|+.+++....              
T Consensus        92 ---------------------~l~~~l~-----~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~  145 (328)
T PRK00080         92 ---------------------DLAAILT-----NLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIR  145 (328)
T ss_pred             ---------------------HHHHHHH-----hcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCcccccee
Confidence                                 1223332     122456999999999977666777776653210              


Q ss_pred             -CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          269 -PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       269 -~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                       .-.++++|+++|.   ...+.+.+++| |+ ..+.|.+|+.+++.+||...+... ...+++++++++++   .+.|++
T Consensus       146 ~~l~~~~li~at~~---~~~l~~~L~sR-f~-~~~~l~~~~~~e~~~il~~~~~~~-~~~~~~~~~~~ia~---~~~G~p  216 (328)
T PRK00080        146 LDLPPFTLIGATTR---AGLLTSPLRDR-FG-IVQRLEFYTVEELEKIVKRSARIL-GVEIDEEGALEIAR---RSRGTP  216 (328)
T ss_pred             ecCCCceEEeecCC---cccCCHHHHHh-cC-eeeecCCCCHHHHHHHHHHHHHHc-CCCcCHHHHHHHHH---HcCCCc
Confidence             1134788998885   34567788888 64 489999999999999999877643 34789999999987   578999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHH
Q 010136          348 RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQI  427 (517)
Q Consensus       348 R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~  427 (517)
                      |.|..+|+.+..++...+..                            .|+.+++..++......     ...|+..++.
T Consensus       217 R~a~~~l~~~~~~a~~~~~~----------------------------~I~~~~v~~~l~~~~~~-----~~~l~~~~~~  263 (328)
T PRK00080        217 RIANRLLRRVRDFAQVKGDG----------------------------VITKEIADKALDMLGVD-----ELGLDEMDRK  263 (328)
T ss_pred             hHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHHhCCC-----cCCCCHHHHH
Confidence            99999999998877654333                            79999999999775333     3589999999


Q ss_pred             HHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHH-HHhhcCceeeccCC
Q 010136          428 LLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCR-VLHDQGVLKVGRDD  488 (517)
Q Consensus       428 iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~-~L~~~glI~~~~~~  488 (517)
                      +|.+++..+.++  ++++..+       +..++.++-   ...+.++ .|.+.|||....+|
T Consensus       264 ~l~~~~~~~~~~--~~~~~~~-------a~~lg~~~~---~~~~~~e~~Li~~~li~~~~~g  313 (328)
T PRK00080        264 YLRTIIEKFGGG--PVGLDTL-------AAALGEERD---TIEDVYEPYLIQQGFIQRTPRG  313 (328)
T ss_pred             HHHHHHHHcCCC--ceeHHHH-------HHHHCCCcc---hHHHHhhHHHHHcCCcccCCch
Confidence            999888775433  5777766       666655444   4456777 99999999743333

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

Probab=99.89  E-value=4.5e-21  Score=178.37  Aligned_cols=269  Identities=16%  Similarity=0.164  Sum_probs=201.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ++++|+++..+++.-++..+... ....+++++||||.||||+|..++++++.          .+-..++..+..+.++ 
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgv----------n~k~tsGp~leK~gDl-   94 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGV----------NLKITSGPALEKPGDL-   94 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcC----------CeEecccccccChhhH-
Confidence            47899999999999998886654 44779999999999999999999999873          4555666666555542 


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC---------------
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT---------------  267 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~---------------  267 (517)
                                             ..++.     .-...-|+||||||.|.....++||..++-..               
T Consensus        95 -----------------------aaiLt-----~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~  146 (332)
T COG2255          95 -----------------------AAILT-----NLEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIR  146 (332)
T ss_pred             -----------------------HHHHh-----cCCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEe
Confidence                                   33333     22345699999999999888899998876421               


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                      ..-.++.+||+|+.   ...+...|++| |+. ..++.-|+.+|+.+|+......+ ...+++++...||+   ++.|.+
T Consensus       147 ldLppFTLIGATTr---~G~lt~PLrdR-FGi-~~rlefY~~~eL~~Iv~r~a~~l-~i~i~~~~a~eIA~---rSRGTP  217 (332)
T COG2255         147 LDLPPFTLIGATTR---AGMLTNPLRDR-FGI-IQRLEFYTVEELEEIVKRSAKIL-GIEIDEEAALEIAR---RSRGTP  217 (332)
T ss_pred             ccCCCeeEeeeccc---cccccchhHHh-cCC-eeeeecCCHHHHHHHHHHHHHHh-CCCCChHHHHHHHH---hccCCc
Confidence            12257999998885   44567788898 776 88999999999999999666543 34778888888888   589999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHH
Q 010136          348 RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQI  427 (517)
Q Consensus       348 R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~  427 (517)
                      |-|..++++..+.|...+..                            .|+.+-..+|++......     .+|...++-
T Consensus       218 RIAnRLLrRVRDfa~V~~~~----------------------------~I~~~ia~~aL~~L~Vd~-----~GLd~~D~k  264 (332)
T COG2255         218 RIANRLLRRVRDFAQVKGDG----------------------------DIDRDIADKALKMLDVDE-----LGLDEIDRK  264 (332)
T ss_pred             HHHHHHHHHHHHHHHHhcCC----------------------------cccHHHHHHHHHHhCccc-----ccccHHHHH
Confidence            99999999999999987665                            799999999999887654     389999999


Q ss_pred             HHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHH-HHhhcCceeec
Q 010136          428 LLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCR-VLHDQGVLKVG  485 (517)
Q Consensus       428 iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~-~L~~~glI~~~  485 (517)
                      +|.+++.-..+  .++.+..+       |...+.+.-   ++.++++ .|...|+|..-
T Consensus       265 ~L~~li~~f~G--gPVGl~ti-------a~~lge~~~---TiEdv~EPyLiq~gfi~RT  311 (332)
T COG2255         265 YLRALIEQFGG--GPVGLDTI-------AAALGEDRD---TIEDVIEPYLIQQGFIQRT  311 (332)
T ss_pred             HHHHHHHHhCC--CCccHHHH-------HHHhcCchh---HHHHHHhHHHHHhchhhhC
Confidence            99999987644  34455444       333333222   2333333 56677777543

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

Probab=99.89  E-value=2e-22  Score=203.77  Aligned_cols=276  Identities=18%  Similarity=0.200  Sum_probs=193.0

Q ss_pred             HHhhhhcCCCchhhhhhhhccCCCCCCCChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcC
Q 010136           78 EKLMSARKSPVKKKLCDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGC  157 (517)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~  157 (517)
                      ++|++...+-.....++.+...|+++|+|++.+...+.-|....+.  .+-|-+.++.        +.-..+.++|+|||
T Consensus       484 eDF~~Al~~iQPSakREGF~tVPdVtW~dIGaL~~vR~eL~~aI~~--PiK~pd~~k~--------lGi~~PsGvLL~GP  553 (802)
T KOG0733|consen  484 EDFEEALSKIQPSAKREGFATVPDVTWDDIGALEEVRLELNMAILA--PIKRPDLFKA--------LGIDAPSGVLLCGP  553 (802)
T ss_pred             HHHHHHHHhcCcchhcccceecCCCChhhcccHHHHHHHHHHHHhh--hccCHHHHHH--------hCCCCCCceEEeCC
Confidence            4666666666666678999999999999999888888766665431  2333333222        22235789999999


Q ss_pred             CCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCC
Q 010136          158 PGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSV  237 (517)
Q Consensus       158 pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~  237 (517)
                      ||||||.+|++++++-+          ..|+.|-+..+.+.|.                 |.+ +..++.+|.   .++.
T Consensus       554 PGCGKTLlAKAVANEag----------~NFisVKGPELlNkYV-----------------GES-ErAVR~vFq---RAR~  602 (802)
T KOG0733|consen  554 PGCGKTLLAKAVANEAG----------ANFISVKGPELLNKYV-----------------GES-ERAVRQVFQ---RARA  602 (802)
T ss_pred             CCccHHHHHHHHhhhcc----------CceEeecCHHHHHHHh-----------------hhH-HHHHHHHHH---Hhhc
Confidence            99999999999998854          4699999988766665                 555 788999997   4467


Q ss_pred             CceEEEEEeCcchhcccCc--------hHHHHHhcc-CC-CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCC
Q 010136          238 MKMMLIIADELDYLITRDR--------AVLHDLFML-TT-FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAY  307 (517)
Q Consensus       238 ~~~~vI~iDEiD~L~~~~~--------~~L~~l~~~-~~-~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~  307 (517)
                      ..|+|||+||+|.|+.++.        .++.+|+-. .. .....|.|||+||.   ++-++|++.+.+.....+++..+
T Consensus       603 saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNR---PDiIDpAiLRPGRlDk~LyV~lP  679 (802)
T KOG0733|consen  603 SAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNR---PDIIDPAILRPGRLDKLLYVGLP  679 (802)
T ss_pred             CCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCC---CcccchhhcCCCccCceeeecCC
Confidence            8899999999999998642        345555533 22 24568999999995   66678888886444568888999


Q ss_pred             CHHHHHHHHHHHHhhhccCCCChhH-HHHHHHHHH--HHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchh
Q 010136          308 SKDQIIRILQERLMELSYIVFQPQA-LELCARKVA--AASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFD  383 (517)
Q Consensus       308 ~~~e~~~IL~~rl~~~~~~~~~~~a-i~~ia~~~~--~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~  383 (517)
                      +.++..+||+....+. ...+++++ ++.||+...  .++| |+-   .++++|...|.++.....+..   ..+..+..
T Consensus       680 n~~eR~~ILK~~tkn~-k~pl~~dVdl~eia~~~~c~gftGADLa---aLvreAsi~AL~~~~~~~~~~---~~~~~~~~  752 (802)
T KOG0733|consen  680 NAEERVAILKTITKNT-KPPLSSDVDLDEIARNTKCEGFTGADLA---ALVREASILALRESLFEIDSS---EDDVTVRS  752 (802)
T ss_pred             CHHHHHHHHHHHhccC-CCCCCcccCHHHHhhcccccCCchhhHH---HHHHHHHHHHHHHHHhhcccc---Ccccceee
Confidence            9999999999888752 23444444 778887543  4555 433   477888877766554421111   00111100


Q ss_pred             hhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          384 QQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       384 ~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                               .+-.++..||.+|++++..+.
T Consensus       753 ---------~~~~~t~~hF~eA~~~i~pSv  773 (802)
T KOG0733|consen  753 ---------STIIVTYKHFEEAFQRIRPSV  773 (802)
T ss_pred             ---------eeeeecHHHHHHHHHhcCCCc
Confidence                     011588999999999988764

>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=99.87  E-value=1.5e-21  Score=178.73  Aligned_cols=192  Identities=17%  Similarity=0.220  Sum_probs=132.2

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE-EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~-~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      ..++++|+++....+.-++..... +....++++|||||+||||+|+.++++++.          .+..+++..+....+
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~----------~~~~~sg~~i~k~~d   91 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGV----------NFKITSGPAIEKAGD   91 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT------------EEEEECCC--SCHH
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCC----------CeEeccchhhhhHHH
Confidence            346899999999998888877654 345779999999999999999999999863          577888866544333


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC------------
Q 010136          201 IFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF------------  268 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~------------  268 (517)
                      +                        ..++.     .-....||||||||.|....|+.||..++-...            
T Consensus        92 l------------------------~~il~-----~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~  142 (233)
T PF05496_consen   92 L------------------------AAILT-----NLKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARS  142 (233)
T ss_dssp             H------------------------HHHHH-----T--TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BE
T ss_pred             H------------------------HHHHH-----hcCCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccce
Confidence            2                        22332     112346999999999998889999998875211            


Q ss_pred             ---CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC
Q 010136          269 ---PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG  345 (517)
Q Consensus       269 ---~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G  345 (517)
                         .-.++.+||+|+.   ...+.+.+++| |+. ...+..|+.+|+.+|+......+ ...+++++..+||+   .+.|
T Consensus       143 ~~~~l~~FTligATTr---~g~ls~pLrdR-Fgi-~~~l~~Y~~~el~~Iv~r~a~~l-~i~i~~~~~~~Ia~---rsrG  213 (233)
T PF05496_consen  143 IRINLPPFTLIGATTR---AGLLSSPLRDR-FGI-VLRLEFYSEEELAKIVKRSARIL-NIEIDEDAAEEIAR---RSRG  213 (233)
T ss_dssp             EEEE----EEEEEESS---GCCTSHCCCTT-SSE-EEE----THHHHHHHHHHCCHCT-T-EE-HHHHHHHHH---CTTT
T ss_pred             eeccCCCceEeeeecc---ccccchhHHhh-cce-ecchhcCCHHHHHHHHHHHHHHh-CCCcCHHHHHHHHH---hcCC
Confidence               1136999999995   45567899999 755 77899999999999999554432 34788999999988   6899


Q ss_pred             CHHHHHHHHHHHHHHH
Q 010136          346 DMRKALSVCRSAIEIL  361 (517)
Q Consensus       346 d~R~al~ll~~A~~~a  361 (517)
                      ++|-|.++++++.++|
T Consensus       214 tPRiAnrll~rvrD~a  229 (233)
T PF05496_consen  214 TPRIANRLLRRVRDFA  229 (233)
T ss_dssp             SHHHHHHHHHHHCCCC
T ss_pred             ChHHHHHHHHHHHHHH
Confidence            9999999999987654

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.

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

Probab=99.86  E-value=3.9e-21  Score=176.04  Aligned_cols=224  Identities=18%  Similarity=0.297  Sum_probs=162.5

Q ss_pred             CCCCCCCCCcHHHHHH---HHHHHHHh--hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          120 STAPSTIVCREDEQKK---VLEFCKKN--LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       120 ~~~p~~l~gRe~e~~~---l~~~L~~~--l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +...++++|+|+....   |.++|.+-  +....+.++|+|||||||||++|++++++..          +.++.+++..
T Consensus       117 ~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~k----------vp~l~vkat~  186 (368)
T COG1223         117 DITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAK----------VPLLLVKATE  186 (368)
T ss_pred             cccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccC----------CceEEechHH
Confidence            4456789999876543   33444331  2234588999999999999999999988754          5788898877


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--c-------hHHHHHhcc
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--R-------AVLHDLFML  265 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~-------~~L~~l~~~  265 (517)
                      +...+.                 | ...+.+.+++.   .+++..|||+||||+|.+.-.+  |       +.+..|+..
T Consensus       187 liGehV-----------------G-dgar~Ihely~---rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTe  245 (368)
T COG1223         187 LIGEHV-----------------G-DGARRIHELYE---RARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTE  245 (368)
T ss_pred             HHHHHh-----------------h-hHHHHHHHHHH---HHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHh
Confidence            633322                 2 22667888887   3457789999999999987542  1       233333322


Q ss_pred             C--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          266 T--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       266 ~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                      .  ...+-.|+.|++||.   ++-|++.++|| |. ..|.|.-++.+|+.+||+..++.++. .++-. +++++++....
T Consensus       246 lDgi~eneGVvtIaaTN~---p~~LD~aiRsR-FE-eEIEF~LP~~eEr~~ile~y~k~~Pl-pv~~~-~~~~~~~t~g~  318 (368)
T COG1223         246 LDGIKENEGVVTIAATNR---PELLDPAIRSR-FE-EEIEFKLPNDEERLEILEYYAKKFPL-PVDAD-LRYLAAKTKGM  318 (368)
T ss_pred             ccCcccCCceEEEeecCC---hhhcCHHHHhh-hh-heeeeeCCChHHHHHHHHHHHHhCCC-ccccC-HHHHHHHhCCC
Confidence            1  124567999999995   66789999999 64 59999999999999999999987743 22222 77787766555


Q ss_pred             hC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          344 SG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       344 ~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      +| |+-.  .+++.|...|..++++                            .|+-+|+..|+++-..
T Consensus       319 SgRdike--kvlK~aLh~Ai~ed~e----------------------------~v~~edie~al~k~r~  357 (368)
T COG1223         319 SGRDIKE--KVLKTALHRAIAEDRE----------------------------KVEREDIEKALKKERK  357 (368)
T ss_pred             CchhHHH--HHHHHHHHHHHHhchh----------------------------hhhHHHHHHHHHhhcc
Confidence            55 4332  5889999999999888                            8999999999987443

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

Probab=99.86  E-value=1.6e-20  Score=182.89  Aligned_cols=191  Identities=20%  Similarity=0.274  Sum_probs=142.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      +++|++.-+.. ...|.+.+..+...+++|||||||||||+++.++....          ..|..+|+....        
T Consensus        25 e~vGQ~HLlg~-~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~----------~~f~~~sAv~~g--------   85 (436)
T COG2256          25 EVVGQEHLLGE-GKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTN----------AAFEALSAVTSG--------   85 (436)
T ss_pred             HhcChHhhhCC-CchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhC----------CceEEecccccc--------
Confidence            45666654432 23466667778899999999999999999999988764          468889986642        


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                                       .+.++..+++. .....++..|||||||++|....|+.|...+     .+..+++||+|+ .+
T Consensus        86 -----------------vkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~v-----E~G~iilIGATT-EN  142 (436)
T COG2256          86 -----------------VKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHV-----ENGTIILIGATT-EN  142 (436)
T ss_pred             -----------------HHHHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhh-----cCCeEEEEeccC-CC
Confidence                             23334444331 1112356799999999999888888886655     457899999554 44


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh----hhc--cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM----ELS--YIVFQPQALELCARKVAAASGDMRKALSVCRSA  357 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~----~~~--~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A  357 (517)
                      -.-.+.+.+.|| +  +++.|.|++.+++..+|...+.    ++.  ...+++++++++++   .+.||+|.+++.+..+
T Consensus       143 PsF~ln~ALlSR-~--~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~---~s~GD~R~aLN~LE~~  216 (436)
T COG2256         143 PSFELNPALLSR-A--RVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVR---LSNGDARRALNLLELA  216 (436)
T ss_pred             CCeeecHHHhhh-h--heeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHH---hcCchHHHHHHHHHHH
Confidence            344578999999 6  7999999999999999997443    222  13468999999987   5899999999999999


Q ss_pred             HHHHHH
Q 010136          358 IEILEA  363 (517)
Q Consensus       358 ~~~a~~  363 (517)
                      +..++.
T Consensus       217 ~~~~~~  222 (436)
T COG2256         217 ALSAEP  222 (436)
T ss_pred             HHhcCC
Confidence            887654

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

Probab=99.85  E-value=6e-21  Score=177.88  Aligned_cols=200  Identities=20%  Similarity=0.219  Sum_probs=153.0

Q ss_pred             hccCCCCCCCChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCC--CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136           96 FKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEK--AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~--~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +.++|++.|.|++.+..+++.|.+..+             |.--+-..+.+.+  -..+||||||||||+.|+++|+.+.
T Consensus       124 v~EKPNVkWsDVAGLE~AKeALKEAVI-------------LPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA  190 (439)
T KOG0739|consen  124 VREKPNVKWSDVAGLEGAKEALKEAVI-------------LPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA  190 (439)
T ss_pred             hccCCCCchhhhccchhHHHHHHhhee-------------ecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc
Confidence            367899999999999999999998865             1112223344443  4589999999999999999999876


Q ss_pred             HHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       174 ~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .          -.|+.|+.+.+.+.+-                 |.+ .+.+.++|.   +++..+|.||||||||.|+.
T Consensus       191 n----------STFFSvSSSDLvSKWm-----------------GES-EkLVknLFe---mARe~kPSIIFiDEiDslcg  239 (439)
T KOG0739|consen  191 N----------STFFSVSSSDLVSKWM-----------------GES-EKLVKNLFE---MARENKPSIIFIDEIDSLCG  239 (439)
T ss_pred             C----------CceEEeehHHHHHHHh-----------------ccH-HHHHHHHHH---HHHhcCCcEEEeehhhhhcc
Confidence            5          2688998887755554                 454 788899998   66789999999999999987


Q ss_pred             cCc------------hHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh
Q 010136          254 RDR------------AVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       254 ~~~------------~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                      .+.            +.|.++-- ....+..+.|+|++|   .++.|+.++++| |. .+|+++-+.......+++-.+.
T Consensus       240 ~r~enEseasRRIKTEfLVQMqG-VG~d~~gvLVLgATN---iPw~LDsAIRRR-Fe-kRIYIPLPe~~AR~~MF~lhlG  313 (439)
T KOG0739|consen  240 SRSENESEASRRIKTEFLVQMQG-VGNDNDGVLVLGATN---IPWVLDSAIRRR-FE-KRIYIPLPEAHARARMFKLHLG  313 (439)
T ss_pred             CCCCCchHHHHHHHHHHHHhhhc-cccCCCceEEEecCC---CchhHHHHHHHH-hh-cceeccCCcHHHhhhhheeccC
Confidence            632            22333222 233456899999999   799999999998 64 5888888888887777776665


Q ss_pred             hhccCCCChhHHHHHHHHHHHHhCC
Q 010136          322 ELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       322 ~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      .. +..+++..++.+++++.+++|.
T Consensus       314 ~t-p~~LT~~d~~eL~~kTeGySGs  337 (439)
T KOG0739|consen  314 DT-PHVLTEQDFKELARKTEGYSGS  337 (439)
T ss_pred             CC-ccccchhhHHHHHhhcCCCCcC
Confidence            43 3577888899999999999984

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.85  E-value=1.2e-20  Score=193.00  Aligned_cols=228  Identities=18%  Similarity=0.224  Sum_probs=160.4

Q ss_pred             cCCCCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE
Q 010136          119 VSTAPSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS  189 (517)
Q Consensus       119 ~~~~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~  189 (517)
                      +++.++++.|+++++++|.+.+...+..         ..+.+++|+||||||||++++++++++.          ..++.
T Consensus       126 p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~----------~~~i~  195 (389)
T PRK03992        126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN----------ATFIR  195 (389)
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC----------CCEEE
Confidence            3456678999999999999987553332         3467899999999999999999998764          35888


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chH
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAV  258 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~  258 (517)
                      ++|..+...+.                 +. ....++.+|..   .....+.||||||+|.+....           +..
T Consensus       196 v~~~~l~~~~~-----------------g~-~~~~i~~~f~~---a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~  254 (389)
T PRK03992        196 VVGSELVQKFI-----------------GE-GARLVRELFEL---AREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRT  254 (389)
T ss_pred             eehHHHhHhhc-----------------cc-hHHHHHHHHHH---HHhcCCeEEEEechhhhhcccccCCCCccHHHHHH
Confidence            88765432211                 22 24556666762   234567899999999996431           234


Q ss_pred             HHHHhccCC--CCCCcEEEEEEECCCCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHH
Q 010136          259 LHDLFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALEL  335 (517)
Q Consensus       259 L~~l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~  335 (517)
                      +..++....  ....++.||++||.   ++.+++.+.+. +| ...|.|++|+.++..+||+..+......  .+..+..
T Consensus       255 l~~lL~~ld~~~~~~~v~VI~aTn~---~~~ld~allRpgRf-d~~I~v~~P~~~~R~~Il~~~~~~~~~~--~~~~~~~  328 (389)
T PRK03992        255 LMQLLAEMDGFDPRGNVKIIAATNR---IDILDPAILRPGRF-DRIIEVPLPDEEGRLEILKIHTRKMNLA--DDVDLEE  328 (389)
T ss_pred             HHHHHHhccccCCCCCEEEEEecCC---hhhCCHHHcCCccC-ceEEEECCCCHHHHHHHHHHHhccCCCC--CcCCHHH
Confidence            556654321  23457999999995   45677887752 15 4589999999999999999887754211  1233566


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          336 CARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       336 ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      +|+.+...+|  ...-.+|++|...|.+++..                            .|+.+||.+|+..+....
T Consensus       329 la~~t~g~sg--adl~~l~~eA~~~a~~~~~~----------------------------~i~~~d~~~A~~~~~~~~  376 (389)
T PRK03992        329 LAELTEGASG--ADLKAICTEAGMFAIRDDRT----------------------------EVTMEDFLKAIEKVMGKE  376 (389)
T ss_pred             HHHHcCCCCH--HHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHHhccc
Confidence            7765544443  23336899999998877654                            799999999999987654

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

Probab=99.85  E-value=4.4e-20  Score=191.32  Aligned_cols=212  Identities=19%  Similarity=0.236  Sum_probs=148.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      ..++++|||||||||.+||+|+.++.          ..|+.|.++++.+.|.                 |.+ ++.+++.
T Consensus       705 RSGILLYGPPGTGKTLlAKAVATEcs----------L~FlSVKGPELLNMYV-----------------GqS-E~NVR~V  756 (953)
T KOG0736|consen  705 RSGILLYGPPGTGKTLLAKAVATECS----------LNFLSVKGPELLNMYV-----------------GQS-EENVREV  756 (953)
T ss_pred             cceeEEECCCCCchHHHHHHHHhhce----------eeEEeecCHHHHHHHh-----------------cch-HHHHHHH
Confidence            56899999999999999999999975          5799999988766665                 555 8999999


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCc----------hH----HHHHhccCCCCCCcEEEEEEECCCCcchhhcccccc
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDR----------AV----LHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQS  294 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~----------~~----L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~s  294 (517)
                      |+   .++...|||||+||+|.|...+.          .+    |.+|-.+...+...|.|||+||.   |+.+||.|.+
T Consensus       757 Fe---rAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNR---PDLLDpALLR  830 (953)
T KOG0736|consen  757 FE---RARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNR---PDLLDPALLR  830 (953)
T ss_pred             HH---HhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCC---ccccChhhcC
Confidence            98   45678899999999999987531          22    22232233335678999999996   5557888888


Q ss_pred             cCCCceEEEeCCC-CHHHHHHHHHHHHhhhccCCCChhH-HHHHHHHHHH-HhC-CHHHHHHHHHHHHHHHHHHHHhhhh
Q 010136          295 MNCKPLVVTFRAY-SKDQIIRILQERLMELSYIVFQPQA-LELCARKVAA-ASG-DMRKALSVCRSAIEILEAEMRESVS  370 (517)
Q Consensus       295 r~~~~~~i~f~p~-~~~e~~~IL~~rl~~~~~~~~~~~a-i~~ia~~~~~-~~G-d~R~al~ll~~A~~~a~~~~~~~~~  370 (517)
                      .+.....+++.+- +.+.-..||+..-+++   .+++++ +..+|+++.. .+| |+   ..+|..|+..|..+.....+
T Consensus       831 PGRFDKLvyvG~~~d~esk~~vL~AlTrkF---kLdedVdL~eiAk~cp~~~TGADl---YsLCSdA~l~AikR~i~~ie  904 (953)
T KOG0736|consen  831 PGRFDKLVYVGPNEDAESKLRVLEALTRKF---KLDEDVDLVEIAKKCPPNMTGADL---YSLCSDAMLAAIKRTIHDIE  904 (953)
T ss_pred             CCccceeEEecCCccHHHHHHHHHHHHHHc---cCCCCcCHHHHHhhCCcCCchhHH---HHHHHHHHHHHHHHHHHHhh
Confidence            6333445666555 4455566777666665   555554 6677776532 334 44   36899999888776654332


Q ss_pred             cccc---ccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          371 KMNS---ASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       371 ~~~~---~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                      ....   +....++              .|+++|+.+++++...+..
T Consensus       905 ~g~~~~~e~~~~~v--------------~V~~eDflks~~~l~PSvS  937 (953)
T KOG0736|consen  905 SGTISEEEQESSSV--------------RVTMEDFLKSAKRLQPSVS  937 (953)
T ss_pred             hccccccccCCceE--------------EEEHHHHHHHHHhcCCccc
Confidence            2211   1111112              7999999999999887753

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.84  E-value=4.3e-20  Score=188.73  Aligned_cols=214  Identities=16%  Similarity=0.162  Sum_probs=140.2

Q ss_pred             cCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          119 VSTAP---STIVCREDEQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       119 ~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      ..|.|   ++++|.+..+..|..++.    .+..+ .++|+||||||||++|+.+++.+.......        ...|..
T Consensus        10 ~KyRP~~f~dvVGQe~iv~~L~~~i~----~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~--------~~pCg~   77 (484)
T PRK14956         10 RKYRPQFFRDVIHQDLAIGALQNALK----SGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIG--------NEPCNE   77 (484)
T ss_pred             HHhCCCCHHHHhChHHHHHHHHHHHH----cCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccC--------ccccCC
Confidence            34444   478999987776666654    34444 589999999999999999999886521100        011222


Q ss_pred             CCCHHHHHHHHHHHhCCCCC-CCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCc
Q 010136          195 LTNTSEIFSKILLKLQPRKK-LNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSR  272 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~-~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~  272 (517)
                      ..+...+.......+..-.. ...+   .+.++++.... .....++..|+||||+|.|....++.|...++.   +..+
T Consensus        78 C~sC~~i~~g~~~dviEIdaas~~g---Vd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEE---Pp~~  151 (484)
T PRK14956         78 CTSCLEITKGISSDVLEIDAASNRG---IENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEE---PPAH  151 (484)
T ss_pred             CcHHHHHHccCCccceeechhhccc---HHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhc---CCCc
Confidence            22222211111100000000 0001   22233322210 111234568999999999987666776665544   4578


Q ss_pred             EEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHH
Q 010136          273 FILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALS  352 (517)
Q Consensus       273 v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~  352 (517)
                      +++|++++.   +..+.+.++|| |  +.+.|.+++.+++.++|...+... ...++++++..|++   .+.||+|.|++
T Consensus       152 viFILaTte---~~kI~~TI~SR-C--q~~~f~~ls~~~i~~~L~~i~~~E-gi~~e~eAL~~Ia~---~S~Gd~RdAL~  221 (484)
T PRK14956        152 IVFILATTE---FHKIPETILSR-C--QDFIFKKVPLSVLQDYSEKLCKIE-NVQYDQEGLFWIAK---KGDGSVRDMLS  221 (484)
T ss_pred             eEEEeecCC---hhhccHHHHhh-h--heeeecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCChHHHHHH
Confidence            889988884   67788999999 7  789999999999999999877642 34789999999988   58899999999


Q ss_pred             HHHHHHHH
Q 010136          353 VCRSAIEI  360 (517)
Q Consensus       353 ll~~A~~~  360 (517)
                      ++..++..
T Consensus       222 lLeq~i~~  229 (484)
T PRK14956        222 FMEQAIVF  229 (484)
T ss_pred             HHHHHHHh
Confidence            99987743

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.84  E-value=8.7e-20  Score=192.86  Aligned_cols=203  Identities=20%  Similarity=0.236  Sum_probs=142.1

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC----------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL----------  182 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~----------  182 (517)
                      |...|.|   ++++|++..++.|..++.    .++.. .++|+|++|||||++++.+++.+.+.....+.          
T Consensus         6 LarKYRPqtFdEVIGQe~Vv~~L~~aL~----~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~   81 (830)
T PRK07003          6 LARKWRPKDFASLVGQEHVVRALTHALD----GGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACRE   81 (830)
T ss_pred             HHHHhCCCcHHHHcCcHHHHHHHHHHHh----cCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHH
Confidence            4445555   479999997776666644    44444 45899999999999999999998742110000          


Q ss_pred             ----CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCch
Q 010136          183 ----QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       183 ----~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                          ....+++++......                        .+.+++++... +.....+..|+||||+|.|....++
T Consensus        82 I~~G~h~DviEIDAas~rg------------------------VDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~N  137 (830)
T PRK07003         82 IDEGRFVDYVEMDAASNRG------------------------VDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFN  137 (830)
T ss_pred             HhcCCCceEEEeccccccc------------------------HHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHH
Confidence                011344444433222                        22233333321 1112345679999999999876677


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|...++.+   ..++.||+++|.   ...+.+.++|| |  ..+.|.+++.+++.++|...+... ...++++++..|+
T Consensus       138 ALLKtLEEP---P~~v~FILaTtd---~~KIp~TIrSR-C--q~f~Fk~Ls~eeIv~~L~~Il~~E-gI~id~eAL~lIA  207 (830)
T PRK07003        138 AMLKTLEEP---PPHVKFILATTD---PQKIPVTVLSR-C--LQFNLKQMPAGHIVSHLERILGEE-RIAFEPQALRLLA  207 (830)
T ss_pred             HHHHHHHhc---CCCeEEEEEECC---hhhccchhhhh-e--EEEecCCcCHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            777776653   357788888884   66788899999 7  799999999999999999877642 2468999999998


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +   ...||+|.|++++..++.+
T Consensus       208 ~---~A~GsmRdALsLLdQAia~  227 (830)
T PRK07003        208 R---AAQGSMRDALSLTDQAIAY  227 (830)
T ss_pred             H---HcCCCHHHHHHHHHHHHHh
Confidence            8   5789999999999988854

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

Probab=99.84  E-value=1.8e-20  Score=186.94  Aligned_cols=221  Identities=18%  Similarity=0.203  Sum_probs=155.3

Q ss_pred             CCCCCCcHHHH---HHHHHHHHHh-----hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQ---KKVLEFCKKN-----LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~---~~l~~~L~~~-----l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+++-|.++..   ++|.+||++-     +.+.-+.++|++||||||||.||++++.+.+          ++|+|.+++.
T Consensus       303 F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~----------VPFF~~sGSE  372 (752)
T KOG0734|consen  303 FEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG----------VPFFYASGSE  372 (752)
T ss_pred             cccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC----------CCeEeccccc
Confidence            45667777544   4455555442     2233478999999999999999999986643          6799999988


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHHhcc-
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDLFML-  265 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l~~~-  265 (517)
                      +...+.                 |.. .+.++.+|..   ++...||||||||+|.+..++.        ..|.+|+-. 
T Consensus       373 FdEm~V-----------------GvG-ArRVRdLF~a---Ak~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEm  431 (752)
T KOG0734|consen  373 FDEMFV-----------------GVG-ARRVRDLFAA---AKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEM  431 (752)
T ss_pred             hhhhhh-----------------ccc-HHHHHHHHHH---HHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHh
Confidence            733222                 222 6778999983   4577899999999999987632        234454432 


Q ss_pred             C-CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHHHHHHHH
Q 010136          266 T-TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCARKVAAA  343 (517)
Q Consensus       266 ~-~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia~~~~~~  343 (517)
                      . -..+..|+|||+||   +++.||++|.+......+|.++.++..-..+||...+.+.   .++++ ....||+-..+.
T Consensus       432 DGF~qNeGiIvigATN---fpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki---~~~~~VD~~iiARGT~GF  505 (752)
T KOG0734|consen  432 DGFKQNEGIIVIGATN---FPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKI---PLDEDVDPKIIARGTPGF  505 (752)
T ss_pred             cCcCcCCceEEEeccC---ChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcC---CcccCCCHhHhccCCCCC
Confidence            1 23456899999999   8999999999874456799999999999999999999865   33322 255677733233


Q ss_pred             hCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          344 SGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      +| + ..-++...|+-.|-.++..                            .|+|.|++.|-+++.
T Consensus       506 sG-A-dLaNlVNqAAlkAa~dga~----------------------------~VtM~~LE~akDrIl  542 (752)
T KOG0734|consen  506 SG-A-DLANLVNQAALKAAVDGAE----------------------------MVTMKHLEFAKDRIL  542 (752)
T ss_pred             ch-H-HHHHHHHHHHHHHHhcCcc----------------------------cccHHHHhhhhhhee
Confidence            33 1 2235666776666666665                            688888888877643

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

Probab=99.84  E-value=4.1e-19  Score=179.96  Aligned_cols=319  Identities=16%  Similarity=0.201  Sum_probs=195.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      .++-|-++++.+|.+.+.....        -.++.+++|+||||||||.+|++++.+++          +.|+.|++.++
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~----------vPf~~isApei  259 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELG----------VPFLSISAPEI  259 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcC----------CceEeecchhh
Confidence            4789999999999888765221        12467899999999999999999999875          57999999886


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCch--------HHHH---Hhc
Q 010136          196 TNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRA--------VLHD---LFM  264 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~--------~L~~---l~~  264 (517)
                      .+...                 |.+ ++.++++|++   +....|+|+||||||.+..+++.        .+.+   .++
T Consensus       260 vSGvS-----------------GES-EkkiRelF~~---A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD  318 (802)
T KOG0733|consen  260 VSGVS-----------------GES-EKKIRELFDQ---AKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMD  318 (802)
T ss_pred             hcccC-----------------ccc-HHHHHHHHHH---HhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhh
Confidence            44222                 444 8999999984   35778999999999999987532        2223   333


Q ss_pred             cCC---CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhcc-CCCChhHHHHHHHHH
Q 010136          265 LTT---FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSY-IVFQPQALELCARKV  340 (517)
Q Consensus       265 ~~~---~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~-~~~~~~ai~~ia~~~  340 (517)
                      ...   ..+..|+|||+||   .++.++|.|++.+...++|.+.-++.++..+||+...+++.. ..|   ....+|+.+
T Consensus       319 ~l~~~~~~g~~VlVIgATn---RPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~---d~~qlA~lT  392 (802)
T KOG0733|consen  319 ELSNEKTKGDPVLVIGATN---RPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDF---DFKQLAKLT  392 (802)
T ss_pred             cccccccCCCCeEEEecCC---CCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCc---CHHHHHhcC
Confidence            321   2356899999999   477889999886445689999999999999999988876632 122   255667654


Q ss_pred             HHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccc---ccccc---ccchhhhhhhhhhcc---CccccHH-HHHHHHHHh
Q 010136          341 AAASG-DMRKALSVCRSAIEILEAEMRESVSKMN---SASAE---QGLFDQQAASAFEFF---NSQVRVD-HMAVALSNT  409 (517)
Q Consensus       341 ~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~---~~~~~---~~~~~~~~~~~~~~~---~~~Vt~~-~v~~a~~~~  409 (517)
                      -++-| |+   ..+|+.|+..|..+-........   ..+.+   +.....+  |.....   ......+ -+++++.+.
T Consensus       393 PGfVGADL---~AL~~~Aa~vAikR~ld~~~~p~~~~~~~ed~~~~~~~~d~--S~i~~~~~~~~~~~ld~v~~~~i~~~  467 (802)
T KOG0733|consen  393 PGFVGADL---MALCREAAFVAIKRILDQSSSPLTKVPISEDSSNKDAEEDQ--SSIKITSNAERPLELDRVVQDAILNN  467 (802)
T ss_pred             CCccchhH---HHHHHHHHHHHHHHHhhcccCccccCCccccccCCCccchh--hhhhcCCcccccccHHHHHHHHHHhC
Confidence            44444 33   35788888888766443222100   00000   0010000  000000   0012222 334555554


Q ss_pred             ccChhHHHhccCCHHHHHHHHHHHHHHhc----C---CCCccHHHH---HHHHHHHHHhcCCCCCChHHHHHHHHHHhhc
Q 010136          410 FKSPVVDTIKSLPQHQQILLCSAVKFFRG----G---KKDMTVGEL---NKSYMNICKTSLIPPVGTLEFFSMCRVLHDQ  479 (517)
Q Consensus       410 ~~~~~~~~i~~L~~~~k~iL~al~~l~~~----~---~~~~~~~~l---~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~  479 (517)
                      ......+.+..|...-.-+..|+....-.    |   ..++++.+|   .+.-.++-. .-+.|+.+.+.+..+.-=.-.
T Consensus       468 ~d~~S~E~~~~L~i~~eDF~~Al~~iQPSakREGF~tVPdVtW~dIGaL~~vR~eL~~-aI~~PiK~pd~~k~lGi~~Ps  546 (802)
T KOG0733|consen  468 PDPLSKELLEGLSIKFEDFEEALSKIQPSAKREGFATVPDVTWDDIGALEEVRLELNM-AILAPIKRPDLFKALGIDAPS  546 (802)
T ss_pred             CCCcChHHhccceecHHHHHHHHHhcCcchhcccceecCCCChhhcccHHHHHHHHHH-HHhhhccCHHHHHHhCCCCCC
Confidence            44445677777877777788777765422    1   234566555   111111111 123466555555444333345


Q ss_pred             Cceeec
Q 010136          480 GVLKVG  485 (517)
Q Consensus       480 glI~~~  485 (517)
                      |++-.+
T Consensus       547 GvLL~G  552 (802)
T KOG0733|consen  547 GVLLCG  552 (802)
T ss_pred             ceEEeC
Confidence            555443

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

Probab=99.83  E-value=6.7e-20  Score=187.71  Aligned_cols=221  Identities=16%  Similarity=0.168  Sum_probs=154.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++.|.++++++|.+++...+..         ..+.+++|+||||||||++++++++++.          ..++.+.+..
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~----------~~fi~V~~se  252 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS----------ATFLRVVGSE  252 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhC----------CCEEEEecch
Confidence            47899999999999988643321         2466899999999999999999998764          3578887765


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~  263 (517)
                      +.+.+.                 +. ....+..+|..   +....++||||||||.+..+.           +..+..++
T Consensus       253 L~~k~~-----------------Ge-~~~~vr~lF~~---A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL  311 (438)
T PTZ00361        253 LIQKYL-----------------GD-GPKLVRELFRV---AEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELL  311 (438)
T ss_pred             hhhhhc-----------------ch-HHHHHHHHHHH---HHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHH
Confidence            432211                 11 14456666652   234578999999999997532           12344444


Q ss_pred             ccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHHHHH
Q 010136          264 MLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCARKV  340 (517)
Q Consensus       264 ~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia~~~  340 (517)
                      ....  .....+.||++||.   ++.+++.+.+.......|.|++|+.+++.+|+..++...   .+.++ .++.++...
T Consensus       312 ~~Ldg~~~~~~V~VI~ATNr---~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~---~l~~dvdl~~la~~t  385 (438)
T PTZ00361        312 NQLDGFDSRGDVKVIMATNR---IESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKM---TLAEDVDLEEFIMAK  385 (438)
T ss_pred             HHHhhhcccCCeEEEEecCC---hHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcC---CCCcCcCHHHHHHhc
Confidence            3321  13457899999995   667788877532235699999999999999999887654   23332 355566544


Q ss_pred             HHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          341 AAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      ...+|  ...-.+|+.|+.+|.++++.                            .|+.+||..|+.++..
T Consensus       386 ~g~sg--AdI~~i~~eA~~~Alr~~r~----------------------------~Vt~~D~~~A~~~v~~  426 (438)
T PTZ00361        386 DELSG--ADIKAICTEAGLLALRERRM----------------------------KVTQADFRKAKEKVLY  426 (438)
T ss_pred             CCCCH--HHHHHHHHHHHHHHHHhcCC----------------------------ccCHHHHHHHHHHHHh
Confidence            44444  23346899999999988766                            8999999999998743

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

Probab=99.83  E-value=4.5e-20  Score=173.54  Aligned_cols=207  Identities=20%  Similarity=0.212  Sum_probs=147.9

Q ss_pred             CcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          118 HVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       118 ~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+.|.|   +++.|.+..++.|...+..    ...+++++|||||||||+++++++++|...    ......++..|++.
T Consensus        27 teKYrPkt~de~~gQe~vV~~L~~a~~~----~~lp~~LFyGPpGTGKTStalafar~L~~~----~~~~~rvl~lnaSd   98 (346)
T KOG0989|consen   27 TEKYRPKTFDELAGQEHVVQVLKNALLR----RILPHYLFYGPPGTGKTSTALAFARALNCE----QLFPCRVLELNASD   98 (346)
T ss_pred             HHHhCCCcHHhhcchHHHHHHHHHHHhh----cCCceEEeeCCCCCcHhHHHHHHHHHhcCc----cccccchhhhcccc
Confidence            345555   4789999877777766554    457899999999999999999999999751    11223566677766


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEE
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFI  274 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~  274 (517)
                      ......+    ..++          .....+................||||||+|.|....|..|...++-.   .....
T Consensus        99 erGisvv----r~Ki----------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~---s~~tr  161 (346)
T KOG0989|consen   99 ERGISVV----REKI----------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDF---SRTTR  161 (346)
T ss_pred             cccccch----hhhh----------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhcc---ccceE
Confidence            5433311    0000          00111111111011112334479999999999999999999988763   23556


Q ss_pred             EEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHH
Q 010136          275 LIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVC  354 (517)
Q Consensus       275 lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll  354 (517)
                      +|.|+|   +.+++...+.|| |  ..+.|+++..+.+...|+..... +...+++++++.|+.   .+.||+|+|+..|
T Consensus       162 FiLIcn---ylsrii~pi~SR-C--~KfrFk~L~d~~iv~rL~~Ia~~-E~v~~d~~al~~I~~---~S~GdLR~Ait~L  231 (346)
T KOG0989|consen  162 FILICN---YLSRIIRPLVSR-C--QKFRFKKLKDEDIVDRLEKIASK-EGVDIDDDALKLIAK---ISDGDLRRAITTL  231 (346)
T ss_pred             EEEEcC---ChhhCChHHHhh-H--HHhcCCCcchHHHHHHHHHHHHH-hCCCCCHHHHHHHHH---HcCCcHHHHHHHH
Confidence            666789   578888999999 7  78999999999999999876653 335889999999988   4899999999999


Q ss_pred             HHHHH
Q 010136          355 RSAIE  359 (517)
Q Consensus       355 ~~A~~  359 (517)
                      +.+..
T Consensus       232 qsls~  236 (346)
T KOG0989|consen  232 QSLSL  236 (346)
T ss_pred             HHhhc
Confidence            98875

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.83  E-value=9.8e-19  Score=181.78  Aligned_cols=197  Identities=23%  Similarity=0.290  Sum_probs=133.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCC-CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC--------------CCceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKA-GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL--------------QQPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~-~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~--------------~~~~~v  188 (517)
                      ++++|++...+.|...    +..+.. ..++|+||||||||++|+.+++.+.......+.              ....++
T Consensus        14 ~divGq~~i~~~L~~~----i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~   89 (472)
T PRK14962         14 SEVVGQDHVKKLIINA----LKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVI   89 (472)
T ss_pred             HHccCcHHHHHHHHHH----HHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccE
Confidence            4799998865555444    444454 458999999999999999999988642110000              012355


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF  268 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~  268 (517)
                      .+++........+ +.+                    .....  .........||||||+|.|....++.|...++.   
T Consensus        90 el~aa~~~gid~i-R~i--------------------~~~~~--~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~---  143 (472)
T PRK14962         90 ELDAASNRGIDEI-RKI--------------------RDAVG--YRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEE---  143 (472)
T ss_pred             EEeCcccCCHHHH-HHH--------------------HHHHh--hChhcCCeEEEEEEChHHhHHHHHHHHHHHHHh---
Confidence            5555432222221 111                    11111  011234567999999999976555666555544   


Q ss_pred             CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          269 PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                      +...+++|++++.   +..+.+++.|| |  +.+.|.|++.+++..++..++... ...+++++++++++   ...||+|
T Consensus       144 p~~~vv~Ilattn---~~kl~~~L~SR-~--~vv~f~~l~~~el~~~L~~i~~~e-gi~i~~eal~~Ia~---~s~GdlR  213 (472)
T PRK14962        144 PPSHVVFVLATTN---LEKVPPTIISR-C--QVIEFRNISDELIIKRLQEVAEAE-GIEIDREALSFIAK---RASGGLR  213 (472)
T ss_pred             CCCcEEEEEEeCC---hHhhhHHHhcC-c--EEEEECCccHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HhCCCHH
Confidence            3457788887773   55788999999 7  699999999999999999887642 24789999999987   4789999


Q ss_pred             HHHHHHHHHHHH
Q 010136          349 KALSVCRSAIEI  360 (517)
Q Consensus       349 ~al~ll~~A~~~  360 (517)
                      .+++.+..++..
T Consensus       214 ~aln~Le~l~~~  225 (472)
T PRK14962        214 DALTMLEQVWKF  225 (472)
T ss_pred             HHHHHHHHHHHh
Confidence            999999886643

>PLN03025 replication factor C subunit; Provisional

Probab=99.82  E-value=1.3e-18  Score=174.28  Aligned_cols=199  Identities=21%  Similarity=0.310  Sum_probs=140.0

Q ss_pred             cCcCCCCC---CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAPS---TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |.+.|.|.   +++|.++.++.|..+    +..+..++++|+||||||||++++++++++...    ++. ..++.+|++
T Consensus         3 w~~kyrP~~l~~~~g~~~~~~~L~~~----~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~----~~~-~~~~eln~s   73 (319)
T PLN03025          3 WVEKYRPTKLDDIVGNEDAVSRLQVI----ARDGNMPNLILSGPPGTGKTTSILALAHELLGP----NYK-EAVLELNAS   73 (319)
T ss_pred             hhhhcCCCCHHHhcCcHHHHHHHHHH----HhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc----cCc-cceeeeccc
Confidence            44566774   688999877766655    444566789999999999999999999998532    111 246777776


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcE
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRF  273 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v  273 (517)
                      ...+...+ +.+...+                   -............||+|||+|.|....|+.|...++...   ...
T Consensus        74 d~~~~~~v-r~~i~~~-------------------~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~---~~t  130 (319)
T PLN03025         74 DDRGIDVV-RNKIKMF-------------------AQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYS---NTT  130 (319)
T ss_pred             ccccHHHH-HHHHHHH-------------------HhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhccc---CCc
Confidence            65443321 1111111                   000000012346799999999998888888888886532   233


Q ss_pred             EEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHH
Q 010136          274 ILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSV  353 (517)
Q Consensus       274 ~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~l  353 (517)
                      .+|.++|.   ...+.+.++|| +  ..+.|.+++.+++..+|...+... ...++++++++++.   ...||+|.+++.
T Consensus       131 ~~il~~n~---~~~i~~~L~SR-c--~~i~f~~l~~~~l~~~L~~i~~~e-gi~i~~~~l~~i~~---~~~gDlR~aln~  200 (319)
T PLN03025        131 RFALACNT---SSKIIEPIQSR-C--AIVRFSRLSDQEILGRLMKVVEAE-KVPYVPEGLEAIIF---TADGDMRQALNN  200 (319)
T ss_pred             eEEEEeCC---ccccchhHHHh-h--hcccCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCHHHHHHH
Confidence            45556774   55678899999 6  689999999999999999887642 24788999999877   578999999999


Q ss_pred             HHHH
Q 010136          354 CRSA  357 (517)
Q Consensus       354 l~~A  357 (517)
                      ++.+
T Consensus       201 Lq~~  204 (319)
T PLN03025        201 LQAT  204 (319)
T ss_pred             HHHH
Confidence            9843

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

Probab=99.82  E-value=3.3e-19  Score=181.62  Aligned_cols=225  Identities=16%  Similarity=0.171  Sum_probs=155.7

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      ..+++.|.+.+.++|.+.+...+..         ..+.+++|+||||||||+++++++.++.          ..++.+.+
T Consensus       143 ~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~----------~~fi~i~~  212 (398)
T PTZ00454        143 TYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTT----------ATFIRVVG  212 (398)
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcC----------CCEEEEeh
Confidence            3456889999999998887543321         2467899999999999999999998754          35777766


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~  261 (517)
                      ..+..          ...       +. ....++.+|..   .....|.||||||+|.+...+           +..+..
T Consensus       213 s~l~~----------k~~-------ge-~~~~lr~lf~~---A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~  271 (398)
T PTZ00454        213 SEFVQ----------KYL-------GE-GPRMVRDVFRL---ARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLE  271 (398)
T ss_pred             HHHHH----------Hhc-------ch-hHHHHHHHHHH---HHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHH
Confidence            43211          110       11 14456677752   235678999999999986432           234566


Q ss_pred             HhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          262 LFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       262 l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      ++.+..  ....++.||++||.   ++.+++++.+.......|.|++++.++...|++..+....  .-.+-.++.++..
T Consensus       272 LL~~ld~~~~~~~v~VI~aTN~---~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~--l~~dvd~~~la~~  346 (398)
T PTZ00454        272 LLNQMDGFDQTTNVKVIMATNR---ADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMN--LSEEVDLEDFVSR  346 (398)
T ss_pred             HHHHhhccCCCCCEEEEEecCC---chhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCC--CCcccCHHHHHHH
Confidence            665422  13357889999994   6778888876322346899999999999999997776542  1122335666665


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          340 VAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      +...+  ......+|+.|...|.++++.                            .|+.+||.+|+.++...
T Consensus       347 t~g~s--gaDI~~l~~eA~~~A~r~~~~----------------------------~i~~~df~~A~~~v~~~  389 (398)
T PTZ00454        347 PEKIS--AADIAAICQEAGMQAVRKNRY----------------------------VILPKDFEKGYKTVVRK  389 (398)
T ss_pred             cCCCC--HHHHHHHHHHHHHHHHHcCCC----------------------------ccCHHHHHHHHHHHHhc
Confidence            44433  344557999999999887765                            79999999999987543

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

Probab=99.81  E-value=2e-19  Score=163.86  Aligned_cols=221  Identities=19%  Similarity=0.209  Sum_probs=160.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      -+-|.++++++|.+.+.--++         -..+.++++|||||||||.++++++..-.          +.|+.|+++.+
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~----------c~firvsgsel  217 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTD----------CTFIRVSGSEL  217 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcc----------eEEEEechHHH
Confidence            466788999999888754332         23578999999999999999999986532          57999998765


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHhc
Q 010136          196 TNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLFM  264 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~~  264 (517)
                      ...+-                 |.. ...++++|-   +++...|.|||+||||.+.+.+           |..+..|++
T Consensus       218 vqk~i-----------------geg-srmvrelfv---marehapsiifmdeidsigs~r~e~~~ggdsevqrtmlelln  276 (404)
T KOG0728|consen  218 VQKYI-----------------GEG-SRMVRELFV---MAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLN  276 (404)
T ss_pred             HHHHh-----------------hhh-HHHHHHHHH---HHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHH
Confidence            32222                 222 567888886   6678889999999999997542           233444443


Q ss_pred             cC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          265 LT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       265 ~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      ..  .....++-+|.++|.+|.   ++|++.+.....+.|.|+|++.+...+||+-.-.+.  +..---.+..+|+++.+
T Consensus       277 qldgfeatknikvimatnridi---ld~allrpgridrkiefp~p~e~ar~~ilkihsrkm--nl~rgi~l~kiaekm~g  351 (404)
T KOG0728|consen  277 QLDGFEATKNIKVIMATNRIDI---LDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKM--NLTRGINLRKIAEKMPG  351 (404)
T ss_pred             hccccccccceEEEEecccccc---ccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhh--chhcccCHHHHHHhCCC
Confidence            21  123468889999997664   567777664556799999999999999998655433  11112236778887777


Q ss_pred             HhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          343 ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      .+|.--  -.+|.+|..+|.++.+-                            .||.+||+-|+.++..
T Consensus       352 asgaev--k~vcteagm~alrerrv----------------------------hvtqedfemav~kvm~  390 (404)
T KOG0728|consen  352 ASGAEV--KGVCTEAGMYALRERRV----------------------------HVTQEDFEMAVAKVMQ  390 (404)
T ss_pred             Cccchh--hhhhhhhhHHHHHHhhc----------------------------cccHHHHHHHHHHHHh
Confidence            777522  35899999999999887                            8999999999988754

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.81  E-value=1.2e-18  Score=182.14  Aligned_cols=202  Identities=20%  Similarity=0.258  Sum_probs=140.7

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHH--hcCC--------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAK--EAGL--------  182 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~--~~~~--------  182 (517)
                      |...|.|   ++++|.+...+.|..++.    .++..+ ++|+|++|||||++++.+++.+.+...  +.+.        
T Consensus         6 LarKYRPqtFddVIGQe~vv~~L~~al~----~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C   81 (700)
T PRK12323          6 LARKWRPRDFTTLVGQEHVVRALTHALE----QQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQC   81 (700)
T ss_pred             HHHHhCCCcHHHHcCcHHHHHHHHHHHH----hCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCccc
Confidence            3344555   479999997776666654    345454 689999999999999999999875211  0000        


Q ss_pred             ---------CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhc
Q 010136          183 ---------QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       183 ---------~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~  252 (517)
                               ....++++++....+                        .+.+++++... +....++..|+||||+|.|.
T Consensus        82 ~sC~~I~aG~hpDviEIdAas~~g------------------------VDdIReLie~~~~~P~~gr~KViIIDEah~Ls  137 (700)
T PRK12323         82 RACTEIDAGRFVDYIEMDAASNRG------------------------VDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLT  137 (700)
T ss_pred             HHHHHHHcCCCCcceEecccccCC------------------------HHHHHHHHHHHHhchhcCCceEEEEEChHhcC
Confidence                     001334444332221                        23333333321 11224566899999999997


Q ss_pred             ccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhH
Q 010136          253 TRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQA  332 (517)
Q Consensus       253 ~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~a  332 (517)
                      ...++.|...++.   +..++.||+++|.   +.++.+.++|| |  +.+.|.+++.+++.+.|...+... ...+++++
T Consensus       138 ~~AaNALLKTLEE---PP~~v~FILaTte---p~kLlpTIrSR-C--q~f~f~~ls~eei~~~L~~Il~~E-gi~~d~eA  207 (700)
T PRK12323        138 NHAFNAMLKTLEE---PPEHVKFILATTD---PQKIPVTVLSR-C--LQFNLKQMPPGHIVSHLDAILGEE-GIAHEVNA  207 (700)
T ss_pred             HHHHHHHHHhhcc---CCCCceEEEEeCC---hHhhhhHHHHH-H--HhcccCCCChHHHHHHHHHHHHHc-CCCCCHHH
Confidence            7666666666654   4467788888884   67788999999 7  799999999999999999877632 24678899


Q ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 010136          333 LELCARKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       333 i~~ia~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                      ++.|++   ...|++|.|++++..++.
T Consensus       208 L~~IA~---~A~Gs~RdALsLLdQaia  231 (700)
T PRK12323        208 LRLLAQ---AAQGSMRDALSLTDQAIA  231 (700)
T ss_pred             HHHHHH---HcCCCHHHHHHHHHHHHH
Confidence            999887   589999999999988764

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.80  E-value=4.8e-19  Score=184.11  Aligned_cols=224  Identities=14%  Similarity=0.126  Sum_probs=157.1

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhh------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNL------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      .+++.|.+...+.+......+.      .-..+.+++|+||||||||+++++++.+++          ..++.+++..+.
T Consensus       227 ~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~----------~~~~~l~~~~l~  296 (489)
T CHL00195        227 ISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQ----------LPLLRLDVGKLF  296 (489)
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC----------CCEEEEEhHHhc
Confidence            3468888876666655332211      113467899999999999999999998864          468888875432


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC---------chHHHHHhccCC
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD---------RAVLHDLFMLTT  267 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~---------~~~L~~l~~~~~  267 (517)
                      +.+                 .|. ....++++|..   .....|+||||||||.+....         ..++..++.|..
T Consensus       297 ~~~-----------------vGe-se~~l~~~f~~---A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~  355 (489)
T CHL00195        297 GGI-----------------VGE-SESRMRQMIRI---AEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLS  355 (489)
T ss_pred             ccc-----------------cCh-HHHHHHHHHHH---HHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHh
Confidence            211                 122 25677777762   234578999999999986531         134555666655


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-C
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-D  346 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d  346 (517)
                      ....++.||++||.   ++.+++.+.+.......|+|+.++.++..+|++..+.........+..++.+|+.+.+++| |
T Consensus       356 ~~~~~V~vIaTTN~---~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAd  432 (489)
T CHL00195        356 EKKSPVFVVATANN---IDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAE  432 (489)
T ss_pred             cCCCceEEEEecCC---hhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHH
Confidence            45678999999995   6678888876322246899999999999999999987654333445567888887666555 4


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      ++   .+|..|...|..+++                             .++.+|+..|+..+.+.
T Consensus       433 I~---~lv~eA~~~A~~~~~-----------------------------~lt~~dl~~a~~~~~Pl  466 (489)
T CHL00195        433 IE---QSIIEAMYIAFYEKR-----------------------------EFTTDDILLALKQFIPL  466 (489)
T ss_pred             HH---HHHHHHHHHHHHcCC-----------------------------CcCHHHHHHHHHhcCCC
Confidence            54   567788777765443                             58999999999988764

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.80  E-value=3.1e-18  Score=177.19  Aligned_cols=196  Identities=18%  Similarity=0.220  Sum_probs=140.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC--------------CCCceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG--------------LQQPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~--------------~~~~~~v  188 (517)
                      ++++|++...+.|...    +..++ +.+++|+||+|+|||++|+.+++.+.+......              .....++
T Consensus        13 ~dliGQe~vv~~L~~a----~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~   88 (491)
T PRK14964         13 KDLVGQDVLVRILRNA----FTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVI   88 (491)
T ss_pred             HHhcCcHHHHHHHHHH----HHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEE
Confidence            4789999866655544    44444 457999999999999999999998764321100              1124677


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      ++++.+..+..++                        +.++... ......+..|+||||+|.|....++.|...++.+ 
T Consensus        89 eidaas~~~vddI------------------------R~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEeP-  143 (491)
T PRK14964         89 EIDAASNTSVDDI------------------------KVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEP-  143 (491)
T ss_pred             EEecccCCCHHHH------------------------HHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCC-
Confidence            7777655444332                        2222110 1112345679999999999876677777766653 


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                        ...+.+|++++.   ...+.+.++|| |  ..+.|.+++.+++.+.+...+... ...+++++++++++   ...||+
T Consensus       144 --p~~v~fIlatte---~~Kl~~tI~SR-c--~~~~f~~l~~~el~~~L~~ia~~E-gi~i~~eAL~lIa~---~s~Gsl  211 (491)
T PRK14964        144 --APHVKFILATTE---VKKIPVTIISR-C--QRFDLQKIPTDKLVEHLVDIAKKE-NIEHDEESLKLIAE---NSSGSM  211 (491)
T ss_pred             --CCCeEEEEEeCC---hHHHHHHHHHh-h--eeeecccccHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCH
Confidence              456777877774   45677889999 7  789999999999999999887643 24789999999988   468999


Q ss_pred             HHHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIEI  360 (517)
Q Consensus       348 R~al~ll~~A~~~  360 (517)
                      |.|++++..++.+
T Consensus       212 R~alslLdqli~y  224 (491)
T PRK14964        212 RNALFLLEQAAIY  224 (491)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988754

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.80  E-value=1.9e-18  Score=186.24  Aligned_cols=195  Identities=19%  Similarity=0.228  Sum_probs=136.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeE-EEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC--------------CceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSL-YVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ--------------QPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~l-li~G~pGtGKT~l~~~v~~~l~~~~~~~~~~--------------~~~~v  188 (517)
                      ++++|.+..++.|..++    ..++..+. +|+||||||||++++.+++.+.+.....+.+              ...++
T Consensus        16 ddIIGQe~Iv~~LknaI----~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dvi   91 (944)
T PRK14949         16 EQMVGQSHVLHALTNAL----TQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLI   91 (944)
T ss_pred             HHhcCcHHHHHHHHHHH----HhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEE
Confidence            57999999777666554    44556665 7999999999999999999987531100000              01123


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      ++++.....                        .+.++.+.... .....++..|+||||+|.|....++.|...++.  
T Consensus        92 EidAas~~k------------------------VDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEE--  145 (944)
T PRK14949         92 EVDAASRTK------------------------VDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEE--  145 (944)
T ss_pred             EeccccccC------------------------HHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhc--
Confidence            333321111                        22222222210 111235568999999999987777777777765  


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                       +..++.+|++++.   ...+.+.++|| |  .++.|.+++.+++.++|..++... ...+++++++.|++   ...|++
T Consensus       146 -PP~~vrFILaTTe---~~kLl~TIlSR-C--q~f~fkpLs~eEI~~~L~~il~~E-gI~~edeAL~lIA~---~S~Gd~  214 (944)
T PRK14949        146 -PPEHVKFLLATTD---PQKLPVTVLSR-C--LQFNLKSLTQDEIGTQLNHILTQE-QLPFEAEALTLLAK---AANGSM  214 (944)
T ss_pred             -cCCCeEEEEECCC---chhchHHHHHh-h--eEEeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCH
Confidence             3457777777774   55678889998 7  799999999999999999888642 34789999999987   589999


Q ss_pred             HHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIE  359 (517)
Q Consensus       348 R~al~ll~~A~~  359 (517)
                      |.|+++|..|+.
T Consensus       215 R~ALnLLdQala  226 (944)
T PRK14949        215 RDALSLTDQAIA  226 (944)
T ss_pred             HHHHHHHHHHHH
Confidence            999999988773

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.80  E-value=3.2e-18  Score=174.09  Aligned_cols=202  Identities=18%  Similarity=0.202  Sum_probs=135.6

Q ss_pred             CcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC----------
Q 010136          118 HVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ----------  183 (517)
Q Consensus       118 ~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~----------  183 (517)
                      ...|.|   ++++|++..++.+...+.    .++.+ .++|+||||+|||++++.+++.+.......+.+          
T Consensus         7 ~~kyrP~~~~~iiGq~~~~~~l~~~~~----~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~   82 (363)
T PRK14961          7 ARKWRPQYFRDIIGQKHIVTAISNGLS----LGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEI   82 (363)
T ss_pred             HHHhCCCchhhccChHHHHHHHHHHHH----cCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHH
Confidence            334444   479999997776665544    34444 468999999999999999999886321100000          


Q ss_pred             ----CceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchH
Q 010136          184 ----QPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAV  258 (517)
Q Consensus       184 ----~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~  258 (517)
                          .+.++++++.....                        .+.++.++... .........|+||||+|.+....++.
T Consensus        83 ~~~~~~d~~~~~~~~~~~------------------------v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~na  138 (363)
T PRK14961         83 EKGLCLDLIEIDAASRTK------------------------VEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNA  138 (363)
T ss_pred             hcCCCCceEEecccccCC------------------------HHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHH
Confidence                01233333221111                        22333333210 11123455799999999997655666


Q ss_pred             HHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          259 LHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       259 L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      |...++.+   ...+.+|++++.   .+.+.+.+.|| |  ..+.|.|++.+++.++|..++... ...+++++++++++
T Consensus       139 LLk~lEe~---~~~~~fIl~t~~---~~~l~~tI~SR-c--~~~~~~~l~~~el~~~L~~~~~~~-g~~i~~~al~~ia~  208 (363)
T PRK14961        139 LLKTLEEP---PQHIKFILATTD---VEKIPKTILSR-C--LQFKLKIISEEKIFNFLKYILIKE-SIDTDEYALKLIAY  208 (363)
T ss_pred             HHHHHhcC---CCCeEEEEEcCC---hHhhhHHHHhh-c--eEEeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH
Confidence            66666543   346667777764   45678899999 6  689999999999999999888753 24689999999987


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHH
Q 010136          339 KVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                         .+.||+|.|++++..++..
T Consensus       209 ---~s~G~~R~al~~l~~~~~~  227 (363)
T PRK14961        209 ---HAHGSMRDALNLLEHAINL  227 (363)
T ss_pred             ---HcCCCHHHHHHHHHHHHHh
Confidence               4689999999999988743

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.80  E-value=1.9e-18  Score=182.13  Aligned_cols=267  Identities=17%  Similarity=0.205  Sum_probs=167.5

Q ss_pred             CcCCCC---CCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC-----------
Q 010136          118 HVSTAP---STIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL-----------  182 (517)
Q Consensus       118 ~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~-----------  182 (517)
                      ...|.|   ++++|.+...+.|..++.    .++ ...++|+||||||||++++.+++.+.+.....+.           
T Consensus         7 a~KyRP~sf~dIiGQe~v~~~L~~ai~----~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i   82 (624)
T PRK14959          7 TARYRPQTFAEVAGQETVKAILSRAAQ----ENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKV   82 (624)
T ss_pred             HHHhCCCCHHHhcCCHHHHHHHHHHHH----cCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHH
Confidence            334444   478999887666655544    333 5678899999999999999999998752110000           


Q ss_pred             ---CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHH
Q 010136          183 ---QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVL  259 (517)
Q Consensus       183 ---~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L  259 (517)
                         ....++++++........                     .+.|.+.+..  ........||||||+|.|....++.|
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~---------------------iR~L~~~~~~--~p~~g~~kVIIIDEad~Lt~~a~naL  139 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDD---------------------AKRLKEAIGY--APMEGRYKVFIIDEAHMLTREAFNAL  139 (624)
T ss_pred             hcCCCCceEEEecccccCHHH---------------------HHHHHHHHHh--hhhcCCceEEEEEChHhCCHHHHHHH
Confidence               112344444432211111                     1223333321  11234567999999999976656666


Q ss_pred             HHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          260 HDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       260 ~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      ...++.   +...+++|+++|.   +..+.+.++|| |  ..|.|.+++.+++..+|...+... ...+++++++++++ 
T Consensus       140 Lk~LEE---P~~~~ifILaTt~---~~kll~TI~SR-c--q~i~F~pLs~~eL~~~L~~il~~e-gi~id~eal~lIA~-  208 (624)
T PRK14959        140 LKTLEE---PPARVTFVLATTE---PHKFPVTIVSR-C--QHFTFTRLSEAGLEAHLTKVLGRE-GVDYDPAAVRLIAR-  208 (624)
T ss_pred             HHHhhc---cCCCEEEEEecCC---hhhhhHHHHhh-h--hccccCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH-
Confidence            555544   3457888888884   55667778898 6  689999999999999999877643 23589999999988 


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhc
Q 010136          340 VAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIK  419 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~  419 (517)
                        ...||+|.|++++..++  +.  +..                            .|+.++|.+++.......+.+.+.
T Consensus       209 --~s~GdlR~Al~lLeqll--~~--g~~----------------------------~It~d~V~~~lg~~~~e~vfeLl~  254 (624)
T PRK14959        209 --RAAGSVRDSMSLLGQVL--AL--GES----------------------------RLTIDGARGVLGLAGQELFLRLME  254 (624)
T ss_pred             --HcCCCHHHHHHHHHHHH--Hh--cCC----------------------------CcCHHHHHHHhCCCCHHHHHHHHH
Confidence              46799999999998754  11  211                            588888888876554444555555


Q ss_pred             cCCHHHHHHHHHHHHH-HhcCC-CCccHHHHHHHHHHHH
Q 010136          420 SLPQHQQILLCSAVKF-FRGGK-KDMTVGELNKSYMNIC  456 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l-~~~~~-~~~~~~~l~~~y~~~~  456 (517)
                      .|..+....+..++.. ...+. ....+..|+..|.++.
T Consensus       255 AL~~~D~~aal~~l~~Ll~~g~d~~~iL~~Ll~~~RdLL  293 (624)
T PRK14959        255 ALAAQDCLGVANVVRELLDRGVDMGFFLRELVATWRNLF  293 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            5544333333333332 22222 1233556666666543

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.80  E-value=7.4e-19  Score=179.25  Aligned_cols=225  Identities=19%  Similarity=0.232  Sum_probs=152.1

Q ss_pred             cCCCCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE
Q 010136          119 VSTAPSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS  189 (517)
Q Consensus       119 ~~~~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~  189 (517)
                      +.+.++++.|+++++++|.+++...+..         ..+.+++|+||||||||+++++++.++.          ..++.
T Consensus       117 p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~----------~~~~~  186 (364)
T TIGR01242       117 PNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN----------ATFIR  186 (364)
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCC----------CCEEe
Confidence            3455668999999999999988654332         2367899999999999999999988764          24566


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chH
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAV  258 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~  258 (517)
                      +.+..+          .....       + .....+..+|..   .....+.||||||+|.+....           +..
T Consensus       187 v~~~~l----------~~~~~-------g-~~~~~i~~~f~~---a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~  245 (364)
T TIGR01242       187 VVGSEL----------VRKYI-------G-EGARLVREIFEL---AKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRT  245 (364)
T ss_pred             cchHHH----------HHHhh-------h-HHHHHHHHHHHH---HHhcCCcEEEhhhhhhhccccccCCCCccHHHHHH
Confidence            654322          11110       1 113445556652   234567899999999996431           234


Q ss_pred             HHHHhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHH
Q 010136          259 LHDLFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELC  336 (517)
Q Consensus       259 L~~l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~i  336 (517)
                      +..++....  ....++.||+++|.   ++.+++.+.+.......|.|++|+.++..+|++..+....  .-.+..++.+
T Consensus       246 l~~ll~~ld~~~~~~~v~vI~ttn~---~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~--l~~~~~~~~l  320 (364)
T TIGR01242       246 LMQLLAELDGFDPRGNVKVIAATNR---PDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMK--LAEDVDLEAI  320 (364)
T ss_pred             HHHHHHHhhCCCCCCCEEEEEecCC---hhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCC--CCccCCHHHH
Confidence            555554321  12357899999995   4567777775311235899999999999999998776532  1112236667


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHh
Q 010136          337 ARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       337 a~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~  409 (517)
                      ++.+...+|  +....+|+.|+..|.+++..                            .|+.+||.+|+..+
T Consensus       321 a~~t~g~sg--~dl~~l~~~A~~~a~~~~~~----------------------------~i~~~d~~~a~~~~  363 (364)
T TIGR01242       321 AKMTEGASG--ADLKAICTEAGMFAIREERD----------------------------YVTMDDFIKAVEKV  363 (364)
T ss_pred             HHHcCCCCH--HHHHHHHHHHHHHHHHhCCC----------------------------ccCHHHHHHHHHHh
Confidence            776544444  23336899999999887665                            79999999999875

Many proteins may score above the trusted cutoff because an internal

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

Probab=99.80  E-value=4.2e-18  Score=176.66  Aligned_cols=240  Identities=18%  Similarity=0.292  Sum_probs=187.3

Q ss_pred             CCchhhhhhhhccCCCCCCC-ChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHh--hccCCCCeEEEEcCCCCcH
Q 010136           86 SPVKKKLCDSFKSKPNWNPQ-DVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKN--LEEEKAGSLYVCGCPGTGK  162 (517)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~--l~~~~~~~lli~G~pGtGK  162 (517)
                      ....+.|-+++..-||+... +--++..+++.|+.++     +|.++..++|.++|.-.  ...-.++.++|+||||+||
T Consensus       289 ~~ViRnYlDwll~lPW~~~sk~~~Dl~~a~~iLd~dH-----YGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGK  363 (782)
T COG0466         289 ATVIRNYLDWLLDLPWGKRSKDKLDLKKAEKILDKDH-----YGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGK  363 (782)
T ss_pred             HHHHHHHHHHHHhCCCccccchhhhHHHHHHHhcccc-----cCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCc
Confidence            34466788899998887665 4558899999999987     89999999999997543  3334577899999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEE
Q 010136          163 SLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMML  242 (517)
Q Consensus       163 T~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~v  242 (517)
                      |++++.+|+.+++          .|+.++.....+..+        +.|+...+-|..+.+.++.+-.     ....+.|
T Consensus       364 TSLgkSIA~al~R----------kfvR~sLGGvrDEAE--------IRGHRRTYIGamPGrIiQ~mkk-----a~~~NPv  420 (782)
T COG0466         364 TSLGKSIAKALGR----------KFVRISLGGVRDEAE--------IRGHRRTYIGAMPGKIIQGMKK-----AGVKNPV  420 (782)
T ss_pred             hhHHHHHHHHhCC----------CEEEEecCccccHHH--------hccccccccccCChHHHHHHHH-----hCCcCCe
Confidence            9999999999875          699999888877665        5888888889888888888765     3555679


Q ss_pred             EEEeCcchhcccC----chHHHHHhccCC------------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCC
Q 010136          243 IIADELDYLITRD----RAVLHDLFMLTT------------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRA  306 (517)
Q Consensus       243 I~iDEiD~L~~~~----~~~L~~l~~~~~------------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p  306 (517)
                      ++|||||.+...-    ..+|.+.++-.+            ..-++|.||+++|+++   .+...|..| +  +.|.+..
T Consensus       421 ~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~---tIP~PLlDR-M--EiI~lsg  494 (782)
T COG0466         421 FLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLD---TIPAPLLDR-M--EVIRLSG  494 (782)
T ss_pred             EEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccc---cCChHHhcc-e--eeeeecC
Confidence            9999999998753    256666665422            1347999999999754   445566676 7  8999999


Q ss_pred             CCHHHHHHHHHHHHh-------hhc--cCCCChhHHHHHHHHHHHHhC--CH-HHHHHHHHHHHH
Q 010136          307 YSKDQIIRILQERLM-------ELS--YIVFQPQALELCARKVAAASG--DM-RKALSVCRSAIE  359 (517)
Q Consensus       307 ~~~~e~~~IL~~rl~-------~~~--~~~~~~~ai~~ia~~~~~~~G--d~-R~al~ll~~A~~  359 (517)
                      |+.+|-.+|.+..|-       ++.  .-.|+++++..+.+.+.+..|  ++ |..-.+||.++.
T Consensus       495 Yt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~LeR~i~ki~RK~~~  559 (782)
T COG0466         495 YTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLEREIAKICRKAAK  559 (782)
T ss_pred             CChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHHH
Confidence            999999999998772       222  357789999999999888877  34 444467877764

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.79  E-value=4.3e-18  Score=178.50  Aligned_cols=201  Identities=18%  Similarity=0.194  Sum_probs=139.7

Q ss_pred             CcCCCC---CCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC------------
Q 010136          118 HVSTAP---STIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG------------  181 (517)
Q Consensus       118 ~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~------------  181 (517)
                      ...|.|   ++++|++...+.|..++.    .++ +..++|+||||||||++|+.+++.+.+.....+            
T Consensus         6 arKyRPktFddVIGQe~vv~~L~~aI~----~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I   81 (702)
T PRK14960          6 ARKYRPRNFNELVGQNHVSRALSSALE----RGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAV   81 (702)
T ss_pred             HHHhCCCCHHHhcCcHHHHHHHHHHHH----cCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHH
Confidence            334455   479999998777766655    344 456799999999999999999999864211000            


Q ss_pred             --CCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchH
Q 010136          182 --LQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAV  258 (517)
Q Consensus       182 --~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~  258 (517)
                        ...+.++.+++.....                        .+.+++++... +....++..|+||||+|.|....++.
T Consensus        82 ~~g~hpDviEIDAAs~~~------------------------VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NA  137 (702)
T PRK14960         82 NEGRFIDLIEIDAASRTK------------------------VEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNA  137 (702)
T ss_pred             hcCCCCceEEecccccCC------------------------HHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHH
Confidence              0112345555543222                        22233333210 11123456799999999998777777


Q ss_pred             HHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          259 LHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       259 L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      |..+++.+   ...+.+|+++++   +..+.+.+.|| |  .++.|.+++.+++.+.|...+... ...++++++..+++
T Consensus       138 LLKtLEEP---P~~v~FILaTtd---~~kIp~TIlSR-C--q~feFkpLs~eEI~k~L~~Il~kE-gI~id~eAL~~IA~  207 (702)
T PRK14960        138 LLKTLEEP---PEHVKFLFATTD---PQKLPITVISR-C--LQFTLRPLAVDEITKHLGAILEKE-QIAADQDAIWQIAE  207 (702)
T ss_pred             HHHHHhcC---CCCcEEEEEECC---hHhhhHHHHHh-h--heeeccCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH
Confidence            77777653   346677777774   45566788888 7  799999999999999999887642 24789999999988


Q ss_pred             HHHHHhCCHHHHHHHHHHHHH
Q 010136          339 KVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~  359 (517)
                         .+.||+|.|++++..++.
T Consensus       208 ---~S~GdLRdALnLLDQaIa  225 (702)
T PRK14960        208 ---SAQGSLRDALSLTDQAIA  225 (702)
T ss_pred             ---HcCCCHHHHHHHHHHHHH
Confidence               578999999999988764

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

Probab=99.79  E-value=1.8e-18  Score=165.60  Aligned_cols=195  Identities=17%  Similarity=0.242  Sum_probs=139.8

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      +++|++..+.+ ...|...+..++.++++++||||||||++++.++..-..       ..+.||.+++..-.+...  +.
T Consensus       139 dyvGQ~hlv~q-~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~-------~SyrfvelSAt~a~t~dv--R~  208 (554)
T KOG2028|consen  139 DYVGQSHLVGQ-DGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKK-------HSYRFVELSATNAKTNDV--RD  208 (554)
T ss_pred             HhcchhhhcCc-chHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCC-------CceEEEEEeccccchHHH--HH
Confidence            57788776665 566777888889999999999999999999998765332       225688888776433211  11


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCc
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDL  284 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~  284 (517)
                      ++++-                ++..     .-.++..|||||||+.+....|+.+     ++...+..|++||+|+ .+-
T Consensus       209 ife~a----------------q~~~-----~l~krkTilFiDEiHRFNksQQD~f-----LP~VE~G~I~lIGATT-ENP  261 (554)
T KOG2028|consen  209 IFEQA----------------QNEK-----SLTKRKTILFIDEIHRFNKSQQDTF-----LPHVENGDITLIGATT-ENP  261 (554)
T ss_pred             HHHHH----------------HHHH-----hhhcceeEEEeHHhhhhhhhhhhcc-----cceeccCceEEEeccc-CCC
Confidence            11111                1111     1245668999999999977666665     3445678899999554 444


Q ss_pred             chhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh----------cc--CCCChhHHHHHHHHHHHHhCCHHHHHH
Q 010136          285 ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL----------SY--IVFQPQALELCARKVAAASGDMRKALS  352 (517)
Q Consensus       285 ~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~----------~~--~~~~~~ai~~ia~~~~~~~Gd~R~al~  352 (517)
                      .-++...|.|| |  .++.+.+++.+.+..||...+..+          +.  ..+++.++++++.   -+.||+|.|++
T Consensus       262 SFqln~aLlSR-C--~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~---lsdGDaR~aLN  335 (554)
T KOG2028|consen  262 SFQLNAALLSR-C--RVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAY---LSDGDARAALN  335 (554)
T ss_pred             ccchhHHHHhc-c--ceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHH---hcCchHHHHHH
Confidence            44678899999 7  799999999999999999755422          11  2467888999877   47899999999


Q ss_pred             HHHHHHHHHH
Q 010136          353 VCRSAIEILE  362 (517)
Q Consensus       353 ll~~A~~~a~  362 (517)
                      .|.-++.++.
T Consensus       336 ~Lems~~m~~  345 (554)
T KOG2028|consen  336 ALEMSLSMFC  345 (554)
T ss_pred             HHHHHHHHHH
Confidence            9988865443

>CHL00176 ftsH cell division protein; Validated

Probab=99.79  E-value=3.3e-18  Score=183.41  Aligned_cols=223  Identities=16%  Similarity=0.171  Sum_probs=156.9

Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          120 STAPSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       120 ~~~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      ....+++.|.++..+++.+.+.....        ...+.+++|+||||||||+++++++.++.          ..+++++
T Consensus       179 ~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~----------~p~i~is  248 (638)
T CHL00176        179 GITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAE----------VPFFSIS  248 (638)
T ss_pred             CCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC----------CCeeecc
Confidence            34557899999888887776543221        12366899999999999999999988753          4688888


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~  260 (517)
                      |..+...+.                 +. ....++.+|..   +....|+||||||+|.+....           +..|+
T Consensus       249 ~s~f~~~~~-----------------g~-~~~~vr~lF~~---A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~  307 (638)
T CHL00176        249 GSEFVEMFV-----------------GV-GAARVRDLFKK---AKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLN  307 (638)
T ss_pred             HHHHHHHhh-----------------hh-hHHHHHHHHHH---HhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHH
Confidence            876422111                 11 13456777763   235678999999999996421           24577


Q ss_pred             HHhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          261 DLFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       261 ~l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      .|+....  .....++||++||.   ++.+++++.++......|.|++++.+++.+||+..+...  ...++..+..+|+
T Consensus       308 ~LL~~~dg~~~~~~ViVIaaTN~---~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~--~~~~d~~l~~lA~  382 (638)
T CHL00176        308 QLLTEMDGFKGNKGVIVIAATNR---VDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNK--KLSPDVSLELIAR  382 (638)
T ss_pred             HHHhhhccccCCCCeeEEEecCc---hHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhc--ccchhHHHHHHHh
Confidence            7765421  23467999999995   566788888753334699999999999999999888753  2334556777776


Q ss_pred             HHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHh
Q 010136          339 KVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       339 ~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~  409 (517)
                      .   ..| ..+..-++|++|+..|.+.+..                            .|+++|+..|+..+
T Consensus       383 ~---t~G~sgaDL~~lvneAal~a~r~~~~----------------------------~It~~dl~~Ai~rv  423 (638)
T CHL00176        383 R---TPGFSGADLANLLNEAAILTARRKKA----------------------------TITMKEIDTAIDRV  423 (638)
T ss_pred             c---CCCCCHHHHHHHHHHHHHHHHHhCCC----------------------------CcCHHHHHHHHHHH
Confidence            4   344 4555557888888777665544                            79999999999876

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.79  E-value=8.5e-18  Score=175.37  Aligned_cols=206  Identities=18%  Similarity=0.209  Sum_probs=141.7

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC------------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG------------  181 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~------------  181 (517)
                      |...|.|   ++++|.+..+..|...+..   +..+..++|+||||||||++++.+++.+.+.....+            
T Consensus        11 la~kyRP~~f~dliGq~~vv~~L~~ai~~---~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~   87 (507)
T PRK06645         11 FARKYRPSNFAELQGQEVLVKVLSYTILN---DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTN   87 (507)
T ss_pred             hhhhhCCCCHHHhcCcHHHHHHHHHHHHc---CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChH
Confidence            3444555   3789999877665554432   233568999999999999999999999875321000            


Q ss_pred             ------CCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhccc
Q 010136          182 ------LQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       182 ------~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                            .....++++++....+                        .+.++.++... ......+..|+||||+|.|...
T Consensus        88 C~~i~~~~h~Dv~eidaas~~~------------------------vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~  143 (507)
T PRK06645         88 CISFNNHNHPDIIEIDAASKTS------------------------VDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKG  143 (507)
T ss_pred             HHHHhcCCCCcEEEeeccCCCC------------------------HHHHHHHHHHHHhccccCCcEEEEEEChhhcCHH
Confidence                  0012344444433222                        23333333321 1112345679999999999765


Q ss_pred             CchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHH
Q 010136          255 DRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALE  334 (517)
Q Consensus       255 ~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~  334 (517)
                      .++.|...++.   +...+++|++++.   .+.+.+.++|| |  ..+.|.+++.+++..+|..++... ...+++++++
T Consensus       144 a~naLLk~LEe---pp~~~vfI~aTte---~~kI~~tI~SR-c--~~~ef~~ls~~el~~~L~~i~~~e-gi~ie~eAL~  213 (507)
T PRK06645        144 AFNALLKTLEE---PPPHIIFIFATTE---VQKIPATIISR-C--QRYDLRRLSFEEIFKLLEYITKQE-NLKTDIEALR  213 (507)
T ss_pred             HHHHHHHHHhh---cCCCEEEEEEeCC---hHHhhHHHHhc-c--eEEEccCCCHHHHHHHHHHHHHHc-CCCCCHHHHH
Confidence            56666655553   4567777777764   55678889998 7  689999999999999999988743 2468999999


Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHH
Q 010136          335 LCARKVAAASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       335 ~ia~~~~~~~Gd~R~al~ll~~A~~~a~  362 (517)
                      ++++   .+.||+|.|+++++.++.++.
T Consensus       214 ~Ia~---~s~GslR~al~~Ldkai~~~~  238 (507)
T PRK06645        214 IIAY---KSEGSARDAVSILDQAASMSA  238 (507)
T ss_pred             HHHH---HcCCCHHHHHHHHHHHHHhhc
Confidence            9987   578999999999999886653

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.79  E-value=4.6e-18  Score=180.86  Aligned_cols=195  Identities=21%  Similarity=0.242  Sum_probs=137.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC--------------CceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ--------------QPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~--------------~~~~v  188 (517)
                      ++++|.+..++.|...+    ..++..+ ++|+||+|+|||++++.+++.+.+.....+.+              .+.++
T Consensus        16 ~divGQe~vv~~L~~~l----~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~i   91 (647)
T PRK07994         16 AEVVGQEHVLTALANAL----DLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLI   91 (647)
T ss_pred             HHhcCcHHHHHHHHHHH----HcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCce
Confidence            57999999776665554    4455555 57999999999999999999988631100000              01233


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      ++++.....                        .+.++++.... .....++..|+||||+|.|....++.|...++.+ 
T Consensus        92 eidaas~~~------------------------VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEP-  146 (647)
T PRK07994         92 EIDAASRTK------------------------VEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP-  146 (647)
T ss_pred             eecccccCC------------------------HHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcC-
Confidence            333322111                        23333333221 1112456679999999999877778887777663 


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                        ..++.+|+++++   +..+.+.++|| |  ..+.|.+++.+++...|..++... ...++++++..|++   .+.|++
T Consensus       147 --p~~v~FIL~Tt~---~~kLl~TI~SR-C--~~~~f~~Ls~~ei~~~L~~il~~e-~i~~e~~aL~~Ia~---~s~Gs~  214 (647)
T PRK07994        147 --PEHVKFLLATTD---PQKLPVTILSR-C--LQFHLKALDVEQIRQQLEHILQAE-QIPFEPRALQLLAR---AADGSM  214 (647)
T ss_pred             --CCCeEEEEecCC---ccccchHHHhh-h--eEeeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCH
Confidence              457778887774   55788899999 7  799999999999999999887532 24688999999987   589999


Q ss_pred             HHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIE  359 (517)
Q Consensus       348 R~al~ll~~A~~  359 (517)
                      |.|++++..|+.
T Consensus       215 R~Al~lldqaia  226 (647)
T PRK07994        215 RDALSLTDQAIA  226 (647)
T ss_pred             HHHHHHHHHHHH
Confidence            999999988764

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.79  E-value=7e-18  Score=178.60  Aligned_cols=197  Identities=17%  Similarity=0.195  Sum_probs=139.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhc----------------CCCCce
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEA----------------GLQQPE  186 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~----------------~~~~~~  186 (517)
                      ++++|++..++.|..++.    .+..++ ++|+||+|||||++++.+++.+.+.....                +.....
T Consensus        13 ~eivGq~~i~~~L~~~i~----~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~d   88 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALD----AGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSID   88 (584)
T ss_pred             HHhcCcHHHHHHHHHHHH----cCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCce
Confidence            478999987777666654    455666 68999999999999999999987521100                011234


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       187 ~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                      ++++++........+                     +.+.....  .........|+||||+|.|....++.|...++. 
T Consensus        89 vieidaas~~gvd~i---------------------Rel~~~~~--~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEE-  144 (584)
T PRK14952         89 VVELDAASHGGVDDT---------------------RELRDRAF--YAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEE-  144 (584)
T ss_pred             EEEeccccccCHHHH---------------------HHHHHHHH--hhhhcCCceEEEEECCCcCCHHHHHHHHHHHhc-
Confidence            555555443332221                     11111111  111234567999999999988777888777765 


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                        +...+++|++++.   +..+.+.++|| +  .++.|.+++.+++.+.|...+... ...++++++.++++   ...||
T Consensus       145 --pp~~~~fIL~tte---~~kll~TI~SR-c--~~~~F~~l~~~~i~~~L~~i~~~e-gi~i~~~al~~Ia~---~s~Gd  212 (584)
T PRK14952        145 --PPEHLIFIFATTE---PEKVLPTIRSR-T--HHYPFRLLPPRTMRALIARICEQE-GVVVDDAVYPLVIR---AGGGS  212 (584)
T ss_pred             --CCCCeEEEEEeCC---hHhhHHHHHHh-c--eEEEeeCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCC
Confidence              3457888887874   46788899999 7  799999999999999999877643 24689999999977   57899


Q ss_pred             HHHHHHHHHHHHHH
Q 010136          347 MRKALSVCRSAIEI  360 (517)
Q Consensus       347 ~R~al~ll~~A~~~  360 (517)
                      +|.|+++++.++..
T Consensus       213 lR~aln~Ldql~~~  226 (584)
T PRK14952        213 PRDTLSVLDQLLAG  226 (584)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999987643

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.78  E-value=1e-17  Score=163.01  Aligned_cols=207  Identities=15%  Similarity=0.155  Sum_probs=138.5

Q ss_pred             CCCCcHHHHHHHHHHHHHh---h----c----cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          125 TIVCREDEQKKVLEFCKKN---L----E----EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~---l----~----~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .++|.++..++|.+.+...   .    .    .+...+++|+||||||||++|+.+++.+....   ..+...+++++|.
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~---~~~~~~~v~~~~~   83 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMN---VLSKGHLIEVERA   83 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcC---cccCCceEEecHH
Confidence            4788888877776553221   1    0    12356899999999999999999999885421   1122357777776


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----chHHHHHhccCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----RAVLHDLFMLTTF  268 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----~~~L~~l~~~~~~  268 (517)
                      .+.+.+.                 +.. ...+...|..      ....||||||||.|....     .+.++.|+.....
T Consensus        84 ~l~~~~~-----------------g~~-~~~~~~~~~~------a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~  139 (261)
T TIGR02881        84 DLVGEYI-----------------GHT-AQKTREVIKK------ALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMED  139 (261)
T ss_pred             Hhhhhhc-----------------cch-HHHHHHHHHh------ccCCEEEEechhhhccCCccchHHHHHHHHHHHHhc
Confidence            5422111                 121 3455666652      123599999999997432     2455666655333


Q ss_pred             CCCcEEEEEEECCC--CcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH----
Q 010136          269 PFSRFILIGIANAI--DLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA----  342 (517)
Q Consensus       269 ~~~~v~lI~ian~~--~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~----  342 (517)
                      ....+++|+++...  +....++|.+.+| | ...|.|++|+.+++.+|++..+... ...++++++++++..+..    
T Consensus       140 ~~~~~~vila~~~~~~~~~~~~~p~L~sR-f-~~~i~f~~~~~~el~~Il~~~~~~~-~~~l~~~a~~~l~~~~~~~~~~  216 (261)
T TIGR02881       140 NRNEFVLILAGYSDEMDYFLSLNPGLRSR-F-PISIDFPDYTVEELMEIAERMVKER-EYKLTEEAKWKLREHLYKVDQL  216 (261)
T ss_pred             cCCCEEEEecCCcchhHHHHhcChHHHhc-c-ceEEEECCCCHHHHHHHHHHHHHHc-CCccCHHHHHHHHHHHHHHHhc
Confidence            34566666654432  2333467899998 6 4589999999999999999887653 346899999988776543    


Q ss_pred             ---HhCCHHHHHHHHHHHHHHH
Q 010136          343 ---ASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       343 ---~~Gd~R~al~ll~~A~~~a  361 (517)
                         ..||+|.+.+++..|....
T Consensus       217 ~~~~~gn~R~~~n~~e~a~~~~  238 (261)
T TIGR02881       217 SSREFSNARYVRNIIEKAIRRQ  238 (261)
T ss_pred             cCCCCchHHHHHHHHHHHHHHH
Confidence               2489999999998887544

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.

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

Probab=99.78  E-value=1.8e-18  Score=157.95  Aligned_cols=219  Identities=17%  Similarity=0.200  Sum_probs=152.2

Q ss_pred             CCCCcHHHHHHHHHHHHHh---------hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          125 TIVCREDEQKKVLEFCKKN---------LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~---------l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      ++-|.+-+.+++.+.++--         +.-.++.++++|||||||||++++++++.-.          ..|+.|+++.+
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~----------a~firvvgsef  225 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTT----------AAFIRVVGSEF  225 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccc----------hheeeeccHHH
Confidence            5666666666666554322         2234678999999999999999999987643          36899998775


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHhc
Q 010136          196 TNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLFM  264 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~~  264 (517)
                      ..+|.                 |.. -..++..|.   +++.+.|.||||||+|.+.+++           |..|.+|++
T Consensus       226 vqkyl-----------------geg-prmvrdvfr---lakenapsiifideidaiatkrfdaqtgadrevqril~elln  284 (408)
T KOG0727|consen  226 VQKYL-----------------GEG-PRMVRDVFR---LAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLN  284 (408)
T ss_pred             HHHHh-----------------ccC-cHHHHHHHH---HHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHH
Confidence            33332                 222 355777776   5568889999999999998753           345556655


Q ss_pred             cC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhH-HH-HHHHHH
Q 010136          265 LT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQA-LE-LCARKV  340 (517)
Q Consensus       265 ~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~a-i~-~ia~~~  340 (517)
                      -.  -....++-+|.++|.   .+.++|.+.+.+...+.|.|+-++..|..-++.....+.   .+++++ ++ ++++ -
T Consensus       285 qmdgfdq~~nvkvimatnr---adtldpallrpgrldrkiefplpdrrqkrlvf~titskm---~ls~~vdle~~v~r-p  357 (408)
T KOG0727|consen  285 QMDGFDQTTNVKVIMATNR---ADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKM---NLSDEVDLEDLVAR-P  357 (408)
T ss_pred             hccCcCcccceEEEEecCc---ccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcc---cCCcccCHHHHhcC-c
Confidence            42  234578999999995   567888888765556799999999988887777555443   223322 33 3333 2


Q ss_pred             HHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          341 AAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      ...+|.  ..-.+|+.|+..|.++++-                            .|...|+++|......
T Consensus       358 dkis~a--di~aicqeagm~avr~nry----------------------------vvl~kd~e~ay~~~vk  398 (408)
T KOG0727|consen  358 DKISGA--DINAICQEAGMLAVRENRY----------------------------VVLQKDFEKAYKTVVK  398 (408)
T ss_pred             cccchh--hHHHHHHHHhHHHHHhcce----------------------------eeeHHHHHHHHHhhcC
Confidence            233331  2336899999999999887                            8999999999877543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.78  E-value=6.2e-18  Score=177.63  Aligned_cols=203  Identities=20%  Similarity=0.207  Sum_probs=141.5

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcC-----------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAG-----------  181 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~-----------  181 (517)
                      |...|.|   ++++|.+..++.|..++..    +..++ ++|+||||||||++++.+++.+.+......           
T Consensus         6 l~~kyRP~~f~divGq~~v~~~L~~~~~~----~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~   81 (509)
T PRK14958          6 LARKWRPRCFQEVIGQAPVVRALSNALDQ----QYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCRE   81 (509)
T ss_pred             HHHHHCCCCHHHhcCCHHHHHHHHHHHHh----CCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHH
Confidence            3344555   4799999987777666543    44454 689999999999999999999875311000           


Q ss_pred             ---CCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCch
Q 010136          182 ---LQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       182 ---~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                         .....++++++.......                        .+++++... +....++..|+||||+|.|....++
T Consensus        82 i~~g~~~d~~eidaas~~~v~------------------------~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~n  137 (509)
T PRK14958         82 IDEGRFPDLFEVDAASRTKVE------------------------DTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFN  137 (509)
T ss_pred             HhcCCCceEEEEcccccCCHH------------------------HHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHH
Confidence               011235555554332222                        233333210 1122345679999999999877777


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|...++.+   ...+.+|+++++   +..+.+.+.|| |  ..+.|.+++.+++...+...+... ...+++++++.++
T Consensus       138 aLLk~LEep---p~~~~fIlattd---~~kl~~tI~SR-c--~~~~f~~l~~~~i~~~l~~il~~e-gi~~~~~al~~ia  207 (509)
T PRK14958        138 ALLKTLEEP---PSHVKFILATTD---HHKLPVTVLSR-C--LQFHLAQLPPLQIAAHCQHLLKEE-NVEFENAALDLLA  207 (509)
T ss_pred             HHHHHHhcc---CCCeEEEEEECC---hHhchHHHHHH-h--hhhhcCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            777776653   356777877874   56677789999 6  689999999999999999888643 2468899999998


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +   .+.||+|.|++++..++..
T Consensus       208 ~---~s~GslR~al~lLdq~ia~  227 (509)
T PRK14958        208 R---AANGSVRDALSLLDQSIAY  227 (509)
T ss_pred             H---HcCCcHHHHHHHHHHHHhc
Confidence            7   4689999999999887643

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.78  E-value=5.1e-18  Score=187.89  Aligned_cols=240  Identities=18%  Similarity=0.209  Sum_probs=157.8

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+++.|.+...+.|.+.+.-.+.         ...+.+++|+||||||||+++++++.++.          ..++.+++.
T Consensus       452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~----------~~fi~v~~~  521 (733)
T TIGR01243       452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESG----------ANFIAVRGP  521 (733)
T ss_pred             hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcC----------CCEEEEehH
Confidence            34577777777777666542221         13466899999999999999999998864          468888886


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC---------chHHHHHhc
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD---------RAVLHDLFM  264 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~---------~~~L~~l~~  264 (517)
                      .+.+.+.                 |.+ ...++.+|..   +....++||||||||.|....         +.++..|+.
T Consensus       522 ~l~~~~v-----------------Ges-e~~i~~~f~~---A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~  580 (733)
T TIGR01243       522 EILSKWV-----------------GES-EKAIREIFRK---ARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLT  580 (733)
T ss_pred             HHhhccc-----------------CcH-HHHHHHHHHH---HHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHH
Confidence            5433221                 333 6678888873   345678999999999997542         123444444


Q ss_pred             cCC--CCCCcEEEEEEECCCCcchhhcccccc--cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHH
Q 010136          265 LTT--FPFSRFILIGIANAIDLADRFLPRLQS--MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKV  340 (517)
Q Consensus       265 ~~~--~~~~~v~lI~ian~~~~~~~l~~~l~s--r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~  340 (517)
                      ...  ....+++|||+||.   ++.+++.+.+  | | ...|+|++++.++..+|++....+..  .-++..++.+|+.+
T Consensus       581 ~ldg~~~~~~v~vI~aTn~---~~~ld~allRpgR-f-d~~i~v~~Pd~~~R~~i~~~~~~~~~--~~~~~~l~~la~~t  653 (733)
T TIGR01243       581 EMDGIQELSNVVVIAATNR---PDILDPALLRPGR-F-DRLILVPPPDEEARKEIFKIHTRSMP--LAEDVDLEELAEMT  653 (733)
T ss_pred             HhhcccCCCCEEEEEeCCC---hhhCCHhhcCCCc-c-ceEEEeCCcCHHHHHHHHHHHhcCCC--CCccCCHHHHHHHc
Confidence            321  24568999999994   6778888886  5 5 46899999999999999987766542  11233477888866


Q ss_pred             HHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          341 AAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       341 ~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      .+++| |+.   .+|+.|...|.++.................          .....|+++||..|+.++..+.
T Consensus       654 ~g~sgadi~---~~~~~A~~~a~~~~~~~~~~~~~~~~~~~~----------~~~~~i~~~~f~~al~~~~ps~  714 (733)
T TIGR01243       654 EGYTGADIE---AVCREAAMAALRESIGSPAKEKLEVGEEEF----------LKDLKVEMRHFLEALKKVKPSV  714 (733)
T ss_pred             CCCCHHHHH---HHHHHHHHHHHHHHhhhccchhhhcccccc----------cccCcccHHHHHHHHHHcCCCC
Confidence            65555 443   578999888877654311100000000000          0012689999999998877664

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.78  E-value=2.6e-18  Score=181.93  Aligned_cols=222  Identities=16%  Similarity=0.149  Sum_probs=148.4

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhh--------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNL--------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l--------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++++|.++..+++.+.+....        ....+.+++|+||||||||+++++++.++.          ..++++++..
T Consensus        54 ~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~----------~~~~~i~~~~  123 (495)
T TIGR01241        54 FKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG----------VPFFSISGSD  123 (495)
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcC----------CCeeeccHHH
Confidence            3467787777776666554211        123466899999999999999999987753          4678887765


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~l~  263 (517)
                      +.+.+.                 +. ....+..+|...   ....|+||||||+|.+....+           ..+..++
T Consensus       124 ~~~~~~-----------------g~-~~~~l~~~f~~a---~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL  182 (495)
T TIGR01241       124 FVEMFV-----------------GV-GASRVRDLFEQA---KKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLL  182 (495)
T ss_pred             HHHHHh-----------------cc-cHHHHHHHHHHH---HhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHH
Confidence            321111                 11 145677777632   345678999999999975422           2344444


Q ss_pred             ccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          264 MLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       264 ~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      ...  ......++||++||   .++.+++.+.++......|.|+.++.++..+|++..+.....  -.+..++.+|+.+.
T Consensus       183 ~~~d~~~~~~~v~vI~aTn---~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~--~~~~~l~~la~~t~  257 (495)
T TIGR01241       183 VEMDGFGTNTGVIVIAATN---RPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKL--APDVDLKAVARRTP  257 (495)
T ss_pred             hhhccccCCCCeEEEEecC---ChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCC--CcchhHHHHHHhCC
Confidence            332  12345799999999   467788988874223468999999999999999988875421  13344667776544


Q ss_pred             HHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          342 AASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      ..+  ....-.+|++|...|.+++..                            .|+.+|+..|+....
T Consensus       258 G~s--gadl~~l~~eA~~~a~~~~~~----------------------------~i~~~~l~~a~~~~~  296 (495)
T TIGR01241       258 GFS--GADLANLLNEAALLAARKNKT----------------------------EITMNDIEEAIDRVI  296 (495)
T ss_pred             CCC--HHHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHHHh
Confidence            333  234446788887776655443                            699999999998764

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.

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

Probab=99.77  E-value=1.5e-18  Score=159.51  Aligned_cols=224  Identities=18%  Similarity=0.205  Sum_probs=163.9

Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEE
Q 010136          120 STAPSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI  190 (517)
Q Consensus       120 ~~~p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~v  190 (517)
                      +....++-|..++++.|.+.++.-+.         -..+.++++|||||||||.+++++++.-.          ..|+.|
T Consensus       173 dvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtd----------acfirv  242 (435)
T KOG0729|consen  173 DVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTD----------ACFIRV  242 (435)
T ss_pred             CcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccC----------ceEEee
Confidence            33445788899999999888754322         23577999999999999999999987633          367777


Q ss_pred             eCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHH
Q 010136          191 NCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVL  259 (517)
Q Consensus       191 n~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L  259 (517)
                      -++.+...|.                 |.. ...++++|.   +++.++.+|||+||||.+...+           |..+
T Consensus       243 igselvqkyv-----------------geg-armvrelf~---martkkaciiffdeidaiggarfddg~ggdnevqrtm  301 (435)
T KOG0729|consen  243 IGSELVQKYV-----------------GEG-ARMVRELFE---MARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTM  301 (435)
T ss_pred             hhHHHHHHHh-----------------hhh-HHHHHHHHH---HhcccceEEEEeeccccccCccccCCCCCcHHHHHHH
Confidence            7765433332                 222 567888887   6678889999999999987532           2233


Q ss_pred             HHHhcc--CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHH
Q 010136          260 HDLFML--TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELC  336 (517)
Q Consensus       260 ~~l~~~--~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~i  336 (517)
                      .+|+..  .-.+..++-|+.++|.   ++.++|.+.+.....+.+.|.-++-+....|++-.....   .++.+ -.+++
T Consensus       302 leli~qldgfdprgnikvlmatnr---pdtldpallrpgrldrkvef~lpdlegrt~i~kihaksm---sverdir~ell  375 (435)
T KOG0729|consen  302 LELINQLDGFDPRGNIKVLMATNR---PDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSM---SVERDIRFELL  375 (435)
T ss_pred             HHHHHhccCCCCCCCeEEEeecCC---CCCcCHhhcCCcccccceeccCCcccccceeEEEecccc---ccccchhHHHH
Confidence            333332  2246678999999994   777888888865556799999999998888887665543   22333 36788


Q ss_pred             HHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          337 ARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       337 a~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      |+.+-.++| ++|   .+|.+|.+.|.+..+.                            ..|..||.+|++++..
T Consensus       376 arlcpnstgaeir---svcteagmfairarrk----------------------------~atekdfl~av~kvvk  420 (435)
T KOG0729|consen  376 ARLCPNSTGAEIR---SVCTEAGMFAIRARRK----------------------------VATEKDFLDAVNKVVK  420 (435)
T ss_pred             HhhCCCCcchHHH---HHHHHhhHHHHHHHhh----------------------------hhhHHHHHHHHHHHHH
Confidence            887766666 566   6999999999998887                            7899999999988754

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.77  E-value=1.6e-17  Score=175.88  Aligned_cols=203  Identities=22%  Similarity=0.277  Sum_probs=139.2

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC----------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL----------  182 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~----------  182 (517)
                      |...|.|   ++++|++..++.|..++..    ++ +..++|+||+|+|||++++.+++.+.+.....+.          
T Consensus         6 LarKYRP~tFddIIGQe~vv~~L~~ai~~----~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~   81 (709)
T PRK08691          6 LARKWRPKTFADLVGQEHVVKALQNALDE----GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQ   81 (709)
T ss_pred             HHHHhCCCCHHHHcCcHHHHHHHHHHHHc----CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHH
Confidence            4445555   4799999988777777553    34 4568999999999999999999988642110000          


Q ss_pred             ----CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCch
Q 010136          183 ----QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       183 ----~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                          ..+.++++++.....                        .+.+++++... ......+..||||||+|.|....++
T Consensus        82 i~~g~~~DvlEidaAs~~g------------------------Vd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~N  137 (709)
T PRK08691         82 IDAGRYVDLLEIDAASNTG------------------------IDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFN  137 (709)
T ss_pred             HhccCccceEEEeccccCC------------------------HHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHH
Confidence                001233444322211                        23344443311 1111235579999999999765556


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|...++.   +...+.+|+++++   +..+.+.++|| |  ..+.|.+++.+++..+|..++... ...+++++++.|+
T Consensus       138 ALLKtLEE---Pp~~v~fILaTtd---~~kL~~TIrSR-C--~~f~f~~Ls~eeI~~~L~~Il~kE-gi~id~eAL~~Ia  207 (709)
T PRK08691        138 AMLKTLEE---PPEHVKFILATTD---PHKVPVTVLSR-C--LQFVLRNMTAQQVADHLAHVLDSE-KIAYEPPALQLLG  207 (709)
T ss_pred             HHHHHHHh---CCCCcEEEEEeCC---ccccchHHHHH-H--hhhhcCCCCHHHHHHHHHHHHHHc-CCCcCHHHHHHHH
Confidence            66666654   3356677777874   55677888898 7  689999999999999999888743 2478999999998


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +   ...||+|.++++|..++..
T Consensus       208 ~---~A~GslRdAlnLLDqaia~  227 (709)
T PRK08691        208 R---AAAGSMRDALSLLDQAIAL  227 (709)
T ss_pred             H---HhCCCHHHHHHHHHHHHHh
Confidence            8   4689999999999888754

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

Probab=99.77  E-value=7.8e-18  Score=185.82  Aligned_cols=240  Identities=16%  Similarity=0.209  Sum_probs=164.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||+++++++...|..    ....+++|+||||||||++++.+++.+........+....++++++..+......  
T Consensus       182 ~~~igr~~ei~~~~~~L~~----~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~--  255 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCR----RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKY--  255 (731)
T ss_pred             CcccCcHHHHHHHHHHHhc----CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccc--
Confidence            4689999999987776544    4567999999999999999999999875421111111346777775443211100  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----chHHHHHhccCCCCCCcEEEEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----RAVLHDLFMLTTFPFSRFILIGI  278 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----~~~L~~l~~~~~~~~~~v~lI~i  278 (517)
                                    .....+.+.++|...   ....+.||||||+|.|....     .....+++. +......+.+||+
T Consensus       256 --------------~g~~e~~l~~i~~~~---~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~-~~l~~g~i~~Iga  317 (731)
T TIGR02639       256 --------------RGDFEERLKAVVSEI---EKEPNAILFIDEIHTIVGAGATSGGSMDASNLLK-PALSSGKLRCIGS  317 (731)
T ss_pred             --------------cchHHHHHHHHHHHH---hccCCeEEEEecHHHHhccCCCCCccHHHHHHHH-HHHhCCCeEEEEe
Confidence                          112256677777632   12357899999999997532     112333332 2234578999999


Q ss_pred             ECCCCcch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh---hccCCCChhHHHHHHHHHHHHhCC---HHHH
Q 010136          279 ANAIDLAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME---LSYIVFQPQALELCARKVAAASGD---MRKA  350 (517)
Q Consensus       279 an~~~~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~---~~~~~~~~~ai~~ia~~~~~~~Gd---~R~a  350 (517)
                      ||..++..  ..++.+.+| |  +.|.|.+++.+++.+||+.....   .....+++++++.++.....+-+|   +++|
T Consensus       318 Tt~~e~~~~~~~d~al~rR-f--~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~ka  394 (731)
T TIGR02639       318 TTYEEYKNHFEKDRALSRR-F--QKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKA  394 (731)
T ss_pred             cCHHHHHHHhhhhHHHHHh-C--ceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHH
Confidence            98644322  347888888 7  58999999999999999965543   334578999999999988888877   8999


Q ss_pred             HHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          351 LSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       351 l~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                      +++++.|+..+...... .                       ....|+.+||..++..+..-|.
T Consensus       395 i~lld~a~a~~~~~~~~-~-----------------------~~~~v~~~~i~~~i~~~tgiP~  434 (731)
T TIGR02639       395 IDVIDEAGASFRLRPKA-K-----------------------KKANVSVKDIENVVAKMAHIPV  434 (731)
T ss_pred             HHHHHHhhhhhhcCccc-c-----------------------cccccCHHHHHHHHHHHhCCCh
Confidence            99999988644321110 0                       0016999999999998876653

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

Probab=99.77  E-value=4.9e-18  Score=155.78  Aligned_cols=222  Identities=18%  Similarity=0.181  Sum_probs=155.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhh---------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNL---------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l---------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++-|.++++++|.+.+--.+         .-..+.++++|||||||||.++++++.+-..          .|+.+.++.
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~a----------TFLKLAgPQ  240 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNA----------TFLKLAGPQ  240 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccc----------hHHHhcchH
Confidence            468899999999988863221         1234779999999999999999998876432          344444433


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~  263 (517)
                      +.          +-+-       |. ..+.++..|.   ++..+.|.||||||+|.+..++           |..+..|+
T Consensus       241 LV----------QMfI-------Gd-GAkLVRDAFa---LAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELL  299 (424)
T KOG0652|consen  241 LV----------QMFI-------GD-GAKLVRDAFA---LAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELL  299 (424)
T ss_pred             HH----------hhhh-------cc-hHHHHHHHHH---HhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHH
Confidence            21          1110       11 1566777786   5678889999999999998753           23344444


Q ss_pred             cc--CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          264 ML--TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       264 ~~--~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      +-  .-.+...+-+|+++|..|.   ++|.+.+.....+.|.|+-++.+....|++-.-.+.  .+-++--.+.+|+.+.
T Consensus       300 NQLDGFss~~~vKviAATNRvDi---LDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKM--nv~~DvNfeELaRsTd  374 (424)
T KOG0652|consen  300 NQLDGFSSDDRVKVIAATNRVDI---LDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKM--NVSDDVNFEELARSTD  374 (424)
T ss_pred             HhhcCCCCccceEEEeecccccc---cCHHHhhcccccccccCCCCChHHHHHHHHHhhhhc--CCCCCCCHHHHhhccc
Confidence            33  1235678999999997654   567777654456799999999999999998776654  2333444788888554


Q ss_pred             HHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          342 AASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      ...|---+  .+|-+|+++|.+.+..                            .|+-+||.+++.++..
T Consensus       375 dFNGAQcK--AVcVEAGMiALRr~at----------------------------ev~heDfmegI~eVqa  414 (424)
T KOG0652|consen  375 DFNGAQCK--AVCVEAGMIALRRGAT----------------------------EVTHEDFMEGILEVQA  414 (424)
T ss_pred             ccCchhhe--eeehhhhHHHHhcccc----------------------------cccHHHHHHHHHHHHH
Confidence            44554333  4788999999988766                            7999999999887764

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.77  E-value=8.6e-17  Score=166.54  Aligned_cols=190  Identities=19%  Similarity=0.239  Sum_probs=133.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|++..+.. ...|...+......+++|+||||||||++++.+++.+.          ..++.+++.... ...+ .
T Consensus        12 ~d~vGq~~~v~~-~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~----------~~~~~l~a~~~~-~~~i-r   78 (413)
T PRK13342         12 DEVVGQEHLLGP-GKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATD----------APFEALSAVTSG-VKDL-R   78 (413)
T ss_pred             HHhcCcHHHhCc-chHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhC----------CCEEEEeccccc-HHHH-H
Confidence            468999887655 22233344556677999999999999999999988753          367888876431 1111 1


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                      .+                   +.....   ....++..||||||+|.+....++.|...++.     ..+++|++++ .+
T Consensus        79 ~i-------------------i~~~~~---~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~-----~~iilI~att-~n  130 (413)
T PRK13342         79 EV-------------------IEEARQ---RRSAGRRTILFIDEIHRFNKAQQDALLPHVED-----GTITLIGATT-EN  130 (413)
T ss_pred             HH-------------------HHHHHH---hhhcCCceEEEEechhhhCHHHHHHHHHHhhc-----CcEEEEEeCC-CC
Confidence            11                   111111   00123567999999999987777777766642     4677887554 23


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhcc-C-CCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSY-I-VFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~-~-~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      ....+.+.+.|| |  ..+.|.+++.+++..++...+..... . .+++++++.+++   ...||+|.+++++..++..
T Consensus       131 ~~~~l~~aL~SR-~--~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~---~s~Gd~R~aln~Le~~~~~  203 (413)
T PRK13342        131 PSFEVNPALLSR-A--QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALAR---LANGDARRALNLLELAALG  203 (413)
T ss_pred             hhhhccHHHhcc-c--eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHH---hCCCCHHHHHHHHHHHHHc
Confidence            344678899999 7  68999999999999999987754321 2 588999999877   3589999999999988753

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

Probab=99.77  E-value=6.8e-18  Score=179.35  Aligned_cols=224  Identities=20%  Similarity=0.194  Sum_probs=162.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      ...+.|.+...+.+.+.+...+.         -..+.+++|+||||||||+++++++.++.          ..|+.+.+.
T Consensus       241 ~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~----------~~fi~v~~~  310 (494)
T COG0464         241 LDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESR----------SRFISVKGS  310 (494)
T ss_pred             eehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCC----------CeEEEeeCH
Confidence            34555555555555555433221         13456899999999999999999998654          478999988


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHHhcc
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDLFML  265 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l~~~  265 (517)
                      .+.+.+.                 |.+ .+.++++|..   +....|+||||||+|.+.....        .++.+++.+
T Consensus       311 ~l~sk~v-----------------Ges-ek~ir~~F~~---A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~  369 (494)
T COG0464         311 ELLSKWV-----------------GES-EKNIRELFEK---ARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTE  369 (494)
T ss_pred             HHhcccc-----------------chH-HHHHHHHHHH---HHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHH
Confidence            6655443                 333 7889999983   3467899999999999987642        456666555


Q ss_pred             C--CCCCCcEEEEEEECCCCcchhhcccccc--cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          266 T--TFPFSRFILIGIANAIDLADRFLPRLQS--MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       266 ~--~~~~~~v~lI~ian~~~~~~~l~~~l~s--r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      .  ......|.||++||   .++.+++.+.+  | | ...|.|++++.++..+|+...+.........+-.++.+++...
T Consensus       370 ~d~~e~~~~v~vi~aTN---~p~~ld~a~lR~gR-f-d~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~  444 (494)
T COG0464         370 LDGIEKAEGVLVIAATN---RPDDLDPALLRPGR-F-DRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITE  444 (494)
T ss_pred             hcCCCccCceEEEecCC---CccccCHhhcccCc-c-ceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhc
Confidence            3  23456789999999   57778888888  6 5 4699999999999999999998744222234555777777554


Q ss_pred             HHhCCHHHHHHHHHHHHHHHHHHHH-hhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          342 AASGDMRKALSVCRSAIEILEAEMR-ESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      .++|  ..+..+|+.|...+..+.. .                            .|+++|+..|+..+..+
T Consensus       445 ~~sg--adi~~i~~ea~~~~~~~~~~~----------------------------~~~~~~~~~a~~~~~p~  486 (494)
T COG0464         445 GYSG--ADIAALVREAALEALREARRR----------------------------EVTLDDFLDALKKIKPS  486 (494)
T ss_pred             CCCH--HHHHHHHHHHHHHHHHHhccC----------------------------CccHHHHHHHHHhcCCC
Confidence            4444  2445789999988887763 2                            69999999999996655

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.77  E-value=4.2e-17  Score=179.01  Aligned_cols=200  Identities=17%  Similarity=0.191  Sum_probs=140.0

Q ss_pred             cCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHh---------------
Q 010136          119 VSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKE---------------  179 (517)
Q Consensus       119 ~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~---------------  179 (517)
                      ..|.|   ++++|++..++.|..++.    .++..+ +||+||+|||||++++.+++.|.+....               
T Consensus         7 ~KyRP~~f~eiiGqe~v~~~L~~~i~----~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~   82 (824)
T PRK07764          7 RRYRPATFAEVIGQEHVTEPLSTALD----SGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALA   82 (824)
T ss_pred             HHhCCCCHHHhcCcHHHHHHHHHHHH----hCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHH
Confidence            34555   478999997777666654    345555 7899999999999999999999753110               


Q ss_pred             -cCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCch
Q 010136          180 -AGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       180 -~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                       .+...+.++++++.......                        .++++.... +.....+..|+||||+|.|....++
T Consensus        83 ~g~~~~~dv~eidaas~~~Vd------------------------~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~N  138 (824)
T PRK07764         83 PGGPGSLDVTEIDAASHGGVD------------------------DARELRERAFFAPAESRYKIFIIDEAHMVTPQGFN  138 (824)
T ss_pred             cCCCCCCcEEEecccccCCHH------------------------HHHHHHHHHHhchhcCCceEEEEechhhcCHHHHH
Confidence             00112334455443332222                        222221110 1112345679999999999887778


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|..+++.+   ...++||++++.   .+.+.+.++|| |  +.+.|.+++.+++.++|...+... ...++++++.+++
T Consensus       139 aLLK~LEEp---P~~~~fIl~tt~---~~kLl~TIrSR-c--~~v~F~~l~~~~l~~~L~~il~~E-Gv~id~eal~lLa  208 (824)
T PRK07764        139 ALLKIVEEP---PEHLKFIFATTE---PDKVIGTIRSR-T--HHYPFRLVPPEVMRGYLERICAQE-GVPVEPGVLPLVI  208 (824)
T ss_pred             HHHHHHhCC---CCCeEEEEEeCC---hhhhhHHHHhh-e--eEEEeeCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            888877663   457788887874   45688889999 7  799999999999999999877532 2367899999887


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                      +   ...||+|.++++|...+.
T Consensus       209 ~---~sgGdlR~Al~eLEKLia  227 (824)
T PRK07764        209 R---AGGGSVRDSLSVLDQLLA  227 (824)
T ss_pred             H---HcCCCHHHHHHHHHHHHh
Confidence            7   578999999999988663

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.77  E-value=3.6e-17  Score=173.81  Aligned_cols=203  Identities=21%  Similarity=0.274  Sum_probs=137.8

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHh--cCC--------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKE--AGL--------  182 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~--~~~--------  182 (517)
                      |...|.|   ++++|.+..++.|..++.    .++..+ +||+||+|||||++++.+++.+.+....  .+.        
T Consensus         6 la~KyRP~~f~dviGQe~vv~~L~~~l~----~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C   81 (618)
T PRK14951          6 LARKYRPRSFSEMVGQEHVVQALTNALT----QQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVC   81 (618)
T ss_pred             HHHHHCCCCHHHhcCcHHHHHHHHHHHH----cCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCcc
Confidence            3344444   478998886665555544    445554 5899999999999999999998752110  000        


Q ss_pred             ---------CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh-hhccCCCceEEEEEeCcchhc
Q 010136          183 ---------QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       183 ---------~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~  252 (517)
                               ....++++++.....                        .+.+++++.. ......++..|+||||+|.|.
T Consensus        82 ~~C~~i~~g~h~D~~eldaas~~~------------------------Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls  137 (618)
T PRK14951         82 QACRDIDSGRFVDYTELDAASNRG------------------------VDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLT  137 (618)
T ss_pred             HHHHHHHcCCCCceeecCcccccC------------------------HHHHHHHHHHHHhCcccCCceEEEEEChhhCC
Confidence                     001233333322111                        2334444332 112223456799999999998


Q ss_pred             ccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhH
Q 010136          253 TRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQA  332 (517)
Q Consensus       253 ~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~a  332 (517)
                      ...++.|...++.   +...+.+|+++++   +..+.+.+.|| |  ..+.|.+++.+++.+.|...+... ...+++++
T Consensus       138 ~~a~NaLLKtLEE---PP~~~~fIL~Ttd---~~kil~TIlSR-c--~~~~f~~Ls~eei~~~L~~i~~~e-gi~ie~~A  207 (618)
T PRK14951        138 NTAFNAMLKTLEE---PPEYLKFVLATTD---PQKVPVTVLSR-C--LQFNLRPMAPETVLEHLTQVLAAE-NVPAEPQA  207 (618)
T ss_pred             HHHHHHHHHhccc---CCCCeEEEEEECC---chhhhHHHHHh-c--eeeecCCCCHHHHHHHHHHHHHHc-CCCCCHHH
Confidence            7666666665554   4467778887874   55677789998 7  799999999999999999887642 24788999


Q ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          333 LELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       333 i~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      ++++++   ...||+|.+++++..++..
T Consensus       208 L~~La~---~s~GslR~al~lLdq~ia~  232 (618)
T PRK14951        208 LRLLAR---AARGSMRDALSLTDQAIAF  232 (618)
T ss_pred             HHHHHH---HcCCCHHHHHHHHHHHHHh
Confidence            999987   5789999999999877644

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.77  E-value=1.1e-16  Score=160.85  Aligned_cols=201  Identities=21%  Similarity=0.262  Sum_probs=139.3

Q ss_pred             hcCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          116 ALHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       116 ~l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .|.+.|.|   ++++|++..++.+..++.    .+..++++|+||||||||++++.+++++...    ++ ...++++++
T Consensus         6 ~w~~kyrP~~~~~~~g~~~~~~~l~~~i~----~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~----~~-~~~~i~~~~   76 (319)
T PRK00440          6 IWVEKYRPRTLDEIVGQEEIVERLKSYVK----EKNMPHLLFAGPPGTGKTTAALALARELYGE----DW-RENFLELNA   76 (319)
T ss_pred             ccchhhCCCcHHHhcCcHHHHHHHHHHHh----CCCCCeEEEECCCCCCHHHHHHHHHHHHcCC----cc-ccceEEecc
Confidence            45667788   478999998887777764    3455679999999999999999999887531    11 134677776


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCc
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSR  272 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~  272 (517)
                      ........+.. .                   +..+... .........+|+|||+|.+....+..|..+++...   ..
T Consensus        77 ~~~~~~~~~~~-~-------------------i~~~~~~-~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~---~~  132 (319)
T PRK00440         77 SDERGIDVIRN-K-------------------IKEFART-APVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYS---QN  132 (319)
T ss_pred             ccccchHHHHH-H-------------------HHHHHhc-CCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCC---CC
Confidence            55433222111 1                   1111110 00011335799999999997766677777776532   23


Q ss_pred             EEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHH
Q 010136          273 FILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALS  352 (517)
Q Consensus       273 v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~  352 (517)
                      ..+|.++|.   ...+.+.+++| +  ..+.|.|++.+++..++..++... ...+++++++++++   ...||+|.|++
T Consensus       133 ~~lIl~~~~---~~~l~~~l~sr-~--~~~~~~~l~~~ei~~~l~~~~~~~-~~~i~~~al~~l~~---~~~gd~r~~~~  202 (319)
T PRK00440        133 TRFILSCNY---SSKIIDPIQSR-C--AVFRFSPLKKEAVAERLRYIAENE-GIEITDDALEAIYY---VSEGDMRKAIN  202 (319)
T ss_pred             CeEEEEeCC---ccccchhHHHH-h--heeeeCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCHHHHHH
Confidence            455556663   45566778888 5  579999999999999999888643 23689999999987   47899999999


Q ss_pred             HHHHHHH
Q 010136          353 VCRSAIE  359 (517)
Q Consensus       353 ll~~A~~  359 (517)
                      .++.+..
T Consensus       203 ~l~~~~~  209 (319)
T PRK00440        203 ALQAAAA  209 (319)
T ss_pred             HHHHHHH
Confidence            9987664

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

Probab=99.76  E-value=1e-17  Score=151.37  Aligned_cols=199  Identities=24%  Similarity=0.350  Sum_probs=146.9

Q ss_pred             cCcCCCCC---CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAPS---TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |.+.|.|.   +++|-|+.++.+.-+.    ..+..++++|+|||||||||.+..++++|-......     -+.++|++
T Consensus        17 wVeKYrP~~l~dIVGNe~tv~rl~via----~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke-----~vLELNAS   87 (333)
T KOG0991|consen   17 WVEKYRPSVLQDIVGNEDTVERLSVIA----KEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKE-----AVLELNAS   87 (333)
T ss_pred             HHHhhCchHHHHhhCCHHHHHHHHHHH----HcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhh-----HhhhccCc
Confidence            44566664   7999999888777664    457789999999999999999999999986422211     36788888


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh-hhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCc
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSR  272 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~  272 (517)
                      .......+-                     .--+.|.+ .+.-..++..||+|||+|.+....|.+|+..++... ...+
T Consensus        88 deRGIDvVR---------------------n~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRtMEiyS-~ttR  145 (333)
T KOG0991|consen   88 DERGIDVVR---------------------NKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRTMEIYS-NTTR  145 (333)
T ss_pred             cccccHHHH---------------------HHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHHHHHHHc-ccch
Confidence            865544431                     11223332 222245678899999999999999999999888743 2345


Q ss_pred             EEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHH
Q 010136          273 FILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALS  352 (517)
Q Consensus       273 v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~  352 (517)
                      +.+.  .|.   .+.+...++|| |  ..+.|..++..++..-|....+. +...++++.++.+..   ...||+|.|++
T Consensus       146 Fala--CN~---s~KIiEPIQSR-C--AiLRysklsd~qiL~Rl~~v~k~-Ekv~yt~dgLeaiif---ta~GDMRQalN  213 (333)
T KOG0991|consen  146 FALA--CNQ---SEKIIEPIQSR-C--AILRYSKLSDQQILKRLLEVAKA-EKVNYTDDGLEAIIF---TAQGDMRQALN  213 (333)
T ss_pred             hhhh--hcc---hhhhhhhHHhh-h--HhhhhcccCHHHHHHHHHHHHHH-hCCCCCcchHHHhhh---hccchHHHHHH
Confidence            5555  573   56788899999 7  58999999999988777755543 335778888888754   68999999999


Q ss_pred             HHHHHH
Q 010136          353 VCRSAI  358 (517)
Q Consensus       353 ll~~A~  358 (517)
                      .++..+
T Consensus       214 nLQst~  219 (333)
T KOG0991|consen  214 NLQSTV  219 (333)
T ss_pred             HHHHHh
Confidence            998866

>PRK04195 replication factor C large subunit; Provisional

Probab=99.76  E-value=3.4e-17  Score=172.83  Aligned_cols=194  Identities=21%  Similarity=0.278  Sum_probs=138.7

Q ss_pred             cCcCCCCC---CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAPS---TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |.+.|.|.   +++|+++..+.|..|+..+..+....+++|+||||||||+++++++++++          +.++++|+.
T Consensus         4 W~eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----------~~~ielnas   73 (482)
T PRK04195          4 WVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----------WEVIELNAS   73 (482)
T ss_pred             chhhcCCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----------CCEEEEccc
Confidence            44566664   69999999999999999887666678999999999999999999998874          468999998


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC----chHHHHHhccCCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD----RAVLHDLFMLTTFP  269 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~----~~~L~~l~~~~~~~  269 (517)
                      ...+...+ ..+.......             ..++       .....||||||+|.|....    ...|..+++.   .
T Consensus        74 d~r~~~~i-~~~i~~~~~~-------------~sl~-------~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~---~  129 (482)
T PRK04195         74 DQRTADVI-ERVAGEAATS-------------GSLF-------GARRKLILLDEVDGIHGNEDRGGARAILELIKK---A  129 (482)
T ss_pred             ccccHHHH-HHHHHHhhcc-------------Cccc-------CCCCeEEEEecCcccccccchhHHHHHHHHHHc---C
Confidence            76554433 2222211000             0001       1245799999999997632    3444445442   2


Q ss_pred             CCcEEEEEEECCCCcchhhcc-cccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          270 FSRFILIGIANAIDLADRFLP-RLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       270 ~~~v~lI~ian~~~~~~~l~~-~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                        +..+|+++|+.   ..+.+ .++++ +  ..|.|++++..++..+|...+... ...+++++++.+++   ...||+|
T Consensus       130 --~~~iIli~n~~---~~~~~k~Lrsr-~--~~I~f~~~~~~~i~~~L~~i~~~e-gi~i~~eaL~~Ia~---~s~GDlR  197 (482)
T PRK04195        130 --KQPIILTANDP---YDPSLRELRNA-C--LMIEFKRLSTRSIVPVLKRICRKE-GIECDDEALKEIAE---RSGGDLR  197 (482)
T ss_pred             --CCCEEEeccCc---cccchhhHhcc-c--eEEEecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCHH
Confidence              23355567753   33344 56666 5  689999999999999999877532 24688999999987   5789999


Q ss_pred             HHHHHHHH
Q 010136          349 KALSVCRS  356 (517)
Q Consensus       349 ~al~ll~~  356 (517)
                      .|++.++.
T Consensus       198 ~ain~Lq~  205 (482)
T PRK04195        198 SAINDLQA  205 (482)
T ss_pred             HHHHHHHH
Confidence            99998876

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.76  E-value=4.8e-17  Score=170.73  Aligned_cols=197  Identities=18%  Similarity=0.181  Sum_probs=136.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC--------------CCceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL--------------QQPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~--------------~~~~~v  188 (517)
                      ++++|.+..++.|...+.    .++..+ ++|+||||+|||++++.+++.+.+.....+.              ....++
T Consensus        16 ~diiGq~~~v~~L~~~i~----~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         16 AEVAGQQHALNSLVHALE----TQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             HHhcCcHHHHHHHHHHHH----cCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            478999998877666654    344444 7899999999999999999988642110000              112344


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF  268 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~  268 (517)
                      ++++.......+                     .+.+.+.+.  .....+...|+||||+|.|....++.|...++.   
T Consensus        92 eidaas~~gvd~---------------------ir~ii~~~~--~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEe---  145 (546)
T PRK14957         92 EIDAASRTGVEE---------------------TKEILDNIQ--YMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEE---  145 (546)
T ss_pred             EeecccccCHHH---------------------HHHHHHHHH--hhhhcCCcEEEEEechhhccHHHHHHHHHHHhc---
Confidence            444432222111                     111111111  111234567999999999987777778777765   


Q ss_pred             CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          269 PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                      +...+.+|+++++   ...+.+.++|| |  ..+.|.+++.+++...|...+... ...+++++++++++   .+.||+|
T Consensus       146 pp~~v~fIL~Ttd---~~kil~tI~SR-c--~~~~f~~Ls~~eI~~~L~~il~~e-gi~~e~~Al~~Ia~---~s~GdlR  215 (546)
T PRK14957        146 PPEYVKFILATTD---YHKIPVTILSR-C--IQLHLKHISQADIKDQLKIILAKE-NINSDEQSLEYIAY---HAKGSLR  215 (546)
T ss_pred             CCCCceEEEEECC---hhhhhhhHHHh-e--eeEEeCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCHH
Confidence            3456777777774   56677789999 7  799999999999999999877643 24789999999987   5789999


Q ss_pred             HHHHHHHHHHHH
Q 010136          349 KALSVCRSAIEI  360 (517)
Q Consensus       349 ~al~ll~~A~~~  360 (517)
                      .|++++..++.+
T Consensus       216 ~alnlLek~i~~  227 (546)
T PRK14957        216 DALSLLDQAISF  227 (546)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

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

Probab=99.75  E-value=1.1e-17  Score=161.59  Aligned_cols=221  Identities=16%  Similarity=0.190  Sum_probs=149.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+.+++++||||||||.+|++++++.+.          .|+.|....+++.+-                 |.+ .+.+..
T Consensus       126 p~kGiLL~GPpG~GKTmlAKA~Akeaga----------~fInv~~s~lt~KWf-----------------gE~-eKlv~A  177 (386)
T KOG0737|consen  126 PPKGILLYGPPGTGKTMLAKAIAKEAGA----------NFINVSVSNLTSKWF-----------------GEA-QKLVKA  177 (386)
T ss_pred             CCccceecCCCCchHHHHHHHHHHHcCC----------CcceeeccccchhhH-----------------HHH-HHHHHH
Confidence            4678999999999999999999988653          588888888877443                 222 566777


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccCc----hH---HHH--Hhcc---CCCCCCcEEEEEEECCCCcchhhccccccc
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRDR----AV---LHD--LFML---TTFPFSRFILIGIANAIDLADRFLPRLQSM  295 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~~----~~---L~~--l~~~---~~~~~~~v~lI~ian~~~~~~~l~~~l~sr  295 (517)
                      +|.   .+.+-.|+||||||+|.+...++    ++   +..  ++.|   .+....+|+|+|+||   .+..++.++.+|
T Consensus       178 vFs---lAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATN---RP~DlDeAiiRR  251 (386)
T KOG0737|consen  178 VFS---LASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATN---RPFDLDEAIIRR  251 (386)
T ss_pred             HHh---hhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCC---CCccHHHHHHHh
Confidence            776   44577899999999999985432    11   111  2345   334456799999999   478889999998


Q ss_pred             CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhh----h
Q 010136          296 NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESV----S  370 (517)
Q Consensus       296 ~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~----~  370 (517)
                       + ++++++.-++..+..+||.-.+...   .++++ .+..+|..+.+++|.  ...++|+.|.....++...+.    +
T Consensus       252 -~-p~rf~V~lP~~~qR~kILkviLk~e---~~e~~vD~~~iA~~t~GySGS--DLkelC~~Aa~~~ire~~~~~~~~~d  324 (386)
T KOG0737|consen  252 -L-PRRFHVGLPDAEQRRKILKVILKKE---KLEDDVDLDEIAQMTEGYSGS--DLKELCRLAALRPIRELLVSETGLLD  324 (386)
T ss_pred             -C-cceeeeCCCchhhHHHHHHHHhccc---ccCcccCHHHHHHhcCCCcHH--HHHHHHHHHhHhHHHHHHHhcccchh
Confidence             4 6899999999999999999888753   33333 377888888788884  444789998877666655432    0


Q ss_pred             ccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          371 KMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      ......+..+.+.    .+.......+.++|+..+.+.+..+.
T Consensus       325 ~d~~~~d~~~~~~----~~~~~~~r~l~~eDf~~a~~~v~~~~  363 (386)
T KOG0737|consen  325 LDKAIADLKPTQA----AASSCLLRPLEQEDFPKAINRVSASV  363 (386)
T ss_pred             hhhhhhhccCCcc----cccccccCcccHHHHHHHHHhhhhHH
Confidence            0000000000100    00011122678888888888776553

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

Probab=99.75  E-value=1.1e-16  Score=173.86  Aligned_cols=191  Identities=17%  Similarity=0.223  Sum_probs=134.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|++..+.. ...|...+..+..++++|+||||||||++++.+++.+.          ..++.+||... ....+ .
T Consensus        28 dd~vGQe~ii~~-~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~----------~~f~~lna~~~-~i~di-r   94 (725)
T PRK13341         28 EEFVGQDHILGE-GRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR----------AHFSSLNAVLA-GVKDL-R   94 (725)
T ss_pred             HHhcCcHHHhhh-hHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc----------Ccceeehhhhh-hhHHH-H
Confidence            467899887753 23344455566778999999999999999999998754          25677777532 11111 0


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                      .+                .......+.     ......+|||||||.|....|+.|...++     ...+++|++++. +
T Consensus        95 ~~----------------i~~a~~~l~-----~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE-----~g~IiLI~aTTe-n  147 (725)
T PRK13341         95 AE----------------VDRAKERLE-----RHGKRTILFIDEVHRFNKAQQDALLPWVE-----NGTITLIGATTE-N  147 (725)
T ss_pred             HH----------------HHHHHHHhh-----hcCCceEEEEeChhhCCHHHHHHHHHHhc-----CceEEEEEecCC-C
Confidence            00                011111111     12345799999999998766777766553     356888886643 3


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh------hccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME------LSYIVFQPQALELCARKVAAASGDMRKALSVCRSA  357 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~------~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A  357 (517)
                      ....+.+++.|| +  ..+.|+|++.+++..+++..+..      .....+++++++++++.   ..||+|.++++++.+
T Consensus       148 p~~~l~~aL~SR-~--~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~---s~GD~R~lln~Le~a  221 (725)
T PRK13341        148 PYFEVNKALVSR-S--RLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDV---ANGDARSLLNALELA  221 (725)
T ss_pred             hHhhhhhHhhcc-c--cceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHh---CCCCHHHHHHHHHHH
Confidence            334578899998 6  58999999999999999987752      22357899999999884   589999999999988


Q ss_pred             HHH
Q 010136          358 IEI  360 (517)
Q Consensus       358 ~~~  360 (517)
                      +..
T Consensus       222 ~~~  224 (725)
T PRK13341        222 VES  224 (725)
T ss_pred             HHh
Confidence            743

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

Probab=99.75  E-value=8.8e-17  Score=165.92  Aligned_cols=244  Identities=21%  Similarity=0.328  Sum_probs=183.7

Q ss_pred             chhhhhhhhccCCCCCCCCh-hHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHH
Q 010136           88 VKKKLCDSFKSKPNWNPQDV-EQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSL  164 (517)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~  164 (517)
                      ..+.+.+++..-||...-.. -.+..|++.|++++     +|.++..++|.+||.-..-.  -.+..++|+||||+|||+
T Consensus       379 vtrNYLdwlt~LPWgk~S~En~dl~~Ak~iLdeDH-----Ygm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTS  453 (906)
T KOG2004|consen  379 VTRNYLDWLTSLPWGKSSTENLDLARAKEILDEDH-----YGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTS  453 (906)
T ss_pred             HHHHHHHHHHhCCCCCCChhhhhHHHHHHhhcccc-----cchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCccc
Confidence            45667888888886544322 36789999999987     89999999999997654332  346688999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEE
Q 010136          165 SMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLII  244 (517)
Q Consensus       165 l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~  244 (517)
                      +++.+++.|++          .|+.++....++..+        +.++...+.|..+.+.++.+-.     -...+.+++
T Consensus       454 I~kSIA~ALnR----------kFfRfSvGG~tDvAe--------IkGHRRTYVGAMPGkiIq~LK~-----v~t~NPliL  510 (906)
T KOG2004|consen  454 IAKSIARALNR----------KFFRFSVGGMTDVAE--------IKGHRRTYVGAMPGKIIQCLKK-----VKTENPLIL  510 (906)
T ss_pred             HHHHHHHHhCC----------ceEEEeccccccHHh--------hcccceeeeccCChHHHHHHHh-----hCCCCceEE
Confidence            99999999985          688888887777665        4778888888888888887764     244556889


Q ss_pred             EeCcchhcccCc----hHHHHHhccCCC------------CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCC
Q 010136          245 ADELDYLITRDR----AVLHDLFMLTTF------------PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       245 iDEiD~L~~~~~----~~L~~l~~~~~~------------~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                      |||||.+....|    .+|.++++-.+.            .-++|.|||++|.   .+.+.+.|+.| +  +.|.++.|.
T Consensus       511 iDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~---idtIP~pLlDR-M--EvIelsGYv  584 (906)
T KOG2004|consen  511 IDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANV---IDTIPPPLLDR-M--EVIELSGYV  584 (906)
T ss_pred             eehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEeccc---cccCChhhhhh-h--heeeccCcc
Confidence            999999986433    567777665322            3378999999996   55678889998 7  799999999


Q ss_pred             HHHHHHHHHHHHh--hh-------ccCCCChhHHHHHHHHHHHHhC--CHHHHH-HHHHHH-HHHHHHHH
Q 010136          309 KDQIIRILQERLM--EL-------SYIVFQPQALELCARKVAAASG--DMRKAL-SVCRSA-IEILEAEM  365 (517)
Q Consensus       309 ~~e~~~IL~~rl~--~~-------~~~~~~~~ai~~ia~~~~~~~G--d~R~al-~ll~~A-~~~a~~~~  365 (517)
                      .+|-.+|.+..|-  ..       ....++++++..+.+.+++.+|  ++.+-+ .+||.+ ..+++...
T Consensus       585 ~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk~iekI~Rk~Al~vv~~~~  654 (906)
T KOG2004|consen  585 AEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQKQIEKICRKVALKVVEGEN  654 (906)
T ss_pred             HHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            9999999998873  11       1356778888888888877777  444433 566654 45565543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.75  E-value=9.9e-17  Score=170.83  Aligned_cols=196  Identities=24%  Similarity=0.284  Sum_probs=136.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC--------------CceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ--------------QPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~--------------~~~~v  188 (517)
                      ++++|++...+.|..++..    +..++ +||+||+|||||++++.+++.+.+.....+.+              .+.++
T Consensus        16 ~~viGq~~v~~~L~~~i~~----~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv~   91 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQ----GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVI   91 (559)
T ss_pred             HhccCcHHHHHHHHHHHHc----CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCeE
Confidence            5799999977766666543    44444 67899999999999999999887532111111              12333


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      ++++....+                        .+.++.+.... ......+..|+||||+|.|.....+.|...++.  
T Consensus        92 eidaas~~~------------------------vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEe--  145 (559)
T PRK05563         92 EIDAASNNG------------------------VDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEE--  145 (559)
T ss_pred             EeeccccCC------------------------HHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcC--
Confidence            333322111                        33334333321 122345678999999999976656666555544  


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                       +...+++|++++.   +..+.+.++|| |  ..+.|.+++.+++..+|...+... ...+++++++.+++   ...||+
T Consensus       146 -pp~~~ifIlatt~---~~ki~~tI~SR-c--~~~~f~~~~~~ei~~~L~~i~~~e-gi~i~~~al~~ia~---~s~G~~  214 (559)
T PRK05563        146 -PPAHVIFILATTE---PHKIPATILSR-C--QRFDFKRISVEDIVERLKYILDKE-GIEYEDEALRLIAR---AAEGGM  214 (559)
T ss_pred             -CCCCeEEEEEeCC---hhhCcHHHHhH-h--eEEecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCH
Confidence             4457778877763   56788889999 7  689999999999999999888643 23678999999988   468999


Q ss_pred             HHHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIEI  360 (517)
Q Consensus       348 R~al~ll~~A~~~  360 (517)
                      |.|++++..++.+
T Consensus       215 R~al~~Ldq~~~~  227 (559)
T PRK05563        215 RDALSILDQAISF  227 (559)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988754

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.74  E-value=1.4e-16  Score=166.33  Aligned_cols=204  Identities=19%  Similarity=0.256  Sum_probs=141.9

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcC-----------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAG-----------  181 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~-----------  181 (517)
                      |...|.|   ++++|.+...+.|..++.    .+..++ ++|+||+|+|||++++.+++.+.+......           
T Consensus         4 l~~KyRP~~fdeiiGqe~v~~~L~~~I~----~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~   79 (535)
T PRK08451          4 LALKYRPKHFDELIGQESVSKTLSLALD----NNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQS   79 (535)
T ss_pred             HHHHHCCCCHHHccCcHHHHHHHHHHHH----cCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            3445555   479999987766666654    345554 579999999999999999998864211000           


Q ss_pred             ---CCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCch
Q 010136          182 ---LQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       182 ---~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                         ..++.++.+++.....                        .+.++.+.... .........|+||||+|.|....++
T Consensus        80 ~~~~~h~dv~eldaas~~g------------------------Id~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~N  135 (535)
T PRK08451         80 ALENRHIDIIEMDAASNRG------------------------IDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFN  135 (535)
T ss_pred             HhhcCCCeEEEeccccccC------------------------HHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHH
Confidence               0112344444332211                        23333333210 1112345679999999999877778


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|...++.+   ...+.+|+++++   +..+.+.++|| +  ..+.|.+++.+++...+...+... ...+++++++.++
T Consensus       136 ALLK~LEEp---p~~t~FIL~ttd---~~kL~~tI~SR-c--~~~~F~~Ls~~ei~~~L~~Il~~E-Gi~i~~~Al~~Ia  205 (535)
T PRK08451        136 ALLKTLEEP---PSYVKFILATTD---PLKLPATILSR-T--QHFRFKQIPQNSIISHLKTILEKE-GVSYEPEALEILA  205 (535)
T ss_pred             HHHHHHhhc---CCceEEEEEECC---hhhCchHHHhh-c--eeEEcCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            887777664   345677777774   46778899999 7  799999999999999999887643 2467999999998


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~a  361 (517)
                      +   ...||+|.|+++|..|+..+
T Consensus       206 ~---~s~GdlR~alnlLdqai~~~  226 (535)
T PRK08451        206 R---SGNGSLRDTLTLLDQAIIYC  226 (535)
T ss_pred             H---HcCCcHHHHHHHHHHHHHhc
Confidence            8   57899999999999988654

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.74  E-value=6.2e-17  Score=169.87  Aligned_cols=205  Identities=16%  Similarity=0.191  Sum_probs=138.7

Q ss_pred             hcCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC----------
Q 010136          116 ALHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL----------  182 (517)
Q Consensus       116 ~l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~----------  182 (517)
                      .|...|.|   ++++|++...+.+..++..   +..+..++|+||+|+|||++|+.+++.+.+.....+.          
T Consensus         5 ~~~~KyRP~~F~dIIGQe~iv~~L~~aI~~---~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~   81 (605)
T PRK05896          5 TFYRKYRPHNFKQIIGQELIKKILVNAILN---NKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCES   81 (605)
T ss_pred             hHHHHhCCCCHHHhcCcHHHHHHHHHHHHc---CCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            34445555   4789999987776666543   2234568899999999999999999998642110000          


Q ss_pred             ----CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCch
Q 010136          183 ----QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       183 ----~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                          ....++++++.....                        .+.++.+.... .........|+||||+|.|....++
T Consensus        82 i~~~~h~DiieIdaas~ig------------------------Vd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~N  137 (605)
T PRK05896         82 INTNQSVDIVELDAASNNG------------------------VDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWN  137 (605)
T ss_pred             HHcCCCCceEEeccccccC------------------------HHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHH
Confidence                012233333322111                        22333333210 1111234568999999999776677


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|...++.+   ...+++|++++.   +..+.+.++|| |  ..+.|.+++.+++..+|...+... ...+++++++.++
T Consensus       138 aLLKtLEEP---p~~tvfIL~Tt~---~~KLl~TI~SR-c--q~ieF~~Ls~~eL~~~L~~il~ke-gi~Is~eal~~La  207 (605)
T PRK05896        138 ALLKTLEEP---PKHVVFIFATTE---FQKIPLTIISR-C--QRYNFKKLNNSELQELLKSIAKKE-KIKIEDNAIDKIA  207 (605)
T ss_pred             HHHHHHHhC---CCcEEEEEECCC---hHhhhHHHHhh-h--hhcccCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            777777653   356777777763   57788899999 7  689999999999999999887643 2368899999987


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +   .+.||+|.|++++..+..+
T Consensus       208 ~---lS~GdlR~AlnlLekL~~y  227 (605)
T PRK05896        208 D---LADGSLRDGLSILDQLSTF  227 (605)
T ss_pred             H---HcCCcHHHHHHHHHHHHhh
Confidence            7   4789999999999886543

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.74  E-value=3.2e-17  Score=174.42  Aligned_cols=226  Identities=15%  Similarity=0.171  Sum_probs=145.1

Q ss_pred             cCcCCCCC---CCCCcHHHHHHHHHHHHHhhccCCC-CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          117 LHVSTAPS---TIVCREDEQKKVLEFCKKNLEEEKA-GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       117 l~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~~-~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      |.+.|.|.   +++|.++.++.+..++........+ ..++|+||||||||++++.+++.+.....++.      -.++|
T Consensus        74 W~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~------npv~~  147 (637)
T TIGR00602        74 WVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWS------NPTLP  147 (637)
T ss_pred             hHHHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHh------hhhhh
Confidence            44456664   7999999999999998876554333 35999999999999999999998875544321      12333


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhc-------cCCCceEEEEEeCcchhcccCchHHHHHhcc
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLH-------SSVMKMMLIIADELDYLITRDRAVLHDLFML  265 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~  265 (517)
                      ....+.+.+...+..++...      .+..+.+..++.....       .......||||||+|.+.......++.++.|
T Consensus       148 ~~~~~~~~~~~s~~~~~~~~------~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~  221 (637)
T TIGR00602       148 DFQKNDHKVTLSLESCFSNF------QSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRW  221 (637)
T ss_pred             cccccccccchhhhhccccc------cchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHH
Confidence            33333333222233332111      1123334444332110       0124568999999999987777788998886


Q ss_pred             CCCCCCcEEEEEEECCCC----------cc-hh-hcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh-----ccCCC
Q 010136          266 TTFPFSRFILIGIANAID----------LA-DR-FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL-----SYIVF  328 (517)
Q Consensus       266 ~~~~~~~v~lI~ian~~~----------~~-~~-l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~-----~~~~~  328 (517)
                      .......+.||+|++...          ++ ++ +.+.+.++ .....|.|+||+..++.+.|...+...     ....+
T Consensus       222 ~~~e~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~-~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~  300 (637)
T TIGR00602       222 KYVSIGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEE-PRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKV  300 (637)
T ss_pred             HhhcCCCceEEEEecCCccccccccccccchhcccCHhHhcc-cceeEEEeCCCCHHHHHHHHHHHHHhhhhcccccccc
Confidence            444455677888777421          11 11 22566664 445789999999999888887666531     11122


Q ss_pred             -ChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          329 -QPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       329 -~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                       ++++++.++.   ...||+|.||+.|+.++
T Consensus       301 p~~~~l~~I~~---~s~GDiRsAIn~LQf~~  328 (637)
T TIGR00602       301 PKKTSVELLCQ---GCSGDIRSAINSLQFSS  328 (637)
T ss_pred             CCHHHHHHHHH---hCCChHHHHHHHHHHHH
Confidence             4567777655   78999999999999874

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

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

Probab=99.74  E-value=4.8e-18  Score=158.12  Aligned_cols=220  Identities=18%  Similarity=0.198  Sum_probs=153.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      ++-|.+.++++|.+.+.--+.         -..+.++++||+||||||.+|++++++-.          ..|+.+-++.+
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTS----------ATFlRvvGseL  255 (440)
T KOG0726|consen  186 DIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTS----------ATFLRVVGSEL  255 (440)
T ss_pred             ccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccc----------hhhhhhhhHHH
Confidence            688999999999998765433         12477999999999999999999987643          24555555443


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHhc
Q 010136          196 TNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLFM  264 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~~  264 (517)
                               |-+.+        |.. -+.++++|.   .+....|.|+||||||.+.+++           |..+..|++
T Consensus       256 ---------iQkyl--------GdG-pklvRqlF~---vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLN  314 (440)
T KOG0726|consen  256 ---------IQKYL--------GDG-PKLVRELFR---VAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLN  314 (440)
T ss_pred             ---------HHHHh--------ccc-hHHHHHHHH---HHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHH
Confidence                     11222        222 456777776   4456788999999999998753           233444444


Q ss_pred             cC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhH-HHHHHHHHH
Q 010136          265 LT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQA-LELCARKVA  341 (517)
Q Consensus       265 ~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~a-i~~ia~~~~  341 (517)
                      -.  -.....|-||.++|.   .+.++|.+.+.....+.|.|+-++......|+.-.-...   .+..++ ++.+...-.
T Consensus       315 QldGFdsrgDvKvimATnr---ie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~M---tl~~dVnle~li~~kd  388 (440)
T KOG0726|consen  315 QLDGFDSRGDVKVIMATNR---IETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRM---TLAEDVNLEELIMTKD  388 (440)
T ss_pred             hccCccccCCeEEEEeccc---ccccCHhhcCCCccccccccCCCchhhhceeEEEeeccc---chhccccHHHHhhccc
Confidence            31  123567889999995   667889988876667899999999988888877544432   222222 333322112


Q ss_pred             HHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          342 AASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       342 ~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      ..+| |+.   .+|.+|..+|.++.+.                            .|+++||.+|...+..+
T Consensus       389 dlSGAdIk---AictEaGllAlRerRm----------------------------~vt~~DF~ka~e~V~~~  429 (440)
T KOG0726|consen  389 DLSGADIK---AICTEAGLLALRERRM----------------------------KVTMEDFKKAKEKVLYK  429 (440)
T ss_pred             ccccccHH---HHHHHHhHHHHHHHHh----------------------------hccHHHHHHHHHHHHHh
Confidence            3344 443   5899999999999988                            89999999999887643

>PRK06893 DNA replication initiation factor; Validated

Probab=99.74  E-value=6.5e-17  Score=153.96  Aligned_cols=194  Identities=15%  Similarity=0.143  Sum_probs=124.4

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      ...+++++.+...  +...+.........+.+||+||||||||+++.++++++...    +   ..+.|++....   ..
T Consensus        13 ~~fd~f~~~~~~~--~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~----~---~~~~y~~~~~~---~~   80 (229)
T PRK06893         13 ETLDNFYADNNLL--LLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLN----Q---RTAIYIPLSKS---QY   80 (229)
T ss_pred             ccccccccCChHH--HHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc----C---CCeEEeeHHHh---hh
Confidence            3445566544322  23333333333445678999999999999999999987542    1   24566665321   00


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEE
Q 010136          201 IFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGI  278 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~i  278 (517)
                      ..                       .+.+.     ......+|+|||++.+....  +..|+.+++.....+..+++++.
T Consensus        81 ~~-----------------------~~~~~-----~~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits  132 (229)
T PRK06893         81 FS-----------------------PAVLE-----NLEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISA  132 (229)
T ss_pred             hh-----------------------HHHHh-----hcccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeC
Confidence            00                       01111     11234699999999986543  35677877764333344445543


Q ss_pred             ECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          279 ANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       279 an~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      ..........++++.||......+.+.+++.+++.+||+..+... .-.+++++++++++   ...||+|.++.++....
T Consensus       133 ~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~-~l~l~~~v~~~L~~---~~~~d~r~l~~~l~~l~  208 (229)
T PRK06893        133 DCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQR-GIELSDEVANFLLK---RLDRDMHTLFDALDLLD  208 (229)
T ss_pred             CCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hccCCHHHHHHHHHHHH
Confidence            332222233458899983334588999999999999999777532 24789999999998   57899999999888753

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=9.6e-17  Score=169.76  Aligned_cols=196  Identities=21%  Similarity=0.251  Sum_probs=135.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC--------------CceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ--------------QPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~--------------~~~~v  188 (517)
                      ++++|.+..++.|..++.    .+...+ ++|+||||+|||++++.+++.+.......+.+              ...++
T Consensus        16 ~divGq~~v~~~L~~~i~----~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~   91 (527)
T PRK14969         16 SELVGQEHVVRALTNALE----QQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLI   91 (527)
T ss_pred             HHhcCcHHHHHHHHHHHH----cCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCcee
Confidence            478999997776666654    345555 57999999999999999999986421100000              01233


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      ++++.....                        .+.+++++... .....++..|+||||+|.|....++.|...++.  
T Consensus        92 ei~~~~~~~------------------------vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEe--  145 (527)
T PRK14969         92 EVDAASNTQ------------------------VDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEE--  145 (527)
T ss_pred             EeeccccCC------------------------HHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhC--
Confidence            333322111                        23334333321 111234567999999999977666666666655  


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                       +...+.+|+++++   +..+.+.++|| |  ..+.|.+++.+++.+.|...+... ...+++++++++++   .+.||+
T Consensus       146 -pp~~~~fIL~t~d---~~kil~tI~SR-c--~~~~f~~l~~~~i~~~L~~il~~e-gi~~~~~al~~la~---~s~Gsl  214 (527)
T PRK14969        146 -PPEHVKFILATTD---PQKIPVTVLSR-C--LQFNLKQMPPPLIVSHLQHILEQE-NIPFDATALQLLAR---AAAGSM  214 (527)
T ss_pred             -CCCCEEEEEEeCC---hhhCchhHHHH-H--HHHhcCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCH
Confidence             3457778887874   55666778998 7  789999999999999999887632 24678999999987   478999


Q ss_pred             HHHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIEI  360 (517)
Q Consensus       348 R~al~ll~~A~~~  360 (517)
                      |.|++++..++..
T Consensus       215 r~al~lldqai~~  227 (527)
T PRK14969        215 RDALSLLDQAIAY  227 (527)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988754

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.73  E-value=1.9e-16  Score=169.42  Aligned_cols=204  Identities=22%  Similarity=0.237  Sum_probs=139.0

Q ss_pred             hcCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC---------
Q 010136          116 ALHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL---------  182 (517)
Q Consensus       116 ~l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~---------  182 (517)
                      .|...|.|   ++++|++..++.|...+.    .++.. .++|+||+|+|||++|+.+++.+.+.......         
T Consensus         7 ~l~~KyRP~~f~dIiGQe~~v~~L~~aI~----~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~   82 (725)
T PRK07133          7 ALYRKYRPKTFDDIVGQDHIVQTLKNIIK----SNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIEN   82 (725)
T ss_pred             hHHHHhCCCCHHHhcCcHHHHHHHHHHHH----cCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHh
Confidence            34445566   379999998777666654    34444 46799999999999999999988753210000         


Q ss_pred             --CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHH
Q 010136          183 --QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVL  259 (517)
Q Consensus       183 --~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L  259 (517)
                        ..+.++++++....+                        .+.++.+.... .....++..|+||||+|.|....++.|
T Consensus        83 ~~~~~Dvieidaasn~~------------------------vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NAL  138 (725)
T PRK07133         83 VNNSLDIIEMDAASNNG------------------------VDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNAL  138 (725)
T ss_pred             hcCCCcEEEEeccccCC------------------------HHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHH
Confidence              001222222211111                        23333333321 122235667999999999987667777


Q ss_pred             HHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          260 HDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       260 ~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      ...++.+   ...+++|++++.   ++.+.+.++|| |  +++.|.+++.+++..+|...+.... ..+++++++.+|+ 
T Consensus       139 LKtLEEP---P~~tifILaTte---~~KLl~TI~SR-c--q~ieF~~L~~eeI~~~L~~il~keg-I~id~eAl~~LA~-  207 (725)
T PRK07133        139 LKTLEEP---PKHVIFILATTE---VHKIPLTILSR-V--QRFNFRRISEDEIVSRLEFILEKEN-ISYEKNALKLIAK-  207 (725)
T ss_pred             HHHhhcC---CCceEEEEEcCC---hhhhhHHHHhh-c--eeEEccCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH-
Confidence            7766653   457778887764   56788889999 7  6999999999999999998876432 3678889999887 


Q ss_pred             HHHHhCCHHHHHHHHHHHHHH
Q 010136          340 VAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~  360 (517)
                        .+.|++|.|+.++..+..+
T Consensus       208 --lS~GslR~AlslLekl~~y  226 (725)
T PRK07133        208 --LSSGSLRDALSIAEQVSIF  226 (725)
T ss_pred             --HcCCCHHHHHHHHHHHHHh
Confidence              4779999999999887543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.73  E-value=4.7e-16  Score=161.45  Aligned_cols=310  Identities=15%  Similarity=0.130  Sum_probs=183.6

Q ss_pred             hcCcCCCCCCCC-CcHHHHHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          116 ALHVSTAPSTIV-CREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       116 ~l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+++.+..++++ |-..+.  ....+...... +..++++|||++|+|||++++++++++....     +...++|+++.
T Consensus        97 ~l~~~~tFdnFv~g~~n~~--a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~-----~~~~v~yi~~~  169 (440)
T PRK14088         97 PLNPDYTFENFVVGPGNSF--AYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNE-----PDLRVMYITSE  169 (440)
T ss_pred             CCCCCCcccccccCCchHH--HHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhC-----CCCeEEEEEHH
Confidence            356677777666 543332  22233332222 2245799999999999999999999886421     12468898874


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFS  271 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~  271 (517)
                            .++..+...+...        ....+.+.+.       ..+.+|+|||++.+....  ++.|..+++.....+ 
T Consensus       170 ------~f~~~~~~~~~~~--------~~~~f~~~~~-------~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~-  227 (440)
T PRK14088        170 ------KFLNDLVDSMKEG--------KLNEFREKYR-------KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSG-  227 (440)
T ss_pred             ------HHHHHHHHHHhcc--------cHHHHHHHHH-------hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcC-
Confidence                  3445555555211        1223333221       135699999999987543  455666665533222 


Q ss_pred             cEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHH
Q 010136          272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKAL  351 (517)
Q Consensus       272 ~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al  351 (517)
                      ..+|+++.+.......+.+++.||......+.|.|++.+.+.+||+.++... ...++++++++||+   ...||+|...
T Consensus       228 k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~-~~~l~~ev~~~Ia~---~~~~~~R~L~  303 (440)
T PRK14088        228 KQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIE-HGELPEEVLNFVAE---NVDDNLRRLR  303 (440)
T ss_pred             CeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHHh---ccccCHHHHH
Confidence            3344442333333445778999993334588999999999999999887632 34789999999998   4688999888


Q ss_pred             HHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHHH-
Q 010136          352 SVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLC-  430 (517)
Q Consensus       352 ~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL~-  430 (517)
                      .++.+....+...++.-....    ....+.+.   -........|+++.+.+++.+.++-. .+.+.+-+.+..+++. 
T Consensus       304 g~l~~l~~~~~~~~~~it~~~----a~~~L~~~---~~~~~~~~~i~~~~I~~~V~~~~~i~-~~~l~s~~R~~~i~~aR  375 (440)
T PRK14088        304 GAIIKLLVYKETTGEEVDLKE----AILLLKDF---IKPNRVKAMDPIDELIEIVAKVTGVS-REEILSNSRNVKALLAR  375 (440)
T ss_pred             HHHHHHHHHHHHhCCCCCHHH----HHHHHHHH---hccccccCCCCHHHHHHHHHHHcCCc-HHHHhCCCCCccccHHH
Confidence            877766544443332100000    00000000   00000011488888888888888655 4556666666666554 


Q ss_pred             --HHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhh
Q 010136          431 --SAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHD  478 (517)
Q Consensus       431 --al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~  478 (517)
                        ||+.+ +. ....       .|.++|+.++   .+.+.+...+..++.
T Consensus       376 ~iamyl~-r~-~~~~-------s~~~Ig~~fg---r~hstV~~a~~~i~~  413 (440)
T PRK14088        376 RIGMYVA-KN-YLGS-------SLRTIAEKFN---RSHPVVVDSVKKVKD  413 (440)
T ss_pred             HHHHHHH-HH-HhCC-------CHHHHHHHhC---CCHHHHHHHHHHHHH
Confidence              44433 21 1112       4455677775   566777777766665

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.73  E-value=4.3e-16  Score=161.93  Aligned_cols=203  Identities=18%  Similarity=0.162  Sum_probs=136.6

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC----------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL----------  182 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~----------  182 (517)
                      |...|.|   ++++|++..++.|..++..    +. +..++|+||||+|||++++.+++.+.......+.          
T Consensus         7 ~~~kyRP~~~~diiGq~~~v~~L~~~i~~----~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~   82 (451)
T PRK06305          7 SSRKYRPQTFSEILGQDAVVAVLKNALRF----NRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCK   82 (451)
T ss_pred             HHHHhCCCCHHHhcCcHHHHHHHHHHHHc----CCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHH
Confidence            3344444   5799999987766666543    44 4568899999999999999999988642110000          


Q ss_pred             -----CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCch
Q 010136          183 -----QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       183 -----~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                           ..+.++++++........                     ...+.+.+.  .........||||||+|.|....++
T Consensus        83 ~i~~~~~~d~~~i~g~~~~gid~---------------------ir~i~~~l~--~~~~~~~~kvvIIdead~lt~~~~n  139 (451)
T PRK06305         83 EISSGTSLDVLEIDGASHRGIED---------------------IRQINETVL--FTPSKSRYKIYIIDEVHMLTKEAFN  139 (451)
T ss_pred             HHhcCCCCceEEeeccccCCHHH---------------------HHHHHHHHH--hhhhcCCCEEEEEecHHhhCHHHHH
Confidence                 012344444332221111                     111122111  1112345679999999999766566


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|...++.   +...+++|++++.   ...+.+.++|| |  ..+.|.+++.+++..+|...+... ...+++++++.++
T Consensus       140 ~LLk~lEe---p~~~~~~Il~t~~---~~kl~~tI~sR-c--~~v~f~~l~~~el~~~L~~~~~~e-g~~i~~~al~~L~  209 (451)
T PRK06305        140 SLLKTLEE---PPQHVKFFLATTE---IHKIPGTILSR-C--QKMHLKRIPEETIIDKLALIAKQE-GIETSREALLPIA  209 (451)
T ss_pred             HHHHHhhc---CCCCceEEEEeCC---hHhcchHHHHh-c--eEEeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            66666554   3457777777764   46788899999 7  689999999999999999877642 2368999999998


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                      +   ...||+|.|++.+...+.
T Consensus       210 ~---~s~gdlr~a~~~Lekl~~  228 (451)
T PRK06305        210 R---AAQGSLRDAESLYDYVVG  228 (451)
T ss_pred             H---HcCCCHHHHHHHHHHHHH
Confidence            7   468999999999987654

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.73  E-value=5.6e-16  Score=156.88  Aligned_cols=219  Identities=17%  Similarity=0.264  Sum_probs=138.3

Q ss_pred             hcCcCCCCC---CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          116 ALHVSTAPS---TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       116 ~l~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .|...|.|.   +++|++...+.+..++.    .+..++++|+||||||||++++++++++....    + ...++++||
T Consensus         4 ~w~~ky~P~~~~~~~g~~~~~~~L~~~~~----~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~----~-~~~~~~i~~   74 (337)
T PRK12402          4 LWTEKYRPALLEDILGQDEVVERLSRAVD----SPNLPHLLVQGPPGSGKTAAVRALARELYGDP----W-ENNFTEFNV   74 (337)
T ss_pred             chHHhhCCCcHHHhcCCHHHHHHHHHHHh----CCCCceEEEECCCCCCHHHHHHHHHHHhcCcc----c-ccceEEech
Confidence            355566664   68899998777777654    34556899999999999999999999886321    1 124788888


Q ss_pred             CCCCCHH-HHHHH---HHHHhCCCCCCCCCCCHHHHHHHHHHhh--hccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          193 TSLTNTS-EIFSK---ILLKLQPRKKLNGSTSPLQYLQNLYSQK--LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       193 ~~~~s~~-~i~~~---i~~~l~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                      ..+.... .....   ....+...  ...+......++..+...  .........+|||||+|.+....++.|..+++..
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~  152 (337)
T PRK12402         75 ADFFDQGKKYLVEDPRFAHFLGTD--KRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQY  152 (337)
T ss_pred             hhhhhcchhhhhcCcchhhhhhhh--hhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhc
Confidence            6542110 00000   00000000  000111123333332210  1111234569999999999766666777777643


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      .   ....+|.+++.   +..+.+.+++| +  ..+.|.|++.+++..+|...+.... ..+++++++.+++   ...||
T Consensus       153 ~---~~~~~Il~~~~---~~~~~~~L~sr-~--~~v~~~~~~~~~~~~~l~~~~~~~~-~~~~~~al~~l~~---~~~gd  219 (337)
T PRK12402        153 S---RTCRFIIATRQ---PSKLIPPIRSR-C--LPLFFRAPTDDELVDVLESIAEAEG-VDYDDDGLELIAY---YAGGD  219 (337)
T ss_pred             c---CCCeEEEEeCC---hhhCchhhcCC-c--eEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HcCCC
Confidence            2   12334444553   34566788888 5  6899999999999999998876432 3589999999988   45899


Q ss_pred             HHHHHHHHHHHH
Q 010136          347 MRKALSVCRSAI  358 (517)
Q Consensus       347 ~R~al~ll~~A~  358 (517)
                      +|.+++.++.++
T Consensus       220 lr~l~~~l~~~~  231 (337)
T PRK12402        220 LRKAILTLQTAA  231 (337)
T ss_pred             HHHHHHHHHHHH
Confidence            999998887644

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=7e-16  Score=161.78  Aligned_cols=195  Identities=21%  Similarity=0.253  Sum_probs=131.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeE-EEEcCCCCcHHHHHHHHHHHHHHHHHhc-------------CCCCceEEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSL-YVCGCPGTGKSLSMEKVQHYLVDWAKEA-------------GLQQPEVFS  189 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~l-li~G~pGtGKT~l~~~v~~~l~~~~~~~-------------~~~~~~~v~  189 (517)
                      ++++|++...+.|..++..    +..++. +|+||||||||++++.+++.+.......             ......+++
T Consensus        14 ~dvvGq~~v~~~L~~~i~~----~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~e   89 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQ----GRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLE   89 (504)
T ss_pred             HHhcChHHHHHHHHHHHHc----CCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEE
Confidence            4789999877766666554    455554 9999999999999999999987421100             001123555


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCC
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFP  269 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~  269 (517)
                      +++....+...                     .+.+...+.  .......+.||||||+|.+....++.|...++.   +
T Consensus        90 l~~~~~~~vd~---------------------iR~l~~~~~--~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEe---p  143 (504)
T PRK14963         90 IDAASNNSVED---------------------VRDLREKVL--LAPLRGGRKVYILDEAHMMSKSAFNALLKTLEE---P  143 (504)
T ss_pred             ecccccCCHHH---------------------HHHHHHHHh--hccccCCCeEEEEECccccCHHHHHHHHHHHHh---C
Confidence            55432222111                     111211111  111234567999999999865445555444433   3


Q ss_pred             CCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHH
Q 010136          270 FSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRK  349 (517)
Q Consensus       270 ~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~  349 (517)
                      ...+++|.+++.   +..+.+.+.|| +  ..+.|.+++.+++...|...+.... ..+++++++++++   ...||+|.
T Consensus       144 ~~~t~~Il~t~~---~~kl~~~I~SR-c--~~~~f~~ls~~el~~~L~~i~~~eg-i~i~~~Al~~ia~---~s~GdlR~  213 (504)
T PRK14963        144 PEHVIFILATTE---PEKMPPTILSR-T--QHFRFRRLTEEEIAGKLRRLLEAEG-REAEPEALQLVAR---LADGAMRD  213 (504)
T ss_pred             CCCEEEEEEcCC---hhhCChHHhcc-e--EEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HcCCCHHH
Confidence            456777777774   46677888898 6  6899999999999999998886432 3678999999987   57899999


Q ss_pred             HHHHHHHHH
Q 010136          350 ALSVCRSAI  358 (517)
Q Consensus       350 al~ll~~A~  358 (517)
                      |++.|+.+.
T Consensus       214 aln~Lekl~  222 (504)
T PRK14963        214 AESLLERLL  222 (504)
T ss_pred             HHHHHHHHH
Confidence            999999875

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.73  E-value=2.3e-16  Score=168.02  Aligned_cols=220  Identities=17%  Similarity=0.168  Sum_probs=139.4

Q ss_pred             hcCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC-CCCceEEEEe
Q 010136          116 ALHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG-LQQPEVFSIN  191 (517)
Q Consensus       116 ~l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~-~~~~~~v~vn  191 (517)
                      .|...|.|   ++++|++..++.|..++..   +..+..++|+||+|+|||++++.+++.+.+...... .+.   + -.
T Consensus        13 ~la~KyRP~~f~dliGq~~~v~~L~~~~~~---gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~---~-~~   85 (598)
T PRK09111         13 VLARKYRPQTFDDLIGQEAMVRTLTNAFET---GRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPT---I-DL   85 (598)
T ss_pred             hHHhhhCCCCHHHhcCcHHHHHHHHHHHHc---CCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCc---c-cc
Confidence            34445555   4799999988777776553   233557999999999999999999999875321100 000   0 01


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCC--CCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCC
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKK--LNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF  268 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~--~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~  268 (517)
                      |....+    +..+...-.....  ...+....+.++.++... .........|+||||+|.|....++.|...++.   
T Consensus        86 cg~c~~----C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEe---  158 (598)
T PRK09111         86 CGVGEH----CQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEE---  158 (598)
T ss_pred             CcccHH----HHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHh---
Confidence            111100    0111111000000  000011134444444321 111234567999999999976666666666654   


Q ss_pred             CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          269 PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                      +...++||++++.   .+.+.+.++|| |  ..+.|.+++.+++..+|...+... ...+++++++++++   ...||+|
T Consensus       159 Pp~~~~fIl~tte---~~kll~tI~SR-c--q~~~f~~l~~~el~~~L~~i~~ke-gi~i~~eAl~lIa~---~a~Gdlr  228 (598)
T PRK09111        159 PPPHVKFIFATTE---IRKVPVTVLSR-C--QRFDLRRIEADVLAAHLSRIAAKE-GVEVEDEALALIAR---AAEGSVR  228 (598)
T ss_pred             CCCCeEEEEEeCC---hhhhhHHHHhh-e--eEEEecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCHH
Confidence            3456777777774   44577789998 7  799999999999999999887643 24789999999987   5789999


Q ss_pred             HHHHHHHHHHH
Q 010136          349 KALSVCRSAIE  359 (517)
Q Consensus       349 ~al~ll~~A~~  359 (517)
                      .+++.+..++.
T Consensus       229 ~al~~Ldkli~  239 (598)
T PRK09111        229 DGLSLLDQAIA  239 (598)
T ss_pred             HHHHHHHHHHh
Confidence            99999988764

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=1.6e-16  Score=169.95  Aligned_cols=197  Identities=20%  Similarity=0.211  Sum_probs=138.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC--------------CCceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL--------------QQPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~--------------~~~~~v  188 (517)
                      ++++|.+...+.|..++.    .+...+ ++|+||+|+|||++++.+++.+.+.....+.              ..+.++
T Consensus        16 ~~iiGq~~v~~~L~~~i~----~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~   91 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAID----TGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVF   91 (576)
T ss_pred             HHccCcHHHHHHHHHHHH----cCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCee
Confidence            579999987766666654    345454 6799999999999999999998642110000              012344


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh-hhccCCCceEEEEEeCcchhcccCchHHHHHhccCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      ++++......                        +.++.+... ..........|+||||+|.|....++.|...++.+ 
T Consensus        92 eid~~s~~~v------------------------~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEep-  146 (576)
T PRK14965         92 EIDGASNTGV------------------------DDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEP-  146 (576)
T ss_pred             eeeccCccCH------------------------HHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcC-
Confidence            4444332222                        223332221 01122345679999999999877778888888763 


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                        ...++||++++.   +..+.+.++|| |  ..+.|.+++.+++...|...+... ...++++++..+++   ...||+
T Consensus       147 --p~~~~fIl~t~~---~~kl~~tI~SR-c--~~~~f~~l~~~~i~~~L~~i~~~e-gi~i~~~al~~la~---~a~G~l  214 (576)
T PRK14965        147 --PPHVKFIFATTE---PHKVPITILSR-C--QRFDFRRIPLQKIVDRLRYIADQE-GISISDAALALVAR---KGDGSM  214 (576)
T ss_pred             --CCCeEEEEEeCC---hhhhhHHHHHh-h--hhhhcCCCCHHHHHHHHHHHHHHh-CCCCCHHHHHHHHH---HcCCCH
Confidence              457778887874   56788899999 7  689999999999999999887643 23689999999988   578999


Q ss_pred             HHHHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIEIL  361 (517)
Q Consensus       348 R~al~ll~~A~~~a  361 (517)
                      |.|++++..++.+.
T Consensus       215 r~al~~Ldqliay~  228 (576)
T PRK14965        215 RDSLSTLDQVLAFC  228 (576)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999998877543

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

Probab=99.72  E-value=6.3e-17  Score=171.42  Aligned_cols=227  Identities=15%  Similarity=0.163  Sum_probs=160.3

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhh--------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNL--------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l--------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      ....++.|.++..++|.+++.-.-        .-..+.+++|+||||||||.+|+++|.+-+          ++|+.+++
T Consensus       308 V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAg----------VPF~svSG  377 (774)
T KOG0731|consen  308 VKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAG----------VPFFSVSG  377 (774)
T ss_pred             CccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccC----------Cceeeech
Confidence            345688999887777777754321        122378999999999999999999987643          67999999


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc------------hHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR------------AVLH  260 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~------------~~L~  260 (517)
                      +++.....                 +.. ...++.+|.   .++...|+||||||||.+...+.            ..|.
T Consensus       378 SEFvE~~~-----------------g~~-asrvr~lf~---~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tln  436 (774)
T KOG0731|consen  378 SEFVEMFV-----------------GVG-ASRVRDLFP---LARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLN  436 (774)
T ss_pred             HHHHHHhc-----------------ccc-hHHHHHHHH---HhhccCCeEEEecccccccccccccccCCCChHHHHHHH
Confidence            87632221                 111 456788887   45678899999999999876531            2355


Q ss_pred             HHhccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          261 DLFMLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       261 ~l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      +|+-..  ......+++++.||.   ++-+++++.+.....+.|....++..+..+|+...+.+.... .++..+..+|.
T Consensus       437 Qll~emDgf~~~~~vi~~a~tnr---~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~~a~  512 (774)
T KOG0731|consen  437 QLLVEMDGFETSKGVIVLAATNR---PDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSKLAS  512 (774)
T ss_pred             HHHHHhcCCcCCCcEEEEeccCC---ccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHHHHh
Confidence            554331  223467999999995   566788888764456799999999999999999998865221 12323333444


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      .+...+|+  ...++|..|.-+|.+++..                            .|+..|+..|++.+...
T Consensus       513 ~t~gf~ga--dl~n~~neaa~~a~r~~~~----------------------------~i~~~~~~~a~~Rvi~G  556 (774)
T KOG0731|consen  513 LTPGFSGA--DLANLCNEAALLAARKGLR----------------------------EIGTKDLEYAIERVIAG  556 (774)
T ss_pred             cCCCCcHH--HHHhhhhHHHHHHHHhccC----------------------------ccchhhHHHHHHHHhcc
Confidence            33333332  3448999999888888776                            89999999999965544

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.72  E-value=3.2e-16  Score=163.80  Aligned_cols=204  Identities=22%  Similarity=0.253  Sum_probs=134.2

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC---------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ---------  183 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~---------  183 (517)
                      |...|.|   ++++|++.....|..++    ..+...+ ++|+||+|+|||++++.+++.+.+.....+.+         
T Consensus         6 ~~~kyRP~~f~diiGq~~i~~~L~~~i----~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~   81 (486)
T PRK14953          6 FARKYRPKFFKEVIGQEIVVRILKNAV----KLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVE   81 (486)
T ss_pred             HHHhhCCCcHHHccChHHHHHHHHHHH----HcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHH
Confidence            3334444   46899998776665554    4445555 56899999999999999999886421111000         


Q ss_pred             -----CceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchH
Q 010136          184 -----QPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAV  258 (517)
Q Consensus       184 -----~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~  258 (517)
                           ...++++++........                     .+.+...+.  .....+...|+||||+|.|....++.
T Consensus        82 i~~g~~~d~~eidaas~~gvd~---------------------ir~I~~~~~--~~P~~~~~KVvIIDEad~Lt~~a~na  138 (486)
T PRK14953         82 IDKGSFPDLIEIDAASNRGIDD---------------------IRALRDAVS--YTPIKGKYKVYIIDEAHMLTKEAFNA  138 (486)
T ss_pred             HhcCCCCcEEEEeCccCCCHHH---------------------HHHHHHHHH--hCcccCCeeEEEEEChhhcCHHHHHH
Confidence                 01233333322111111                     122222222  12224566799999999997666666


Q ss_pred             HHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          259 LHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       259 L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      |...++.+   ...+++|.+++.   .+.+.+.+.+| +  ..+.|.|++.+++..+|..++.... ..+++++++++++
T Consensus       139 LLk~LEep---p~~~v~Il~tt~---~~kl~~tI~SR-c--~~i~f~~ls~~el~~~L~~i~k~eg-i~id~~al~~La~  208 (486)
T PRK14953        139 LLKTLEEP---PPRTIFILCTTE---YDKIPPTILSR-C--QRFIFSKPTKEQIKEYLKRICNEEK-IEYEEKALDLLAQ  208 (486)
T ss_pred             HHHHHhcC---CCCeEEEEEECC---HHHHHHHHHHh-c--eEEEcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH
Confidence            66666543   345566666663   45577788888 6  6899999999999999998887432 3778999999987


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHH
Q 010136          339 KVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                         .+.||+|.|+++++.+...
T Consensus       209 ---~s~G~lr~al~~Ldkl~~~  227 (486)
T PRK14953        209 ---ASEGGMRDAASLLDQASTY  227 (486)
T ss_pred             ---HcCCCHHHHHHHHHHHHHh
Confidence               4779999999999988743

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.72  E-value=6e-16  Score=160.81  Aligned_cols=177  Identities=15%  Similarity=0.204  Sum_probs=115.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +++.|.+++++++.+.+...+.         -..+.+++||||||||||++++++++++.............++.+.+..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~e  261 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPE  261 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchh
Confidence            5788999999999998753221         1246789999999999999999999988642111000011233333322


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhh-ccCCCceEEEEEeCcchhcccCc---------hHHHHHhc
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL-HSSVMKMMLIIADELDYLITRDR---------AVLHDLFM  264 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~~~---------~~L~~l~~  264 (517)
                      +.+.+.                 +. ....++.+|.... ......++||||||+|.+...+.         ..+..|+.
T Consensus       262 Ll~kyv-----------------Ge-te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~  323 (512)
T TIGR03689       262 LLNKYV-----------------GE-TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLS  323 (512)
T ss_pred             hccccc-----------------ch-HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHH
Confidence            211110                 11 2445555555321 12245689999999999975421         23445554


Q ss_pred             cCC--CCCCcEEEEEEECCCCcchhhcccccccC-CCceEEEeCCCCHHHHHHHHHHHHhh
Q 010136          265 LTT--FPFSRFILIGIANAIDLADRFLPRLQSMN-CKPLVVTFRAYSKDQIIRILQERLME  322 (517)
Q Consensus       265 ~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~-~~~~~i~f~p~~~~e~~~IL~~rl~~  322 (517)
                      +..  ....+++||++||   .++.++|++.+.. | ...|.|++++.++..+|+..++..
T Consensus       324 ~LDgl~~~~~ViVI~ATN---~~d~LDpALlRpGRf-D~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       324 ELDGVESLDNVIVIGASN---REDMIDPAILRPGRL-DVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             HhcccccCCceEEEeccC---ChhhCCHhhcCcccc-ceEEEeCCCCHHHHHHHHHHHhhc
Confidence            421  1235799999999   4777899998731 5 458999999999999999988763

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.72  E-value=4.5e-16  Score=158.76  Aligned_cols=197  Identities=22%  Similarity=0.252  Sum_probs=134.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC--------------CCCceEEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG--------------LQQPEVFS  189 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~--------------~~~~~~v~  189 (517)
                      ++++|+++.++.+..++..   +..+..++|+||||+|||++++.+++.+........              ...+.+++
T Consensus        14 ~~iig~~~~~~~l~~~~~~---~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~   90 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKN---GRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIE   90 (355)
T ss_pred             hhccCcHHHHHHHHHHHHc---CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEE
Confidence            4789999998888877653   223456789999999999999999999864210000              01134555


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCC
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF  268 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~  268 (517)
                      +++....+..                        .++.++... .........||+|||+|.+....++.|...++.   
T Consensus        91 ~~~~~~~~~~------------------------~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~---  143 (355)
T TIGR02397        91 IDAASNNGVD------------------------DIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEE---  143 (355)
T ss_pred             eeccccCCHH------------------------HHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhC---
Confidence            5554322222                        122222210 011123456999999999976556666666554   


Q ss_pred             CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          269 PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                      +...+++|++++.   +..+.+.+++| +  ..+.|++++.+++.+++..++.... ..+++++++.+++   ...||+|
T Consensus       144 ~~~~~~lIl~~~~---~~~l~~~l~sr-~--~~~~~~~~~~~~l~~~l~~~~~~~g-~~i~~~a~~~l~~---~~~g~~~  213 (355)
T TIGR02397       144 PPEHVVFILATTE---PHKIPATILSR-C--QRFDFKRIPLEDIVERLKKILDKEG-IKIEDEALELIAR---AADGSLR  213 (355)
T ss_pred             CccceeEEEEeCC---HHHHHHHHHhh-e--eEEEcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HcCCChH
Confidence            3346777777774   45677888898 6  6899999999999999999887432 3688999999887   4689999


Q ss_pred             HHHHHHHHHHHH
Q 010136          349 KALSVCRSAIEI  360 (517)
Q Consensus       349 ~al~ll~~A~~~  360 (517)
                      .|++.+..+...
T Consensus       214 ~a~~~lekl~~~  225 (355)
T TIGR02397       214 DALSLLDQLISF  225 (355)
T ss_pred             HHHHHHHHHHhh
Confidence            999999887754

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.72  E-value=1.2e-15  Score=159.95  Aligned_cols=213  Identities=15%  Similarity=0.203  Sum_probs=138.8

Q ss_pred             cCcCCCCCCCC-CcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAPSTIV-CREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |++.+.+++++ |.....  ....+......  ...+.++|+||||+|||++++++++++....     +...++|+++.
T Consensus       115 l~~~~tfd~fv~g~~n~~--a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~-----~~~~v~yi~~~  187 (450)
T PRK00149        115 LNPKYTFDNFVVGKSNRL--AHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKN-----PNAKVVYVTSE  187 (450)
T ss_pred             CCCCCcccccccCCCcHH--HHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhC-----CCCeEEEEEHH
Confidence            55566666644 433332  23333333322  2345799999999999999999999987531     12468899986


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFS  271 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~  271 (517)
                      .+      ...+...+..        .....+.+.+.        ...+|+|||+|.+..+.  ++.|+.+++.....+.
T Consensus       188 ~~------~~~~~~~~~~--------~~~~~~~~~~~--------~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~  245 (450)
T PRK00149        188 KF------TNDFVNALRN--------NTMEEFKEKYR--------SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGK  245 (450)
T ss_pred             HH------HHHHHHHHHc--------CcHHHHHHHHh--------cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCC
Confidence            54      2233333311        11233333332        34699999999997653  4567776665332332


Q ss_pred             cEEEEEEECC-CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHH
Q 010136          272 RFILIGIANA-IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKA  350 (517)
Q Consensus       272 ~v~lI~ian~-~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~a  350 (517)
                       .++|+ +|. ......+++++.||......+.|.+|+.+++.+||+.++... ...++++++++||+   ...||+|.+
T Consensus       246 -~iiit-s~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~-~~~l~~e~l~~ia~---~~~~~~R~l  319 (450)
T PRK00149        246 -QIVLT-SDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEE-GIDLPDEVLEFIAK---NITSNVREL  319 (450)
T ss_pred             -cEEEE-CCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHc---CcCCCHHHH
Confidence             34443 443 222333778999994344689999999999999999988742 34789999999998   578999998


Q ss_pred             HHHHHHHHHHHHHH
Q 010136          351 LSVCRSAIEILEAE  364 (517)
Q Consensus       351 l~ll~~A~~~a~~~  364 (517)
                      ..++......+...
T Consensus       320 ~~~l~~l~~~~~~~  333 (450)
T PRK00149        320 EGALNRLIAYASLT  333 (450)
T ss_pred             HHHHHHHHHHHHhh
Confidence            88888776665544

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

Probab=99.71  E-value=4.9e-17  Score=162.81  Aligned_cols=253  Identities=18%  Similarity=0.185  Sum_probs=178.8

Q ss_pred             hhhhccCCCCCCCChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136           93 CDSFKSKPNWNPQDVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+.+...+.+.|+|+..+..++..+.+..+.  .+.|-+.+..        + .....++++.||||+|||++++++|.+
T Consensus       141 ~EI~~~~~~v~~~di~gl~~~k~~l~e~vi~--p~lr~d~F~g--------l-r~p~rglLLfGPpgtGKtmL~~aiAsE  209 (428)
T KOG0740|consen  141 NEIGDTLRNVGWDDIAGLEDAKQSLKEAVIL--PLLRPDLFLG--------L-REPVRGLLLFGPPGTGKTMLAKAIATE  209 (428)
T ss_pred             HHHhccCCcccccCCcchhhHHHHhhhhhhh--cccchHhhhc--------c-ccccchhheecCCCCchHHHHHHHHhh
Confidence            4445666778888888887788777766542  2233332111        1 234668999999999999999999998


Q ss_pred             HHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          173 LVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       173 l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      ..          ..|+.|++.++.+.+-                 |.. ...++.+|.   .++...|.||||||+|.+.
T Consensus       210 ~~----------atff~iSassLtsK~~-----------------Ge~-eK~vralf~---vAr~~qPsvifidEidsll  258 (428)
T KOG0740|consen  210 SG----------ATFFNISASSLTSKYV-----------------GES-EKLVRALFK---VARSLQPSVIFIDEIDSLL  258 (428)
T ss_pred             hc----------ceEeeccHHHhhhhcc-----------------ChH-HHHHHHHHH---HHHhcCCeEEEechhHHHH
Confidence            76          3789999988877664                 444 677788886   5567889999999999998


Q ss_pred             ccCc------------hHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHH
Q 010136          253 TRDR------------AVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERL  320 (517)
Q Consensus       253 ~~~~------------~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl  320 (517)
                      ..+.            +.|.++.-....+..+|.|||+||   .++.++..+++| |. .+++++.++.+....++...+
T Consensus       259 s~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN---~P~e~Dea~~Rr-f~-kr~yiplPd~etr~~~~~~ll  333 (428)
T KOG0740|consen  259 SKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATN---RPWELDEAARRR-FV-KRLYIPLPDYETRSLLWKQLL  333 (428)
T ss_pred             hhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEecCC---CchHHHHHHHHH-hh-ceeeecCCCHHHHHHHHHHHH
Confidence            6531            233333333455667999999999   799999999998 64 488899999999999999888


Q ss_pred             hhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhh--hhccccccccccchhhhhhhhhhccCccc
Q 010136          321 MELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRES--VSKMNSASAEQGLFDQQAASAFEFFNSQV  397 (517)
Q Consensus       321 ~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~V  397 (517)
                      ..- ...+.+..++.+++...+++| |+.   ++|+.|...=.++....  .+..   ..+              ....|
T Consensus       334 ~~~-~~~l~~~d~~~l~~~Tegysgsdi~---~l~kea~~~p~r~~~~~~~~~~~---~~~--------------~~r~i  392 (428)
T KOG0740|consen  334 KEQ-PNGLSDLDISLLAKVTEGYSGSDIT---ALCKEAAMGPLRELGGTTDLEFI---DAD--------------KIRPI  392 (428)
T ss_pred             HhC-CCCccHHHHHHHHHHhcCcccccHH---HHHHHhhcCchhhcccchhhhhc---chh--------------ccCCC
Confidence            754 567888899999998888776 554   68888764322222110  0000   000              01268


Q ss_pred             cHHHHHHHHHHhccCh
Q 010136          398 RVDHMAVALSNTFKSP  413 (517)
Q Consensus       398 t~~~v~~a~~~~~~~~  413 (517)
                      +..|+..++..+..+.
T Consensus       393 ~~~df~~a~~~i~~~~  408 (428)
T KOG0740|consen  393 TYPDFKNAFKNIKPSV  408 (428)
T ss_pred             CcchHHHHHHhhcccc
Confidence            8899999998887764

>PRK08727 hypothetical protein; Validated

Probab=99.71  E-value=2e-16  Score=150.96  Aligned_cols=190  Identities=16%  Similarity=0.155  Sum_probs=128.7

Q ss_pred             cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHH
Q 010136          146 EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYL  225 (517)
Q Consensus       146 ~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l  225 (517)
                      +.....++|+|++|||||+++.+++.++.+.    +   ..++|++.....                          ..+
T Consensus        38 ~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~----~---~~~~y~~~~~~~--------------------------~~~   84 (233)
T PRK08727         38 GQSSDWLYLSGPAGTGKTHLALALCAAAEQA----G---RSSAYLPLQAAA--------------------------GRL   84 (233)
T ss_pred             ccCCCeEEEECCCCCCHHHHHHHHHHHHHHc----C---CcEEEEeHHHhh--------------------------hhH
Confidence            3345679999999999999999999887542    2   356777753311                          011


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCC-CcchhhcccccccCCCceEE
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAI-DLADRFLPRLQSMNCKPLVV  302 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~-~~~~~l~~~l~sr~~~~~~i  302 (517)
                      ...+.     ......+|+|||+|.+....  +..|+.+++.....  ...+|.++|.. .....++++++||......+
T Consensus        85 ~~~~~-----~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~--~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~  157 (233)
T PRK08727         85 RDALE-----ALEGRSLVALDGLESIAGQREDEVALFDFHNRARAA--GITLLYTARQMPDGLALVLPDLRSRLAQCIRI  157 (233)
T ss_pred             HHHHH-----HHhcCCEEEEeCcccccCChHHHHHHHHHHHHHHHc--CCeEEEECCCChhhhhhhhHHHHHHHhcCceE
Confidence            11222     11233589999999987543  35666776653222  23355556642 22223478999983334689


Q ss_pred             EeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccch
Q 010136          303 TFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLF  382 (517)
Q Consensus       303 ~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~  382 (517)
                      .|++|+.+++.+||+.+.... .-.+++++++++++.   ..||+|.+++++......+...++                
T Consensus       158 ~l~~~~~e~~~~iL~~~a~~~-~l~l~~e~~~~La~~---~~rd~r~~l~~L~~l~~~~~~~~~----------------  217 (233)
T PRK08727        158 GLPVLDDVARAAVLRERAQRR-GLALDEAAIDWLLTH---GERELAGLVALLDRLDRESLAAKR----------------  217 (233)
T ss_pred             EecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHHhCC----------------
Confidence            999999999999999876532 247899999999984   679999999999877654443321                


Q ss_pred             hhhhhhhhhccCccccHHHHHHHHHH
Q 010136          383 DQQAASAFEFFNSQVRVDHMAVALSN  408 (517)
Q Consensus       383 ~~~~~~~~~~~~~~Vt~~~v~~a~~~  408 (517)
                                   .||.+.+.+++..
T Consensus       218 -------------~it~~~~~~~l~~  230 (233)
T PRK08727        218 -------------RVTVPFLRRVLEE  230 (233)
T ss_pred             -------------CCCHHHHHHHHhh
Confidence                         5899988888754

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.70  E-value=1.1e-15  Score=158.17  Aligned_cols=213  Identities=14%  Similarity=0.187  Sum_probs=138.6

Q ss_pred             cCcCCCCCC-CCCcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAPST-IVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p~~-l~gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |++.+.+++ ++|.+..+  ....+......  ...+.++|+|++|+|||++++++++++....     +...++|+++.
T Consensus       103 l~~~~tfd~fi~g~~n~~--a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~-----~~~~v~yi~~~  175 (405)
T TIGR00362       103 LNPKYTFDNFVVGKSNRL--AHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENN-----PNAKVVYVSSE  175 (405)
T ss_pred             CCCCCcccccccCCcHHH--HHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhC-----CCCcEEEEEHH
Confidence            556677776 44655443  33333333332  2245789999999999999999999986531     12468899875


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCCCCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTTFPFS  271 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~~~~~  271 (517)
                      .+      ...+...+...        ....+.+.+.        ..-+|+|||+|.+...  .++.|+.+++.....+.
T Consensus       176 ~~------~~~~~~~~~~~--------~~~~~~~~~~--------~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~  233 (405)
T TIGR00362       176 KF------TNDFVNALRNN--------KMEEFKEKYR--------SVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGK  233 (405)
T ss_pred             HH------HHHHHHHHHcC--------CHHHHHHHHH--------hCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCC
Confidence            43      33344444211        1333433333        2358999999999765  24567777665322233


Q ss_pred             cEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHH
Q 010136          272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKAL  351 (517)
Q Consensus       272 ~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al  351 (517)
                      . ++|++.........+++++.||......+.|.+|+.+++.+||+.++... ...++++++++||+   ...||+|.+.
T Consensus       234 ~-iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~-~~~l~~e~l~~ia~---~~~~~~r~l~  308 (405)
T TIGR00362       234 Q-IVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEE-GLELPDEVLEFIAK---NIRSNVRELE  308 (405)
T ss_pred             C-EEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hcCCCHHHHH
Confidence            3 34443333333444678999994334589999999999999999998753 34789999999998   5788999877


Q ss_pred             HHHHHHHHHHHH
Q 010136          352 SVCRSAIEILEA  363 (517)
Q Consensus       352 ~ll~~A~~~a~~  363 (517)
                      .++......|..
T Consensus       309 ~~l~~l~~~a~~  320 (405)
T TIGR00362       309 GALNRLLAYASL  320 (405)
T ss_pred             HHHHHHHHHHHH
Confidence            777766655544

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.70  E-value=3.6e-16  Score=173.82  Aligned_cols=213  Identities=14%  Similarity=0.163  Sum_probs=143.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||++++.++...|..    ...++++|+||||||||++++.+++.+........+....++.++...+......  
T Consensus       187 d~~iGr~~ei~~~i~~l~r----~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~--  260 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLR----RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASV--  260 (852)
T ss_pred             CcccCCHHHHHHHHHHHhc----CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhccccc--
Confidence            4789999998888877644    4567899999999999999999999886421100111234555554433111000  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc----CchHHHHHhccCCCCCCcEEEEEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR----DRAVLHDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~----~~~~L~~l~~~~~~~~~~v~lI~ia  279 (517)
                                    .....+.++.+|....  ....++||||||+|.|...    .+....+++. +......+.+||+|
T Consensus       261 --------------~ge~e~~lk~ii~e~~--~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lk-p~l~~G~l~~IgaT  323 (852)
T TIGR03345       261 --------------KGEFENRLKSVIDEVK--ASPQPIILFIDEAHTLIGAGGQAGQGDAANLLK-PALARGELRTIAAT  323 (852)
T ss_pred             --------------chHHHHHHHHHHHHHH--hcCCCeEEEEeChHHhccCCCccccccHHHHhh-HHhhCCCeEEEEec
Confidence                          1112456666666321  2346789999999999752    1222223332 23456789999988


Q ss_pred             CCCCcc--hhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh---hhccCCCChhHHHHHHHHHHHHhCC---HHHHH
Q 010136          280 NAIDLA--DRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM---ELSYIVFQPQALELCARKVAAASGD---MRKAL  351 (517)
Q Consensus       280 n~~~~~--~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~---~~~~~~~~~~ai~~ia~~~~~~~Gd---~R~al  351 (517)
                      +..++.  -..++.+.+| |  +.|.+++++.++...||+....   ......++++++..+++...++-+|   +.+||
T Consensus       324 T~~e~~~~~~~d~AL~rR-f--~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAI  400 (852)
T TIGR03345       324 TWAEYKKYFEKDPALTRR-F--QVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAV  400 (852)
T ss_pred             CHHHHhhhhhccHHHHHh-C--eEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHH
Confidence            854332  2358999998 7  6899999999999999754443   2233578999999999877776665   78999


Q ss_pred             HHHHHHHHHHH
Q 010136          352 SVCRSAIEILE  362 (517)
Q Consensus       352 ~ll~~A~~~a~  362 (517)
                      ++++.|+..+.
T Consensus       401 dlldea~a~~~  411 (852)
T TIGR03345       401 SLLDTACARVA  411 (852)
T ss_pred             HHHHHHHHHHH
Confidence            99999875443

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.

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

Probab=99.70  E-value=1.3e-15  Score=149.13  Aligned_cols=235  Identities=12%  Similarity=0.151  Sum_probs=152.8

Q ss_pred             HHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhC
Q 010136          131 DEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQ  210 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~  210 (517)
                      ...+++...+...+. ...+.++|+|++|+|||++++.+++.+...    .   +.++++. ....+...++..|+..++
T Consensus        26 ~~~~~~~~~l~~~~~-~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~----~---~~~~~~~-~~~~~~~~~l~~i~~~lG   96 (269)
T TIGR03015        26 KGHKRAMAYLEYGLS-QREGFILITGEVGAGKTTLIRNLLKRLDQE----R---VVAAKLV-NTRVDAEDLLRMVAADFG   96 (269)
T ss_pred             HHHHHHHHHHHHHHh-cCCCEEEEEcCCCCCHHHHHHHHHHhcCCC----C---eEEeeee-CCCCCHHHHHHHHHHHcC
Confidence            334455556555443 345679999999999999999998876421    1   1222221 123467788888988886


Q ss_pred             CCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhc-
Q 010136          211 PRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFL-  289 (517)
Q Consensus       211 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~-  289 (517)
                      ..............+...+...  ...+++.+|+|||+|.+.....+.|..+.+........+.++. +...++.+.+. 
T Consensus        97 ~~~~~~~~~~~~~~l~~~l~~~--~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl-~g~~~~~~~l~~  173 (269)
T TIGR03015        97 LETEGRDKAALLRELEDFLIEQ--FAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFL-VGQPEFRETLQS  173 (269)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHH--HhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEE-cCCHHHHHHHcC
Confidence            5432111111122333333211  1245668999999999976555667666665432333344444 33333433332 


Q ss_pred             ---ccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhc---cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Q 010136          290 ---PRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS---YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       290 ---~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~---~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                         ..+.+| + ...+.++|++.+|+.+++..++....   ...|++++++.+++   .+.|++|....+|..|+..|..
T Consensus       174 ~~~~~l~~r-~-~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~---~s~G~p~~i~~l~~~~~~~a~~  248 (269)
T TIGR03015       174 PQLQQLRQR-I-IASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHR---FSRGIPRLINILCDRLLLSAFL  248 (269)
T ss_pred             chhHHHHhh-e-eeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHH---HcCCcccHHHHHHHHHHHHHHH
Confidence               235555 3 35889999999999999999987432   23689999999877   5788999998999999988877


Q ss_pred             HHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          364 EMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      .+..                            .|+.++|..++..+.
T Consensus       249 ~~~~----------------------------~i~~~~v~~~~~~~~  267 (269)
T TIGR03015       249 EEKR----------------------------EIGGEEVREVIAEID  267 (269)
T ss_pred             cCCC----------------------------CCCHHHHHHHHHHhh
Confidence            6554                            799999999998764

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.

>CHL00181 cbbX CbbX; Provisional

Probab=99.70  E-value=5.3e-16  Score=151.99  Aligned_cols=215  Identities=16%  Similarity=0.183  Sum_probs=134.6

Q ss_pred             HHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHh----h-c------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHH
Q 010136          110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKN----L-E------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAK  178 (517)
Q Consensus       110 ~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~----l-~------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~  178 (517)
                      +....+.|+.     .++|.++..++|.+++...    + .      ...+.+++|+||||||||++|+.+++.+.... 
T Consensus        14 ~~~~~~~l~~-----~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g-   87 (287)
T CHL00181         14 IQEVLDILDE-----ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLG-   87 (287)
T ss_pred             HHHHHHHHHH-----hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcC-
Confidence            4444444443     3688887777666553211    1 0      11345799999999999999999999876421 


Q ss_pred             hcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc----
Q 010136          179 EAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR----  254 (517)
Q Consensus       179 ~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~----  254 (517)
                        -.+.-.++++++..+          ...+.       +.. .......|..      ....||||||+|.|...    
T Consensus        88 --~~~~~~~~~v~~~~l----------~~~~~-------g~~-~~~~~~~l~~------a~ggVLfIDE~~~l~~~~~~~  141 (287)
T CHL00181         88 --YIKKGHLLTVTRDDL----------VGQYI-------GHT-APKTKEVLKK------AMGGVLFIDEAYYLYKPDNER  141 (287)
T ss_pred             --CCCCCceEEecHHHH----------HHHHh-------ccc-hHHHHHHHHH------ccCCEEEEEccchhccCCCcc
Confidence              111124777775432          11121       221 2334555652      12359999999998432    


Q ss_pred             --CchHHHHHhccCCCCCCcEEEEEEECCCCcch---hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCC
Q 010136          255 --DRAVLHDLFMLTTFPFSRFILIGIANAIDLAD---RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQ  329 (517)
Q Consensus       255 --~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~---~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~  329 (517)
                        ..+++..|+.+.......++||++++. +..+   .++|.+.+| | ...|.|++|+.+|+.+|+...+.... ..++
T Consensus       142 ~~~~e~~~~L~~~me~~~~~~~vI~ag~~-~~~~~~~~~np~L~sR-~-~~~i~F~~~t~~el~~I~~~~l~~~~-~~l~  217 (287)
T CHL00181        142 DYGSEAIEILLQVMENQRDDLVVIFAGYK-DRMDKFYESNPGLSSR-I-ANHVDFPDYTPEELLQIAKIMLEEQQ-YQLT  217 (287)
T ss_pred             chHHHHHHHHHHHHhcCCCCEEEEEeCCc-HHHHHHHhcCHHHHHh-C-CceEEcCCcCHHHHHHHHHHHHHHhc-CCCC
Confidence              124444444443333456778876543 2222   235889998 6 45999999999999999998887542 3677


Q ss_pred             hhHHHHHHHHHHH-----HhCCHHHHHHHHHHHHHH
Q 010136          330 PQALELCARKVAA-----ASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       330 ~~ai~~ia~~~~~-----~~Gd~R~al~ll~~A~~~  360 (517)
                      +++.+.+...+..     ..|++|.+.++++.|+..
T Consensus       218 ~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~~~~  253 (287)
T CHL00181        218 PEAEKALLDYIKKRMEQPLFANARSVRNALDRARMR  253 (287)
T ss_pred             hhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHH
Confidence            8877777665543     337799998888887754

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.70  E-value=3.9e-16  Score=165.64  Aligned_cols=237  Identities=17%  Similarity=0.182  Sum_probs=153.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-CHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-NTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-s~~~i~  202 (517)
                      ++++|++..++.+...+    ....+.+++|+||||||||++|+.+.+...............|+.++|.... +...+-
T Consensus        65 ~~iiGqs~~i~~l~~al----~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~~~~~~~~  140 (531)
T TIGR02902        65 DEIIGQEEGIKALKAAL----CGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTARFDERGIA  140 (531)
T ss_pred             HHeeCcHHHHHHHHHHH----hCCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccccccCCccccc
Confidence            46899999888777553    3456789999999999999999999876543211100011368999987532 111111


Q ss_pred             HHHHHHhCCCC-CC--CCCCCH-HHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC-----------
Q 010136          203 SKILLKLQPRK-KL--NGSTSP-LQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT-----------  267 (517)
Q Consensus       203 ~~i~~~l~~~~-~~--~~~~~~-~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~-----------  267 (517)
                      ..++....... ..  ..+... .+.-...+.      .....+|||||+|.|....|+.|..+++...           
T Consensus       141 ~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~------~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~~~~  214 (531)
T TIGR02902       141 DPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVT------RAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSE  214 (531)
T ss_pred             hhhcCCcccchhccccccccCCcccccCchhh------ccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeecccccccc
Confidence            11111100000 00  000000 000000111      2234699999999998888887777664310           


Q ss_pred             --------------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHH
Q 010136          268 --------------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQAL  333 (517)
Q Consensus       268 --------------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai  333 (517)
                                    .....+.+|++|+.  .++.+.+.+++| |  ..+.|+||+.+++.+|++..++... ..++++++
T Consensus       215 ~~~~~~~~~~~~~~~~~~d~rlI~ATt~--~p~~L~paLrsR-~--~~I~f~pL~~eei~~Il~~~a~k~~-i~is~~al  288 (531)
T TIGR02902       215 NPNIPSHIHDIFQNGLPADFRLIGATTR--NPEEIPPALRSR-C--VEIFFRPLLDEEIKEIAKNAAEKIG-INLEKHAL  288 (531)
T ss_pred             CcccccchhhhcccCcccceEEEEEecC--CcccCChHHhhh-h--heeeCCCCCHHHHHHHHHHHHHHcC-CCcCHHHH
Confidence                          01235667776654  466788999998 6  6899999999999999998887543 47899999


Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHH
Q 010136          334 ELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSN  408 (517)
Q Consensus       334 ~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~  408 (517)
                      +.++..    ..+.|.++++++.|+.+|..+++.                            .|+.+|+.+++..
T Consensus       289 ~~I~~y----~~n~Rel~nll~~Aa~~A~~~~~~----------------------------~It~~dI~~vl~~  331 (531)
T TIGR02902       289 ELIVKY----ASNGREAVNIVQLAAGIALGEGRK----------------------------RILAEDIEWVAEN  331 (531)
T ss_pred             HHHHHh----hhhHHHHHHHHHHHHHHHhhCCCc----------------------------EEcHHHHHHHhCC
Confidence            988763    337899999999999888766544                            6889999888863

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.69  E-value=5.1e-16  Score=148.36  Aligned_cols=180  Identities=15%  Similarity=0.141  Sum_probs=119.6

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL  215 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~  215 (517)
                      ....+..+.......+++|+||||||||+++.++++++...    +   ..+.|+++.....   .              
T Consensus        32 a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~----~---~~v~y~~~~~~~~---~--------------   87 (235)
T PRK08084         32 LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR----G---RAVGYVPLDKRAW---F--------------   87 (235)
T ss_pred             HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC----C---CeEEEEEHHHHhh---h--------------
Confidence            33444444444456799999999999999999999887642    2   3566776643110   0              


Q ss_pred             CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCC-Ccchhhcccc
Q 010136          216 NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAI-DLADRFLPRL  292 (517)
Q Consensus       216 ~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~-~~~~~l~~~l  292 (517)
                            ...+.+.+.        ...+|+|||+|.+....  +..|+.+++..... .+..+|++++.. .....+.|++
T Consensus        88 ------~~~~~~~~~--------~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~-g~~~li~ts~~~p~~l~~~~~~L  152 (235)
T PRK08084         88 ------VPEVLEGME--------QLSLVCIDNIECIAGDELWEMAIFDLYNRILES-GRTRLLITGDRPPRQLNLGLPDL  152 (235)
T ss_pred             ------hHHHHHHhh--------hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHc-CCCeEEEeCCCChHHcCcccHHH
Confidence                  111112222        12489999999997543  45666666553222 233344445532 1122257999


Q ss_pred             cccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          293 QSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       293 ~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      +||.-....+.+.|++.+++.++|+.+.... ...+++++++++++   ...||+|.++.++....
T Consensus       153 ~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~-~~~l~~~v~~~L~~---~~~~d~r~l~~~l~~l~  214 (235)
T PRK08084        153 ASRLDWGQIYKLQPLSDEEKLQALQLRARLR-GFELPEDVGRFLLK---RLDREMRTLFMTLDQLD  214 (235)
T ss_pred             HHHHhCCceeeecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hhcCCHHHHHHHHHHHH
Confidence            9994344599999999999999998766532 34789999999998   57999999999998753

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.69  E-value=1.6e-15  Score=161.04  Aligned_cols=196  Identities=18%  Similarity=0.242  Sum_probs=135.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC--------------CceEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ--------------QPEVF  188 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~--------------~~~~v  188 (517)
                      ++++|.+..++.|..++..    +. +..++|+||+|+|||++++.+++.+.......+.+              .+.++
T Consensus        16 ~diiGqe~iv~~L~~~i~~----~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~   91 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIES----NKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVI   91 (563)
T ss_pred             HHccCcHHHHHHHHHHHHc----CCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeE
Confidence            4799999988877777654    34 44588999999999999999999987531111100              12333


Q ss_pred             EEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh-hhccCCCceEEEEEeCcchhcccCchHHHHHhccCC
Q 010136          189 SINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       189 ~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      .+++.....                        .+.++.+... .......+..|+||||+|.|....++.|...++.  
T Consensus        92 ~idgas~~~------------------------vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEe--  145 (563)
T PRK06647         92 EIDGASNTS------------------------VQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEE--  145 (563)
T ss_pred             EecCcccCC------------------------HHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhcc--
Confidence            333322111                        2233333221 0111234567999999999976555566555543  


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                       +...+++|++++.   +..+.+.++|| |  +.+.|.+++.+++.++|...+... ...+++++++++++   ...||+
T Consensus       146 -pp~~~vfI~~tte---~~kL~~tI~SR-c--~~~~f~~l~~~el~~~L~~i~~~e-gi~id~eAl~lLa~---~s~Gdl  214 (563)
T PRK06647        146 -PPPYIVFIFATTE---VHKLPATIKSR-C--QHFNFRLLSLEKIYNMLKKVCLED-QIKYEDEALKWIAY---KSTGSV  214 (563)
T ss_pred             -CCCCEEEEEecCC---hHHhHHHHHHh-c--eEEEecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCH
Confidence             4567888887764   46678899999 7  689999999999999999877642 24688999999988   578999


Q ss_pred             HHHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIEI  360 (517)
Q Consensus       348 R~al~ll~~A~~~  360 (517)
                      |.|++++..++.+
T Consensus       215 R~alslLdklis~  227 (563)
T PRK06647        215 RDAYTLFDQVVSF  227 (563)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999887644

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.69  E-value=1.9e-15  Score=155.60  Aligned_cols=205  Identities=17%  Similarity=0.179  Sum_probs=135.5

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcC--------C--
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAG--------L--  182 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~--------~--  182 (517)
                      |...|.|   ++++|++...+.|..++.    .+..++ ++|+||||+|||++|+.+++.+.......+        .  
T Consensus         6 l~~k~RP~~~~eiiGq~~~~~~L~~~~~----~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c   81 (397)
T PRK14955          6 IARKYRPKKFADITAQEHITRTIQNSLR----MGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPC   81 (397)
T ss_pred             HHHhcCCCcHhhccChHHHHHHHHHHHH----hCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCC
Confidence            3344555   479999987766655544    445454 889999999999999999999864210000        0  


Q ss_pred             ------------CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcc
Q 010136          183 ------------QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELD  249 (517)
Q Consensus       183 ------------~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD  249 (517)
                                  ..+.++.+++.....                        .+.++.+.... .........|+||||+|
T Consensus        82 ~~c~~c~~~~~~~~~n~~~~~~~~~~~------------------------id~Ir~l~~~~~~~p~~~~~kvvIIdea~  137 (397)
T PRK14955         82 GECESCRDFDAGTSLNISEFDAASNNS------------------------VDDIRLLRENVRYGPQKGRYRVYIIDEVH  137 (397)
T ss_pred             CCCHHHHHHhcCCCCCeEeecccccCC------------------------HHHHHHHHHHHhhchhcCCeEEEEEeChh
Confidence                        001222222221111                        23333332211 11123455799999999


Q ss_pred             hhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCC
Q 010136          250 YLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQ  329 (517)
Q Consensus       250 ~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~  329 (517)
                      .+....++.|...++.   +....++|++++.   ...+.+.+++| +  ..+.|.+++.+++...+...+... ...++
T Consensus       138 ~l~~~~~~~LLk~LEe---p~~~t~~Il~t~~---~~kl~~tl~sR-~--~~v~f~~l~~~ei~~~l~~~~~~~-g~~i~  207 (397)
T PRK14955        138 MLSIAAFNAFLKTLEE---PPPHAIFIFATTE---LHKIPATIASR-C--QRFNFKRIPLEEIQQQLQGICEAE-GISVD  207 (397)
T ss_pred             hCCHHHHHHHHHHHhc---CCCCeEEEEEeCC---hHHhHHHHHHH-H--HHhhcCCCCHHHHHHHHHHHHHHc-CCCCC
Confidence            9976666666666553   3345666666663   46777888888 6  589999999999999999887642 24689


Q ss_pred             hhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Q 010136          330 PQALELCARKVAAASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       330 ~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~  362 (517)
                      +++++++++   .+.||+|.|++.|..+..++.
T Consensus       208 ~~al~~l~~---~s~g~lr~a~~~L~kl~~~~~  237 (397)
T PRK14955        208 ADALQLIGR---KAQGSMRDAQSILDQVIAFSV  237 (397)
T ss_pred             HHHHHHHHH---HcCCCHHHHHHHHHHHHHhcc
Confidence            999999987   478999999999998776653

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.68  E-value=2.5e-15  Score=160.34  Aligned_cols=197  Identities=19%  Similarity=0.189  Sum_probs=133.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhc----------------------
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEA----------------------  180 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~----------------------  180 (517)
                      ++++|++..+..|..+    +..+... .++|+||+|||||++|+.+++.+.+.....                      
T Consensus        16 ~eivGQe~i~~~L~~~----i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~   91 (620)
T PRK14954         16 ADITAQEHITHTIQNS----LRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFD   91 (620)
T ss_pred             HHhcCcHHHHHHHHHH----HHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHh
Confidence            4789999877665555    4444544 488999999999999999999986521000                      


Q ss_pred             CCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHH
Q 010136          181 GLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVL  259 (517)
Q Consensus       181 ~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L  259 (517)
                      ....+.++++++.....                        .+.++.+.... .........|+||||+|.|....++.|
T Consensus        92 ~g~~~n~~~~d~~s~~~------------------------vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naL  147 (620)
T PRK14954         92 AGTSLNISEFDAASNNS------------------------VDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAF  147 (620)
T ss_pred             ccCCCCeEEecccccCC------------------------HHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHH
Confidence            00011222232221111                        23333333211 011223456999999999987666777


Q ss_pred             HHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          260 HDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       260 ~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      ...++.+   ...+++|++++.   ...+.+.+++| +  ..+.|.+++.+++...|...+... ...+++++++++++ 
T Consensus       148 LK~LEeP---p~~tv~IL~t~~---~~kLl~TI~SR-c--~~vef~~l~~~ei~~~L~~i~~~e-gi~I~~eal~~La~-  216 (620)
T PRK14954        148 LKTLEEP---PPHAIFIFATTE---LHKIPATIASR-C--QRFNFKRIPLDEIQSQLQMICRAE-GIQIDADALQLIAR-  216 (620)
T ss_pred             HHHHhCC---CCCeEEEEEeCC---hhhhhHHHHhh-c--eEEecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH-
Confidence            7766553   346677777764   46778889998 6  799999999999999999877632 23689999999987 


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHH
Q 010136          340 VAAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a  361 (517)
                        ...||+|.|++.++....++
T Consensus       217 --~s~Gdlr~al~eLeKL~~y~  236 (620)
T PRK14954        217 --KAQGSMRDAQSILDQVIAFS  236 (620)
T ss_pred             --HhCCCHHHHHHHHHHHHHhc
Confidence              47899999999998877665

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.68  E-value=1.1e-15  Score=149.97  Aligned_cols=203  Identities=16%  Similarity=0.151  Sum_probs=133.1

Q ss_pred             CCCCcHHHHHHHHHHHHHh-----h-----c-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          125 TIVCREDEQKKVLEFCKKN-----L-----E-EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~-----l-----~-~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +++|.++..++|.++....     .     . ...+.+++|+||||||||++|+.+++.+.....   ...-.++++++.
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~---~~~~~~v~v~~~   99 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGY---VRKGHLVSVTRD   99 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCC---cccceEEEecHH
Confidence            4688888777776653221     1     1 112348999999999999999999998865311   111257888863


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc------C---chHHHHHhc
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR------D---RAVLHDLFM  264 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~------~---~~~L~~l~~  264 (517)
                      .+          ...+.       +.. ...+...|.+      ....||||||++.|...      .   ++.|..+++
T Consensus       100 ~l----------~~~~~-------g~~-~~~~~~~~~~------a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le  155 (284)
T TIGR02880       100 DL----------VGQYI-------GHT-APKTKEILKR------AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVME  155 (284)
T ss_pred             HH----------hHhhc-------ccc-hHHHHHHHHH------ccCcEEEEechhhhccCCCccchHHHHHHHHHHHHh
Confidence            32          11221       111 2345556652      12369999999998422      1   234444443


Q ss_pred             cCCCCCCcEEEEEEECC--CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH-
Q 010136          265 LTTFPFSRFILIGIANA--IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA-  341 (517)
Q Consensus       265 ~~~~~~~~v~lI~ian~--~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~-  341 (517)
                         .....+++|++++.  ++....++|.+.+| |. ..|.|++|+.+++..|+...+.... ..+++++++.++..+. 
T Consensus       156 ---~~~~~~~vI~a~~~~~~~~~~~~np~L~sR-~~-~~i~fp~l~~edl~~I~~~~l~~~~-~~l~~~a~~~L~~~l~~  229 (284)
T TIGR02880       156 ---NQRDDLVVILAGYKDRMDSFFESNPGFSSR-VA-HHVDFPDYSEAELLVIAGLMLKEQQ-YRFSAEAEEAFADYIAL  229 (284)
T ss_pred             ---cCCCCEEEEEeCCcHHHHHHHhhCHHHHhh-CC-cEEEeCCcCHHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHH
Confidence               23457778876543  22223357899998 63 5899999999999999998887543 3678888888777544 


Q ss_pred             ----HHhCCHHHHHHHHHHHHHH
Q 010136          342 ----AASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       342 ----~~~Gd~R~al~ll~~A~~~  360 (517)
                          ...|++|.+.++++.|+..
T Consensus       230 ~~~~~~~GN~R~lrn~ve~~~~~  252 (284)
T TIGR02880       230 RRTQPHFANARSIRNAIDRARLR  252 (284)
T ss_pred             hCCCCCCChHHHHHHHHHHHHHH
Confidence                3568999999999888643

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.68  E-value=1e-14  Score=146.35  Aligned_cols=194  Identities=18%  Similarity=0.229  Sum_probs=133.1

Q ss_pred             hcCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          116 ALHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       116 ~l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .|.+.|.|   ++++|++...+.+..++..   +..+..++++||||+|||++++++++++.          ..++++|+
T Consensus        10 ~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~---~~~~~~lll~G~~G~GKT~la~~l~~~~~----------~~~~~i~~   76 (316)
T PHA02544         10 MWEQKYRPSTIDECILPAADKETFKSIVKK---GRIPNMLLHSPSPGTGKTTVAKALCNEVG----------AEVLFVNG   76 (316)
T ss_pred             cceeccCCCcHHHhcCcHHHHHHHHHHHhc---CCCCeEEEeeCcCCCCHHHHHHHHHHHhC----------ccceEecc
Confidence            46677888   5899999988888888663   22344555599999999999999988763          25788898


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchh-cccCchHHHHHhccCCCCCC
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYL-ITRDRAVLHDLFMLTTFPFS  271 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L-~~~~~~~L~~l~~~~~~~~~  271 (517)
                      .. .....+ ..                   .+..+...  ......+.||||||+|.+ ....+..|..+++..   ..
T Consensus        77 ~~-~~~~~i-~~-------------------~l~~~~~~--~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~---~~  130 (316)
T PHA02544         77 SD-CRIDFV-RN-------------------RLTRFAST--VSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAY---SK  130 (316)
T ss_pred             Cc-ccHHHH-HH-------------------HHHHHHHh--hcccCCCeEEEEECcccccCHHHHHHHHHHHHhc---CC
Confidence            77 222211 11                   11111110  001124579999999999 334566777777653   24


Q ss_pred             cEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHHHhC
Q 010136          272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL------SYIVFQPQALELCARKVAAASG  345 (517)
Q Consensus       272 ~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~~~G  345 (517)
                      .+.+|+++|.   ...+.+.+++| |  ..+.|++++.++..+++...+...      ....++++++..+++   ...|
T Consensus       131 ~~~~Ilt~n~---~~~l~~~l~sR-~--~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~---~~~~  201 (316)
T PHA02544        131 NCSFIITANN---KNGIIEPLRSR-C--RVIDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVK---KNFP  201 (316)
T ss_pred             CceEEEEcCC---hhhchHHHHhh-c--eEEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH---hcCC
Confidence            5567777884   45678999998 7  589999999999887766543211      234678889888876   5789


Q ss_pred             CHHHHHHHHHHH
Q 010136          346 DMRKALSVCRSA  357 (517)
Q Consensus       346 d~R~al~ll~~A  357 (517)
                      |.|.+++.++..
T Consensus       202 d~r~~l~~l~~~  213 (316)
T PHA02544        202 DFRRTINELQRY  213 (316)
T ss_pred             CHHHHHHHHHHH
Confidence            999999888754

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

Probab=99.68  E-value=4.1e-16  Score=160.82  Aligned_cols=210  Identities=21%  Similarity=0.232  Sum_probs=140.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCC-CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKA-GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~-~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ++++|.+.....|...    +..++. ...+++||.|||||+++|.+++.|.+.....+.+        |..+.....+-
T Consensus        16 ~evvGQe~v~~~L~na----l~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~eP--------C~~C~~Ck~I~   83 (515)
T COG2812          16 DDVVGQEHVVKTLSNA----LENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEP--------CGKCISCKEIN   83 (515)
T ss_pred             HHhcccHHHHHHHHHH----HHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCc--------chhhhhhHhhh
Confidence            4789999855555554    444454 4566899999999999999999987642111111        11110000000


Q ss_pred             HH-HHHHhCCCCCCCCCCCHHHHHHHHHHh-hhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEEC
Q 010136          203 SK-ILLKLQPRKKLNGSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIAN  280 (517)
Q Consensus       203 ~~-i~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian  280 (517)
                      .. ..+-+.-......|   .+.++++.++ .+.....+..|.+|||+|.|.....++|...++.   +..+|.+|.+|+
T Consensus        84 ~g~~~DviEiDaASn~g---VddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEE---PP~hV~FIlATT  157 (515)
T COG2812          84 EGSLIDVIEIDAASNTG---VDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEE---PPSHVKFILATT  157 (515)
T ss_pred             cCCcccchhhhhhhccC---hHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhccccc---CccCeEEEEecC
Confidence            00 00000000000111   4445555543 2344567788999999999987666666555544   567899999888


Q ss_pred             CCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          281 AIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       281 ~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      .   +..+.+-+.|| |  +++.|..++.+++...|...+.+ +...++++++..+|+   ...|.+|.++.+++.|+..
T Consensus       158 e---~~Kip~TIlSR-c--q~f~fkri~~~~I~~~L~~i~~~-E~I~~e~~aL~~ia~---~a~Gs~RDalslLDq~i~~  227 (515)
T COG2812         158 E---PQKIPNTILSR-C--QRFDFKRLDLEEIAKHLAAILDK-EGINIEEDALSLIAR---AAEGSLRDALSLLDQAIAF  227 (515)
T ss_pred             C---cCcCchhhhhc-c--ccccccCCCHHHHHHHHHHHHHh-cCCccCHHHHHHHHH---HcCCChhhHHHHHHHHHHc
Confidence            5   66788889999 7  89999999999999999987763 234789999999998   6899999999999999865


Q ss_pred             H
Q 010136          361 L  361 (517)
Q Consensus       361 a  361 (517)
                      .
T Consensus       228 ~  228 (515)
T COG2812         228 G  228 (515)
T ss_pred             c
Confidence            3

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.68  E-value=2.4e-16  Score=178.28  Aligned_cols=215  Identities=12%  Similarity=0.109  Sum_probs=137.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH--H-------------HH------HHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS--E-------------IF------SKIL  206 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~--~-------------i~------~~i~  206 (517)
                      .+.+++++||||||||.+|+++|.+.+          ++++.|++..+...+  .             +.      ..+.
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es~----------VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~ 1698 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNSY----------VPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLD 1698 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhcC----------CceEEEEHHHHhhcccccccccccccccccccccccccccccc
Confidence            467999999999999999999998754          578999887754321  0             00      0000


Q ss_pred             HHh---CCCCCCCCCCC-HHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCch--HHHHH---hccC--CCCCCcEEE
Q 010136          207 LKL---QPRKKLNGSTS-PLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRA--VLHDL---FMLT--TFPFSRFIL  275 (517)
Q Consensus       207 ~~l---~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~--~L~~l---~~~~--~~~~~~v~l  275 (517)
                      .++   ........+.. ....++.+|+   .++...|+||+|||||.+......  .|..|   ++..  ......|+|
T Consensus      1699 ~e~~e~~n~~~~~m~~~e~~~rIr~lFe---lARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIV 1775 (2281)
T CHL00206       1699 TELLTMMNALTMDMMPKIDRFYITLQFE---LAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILV 1775 (2281)
T ss_pred             hhhhhhcchhhhhhhhhhhHHHHHHHHH---HHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEE
Confidence            000   00000000111 0123677787   345678999999999999865321  13333   3321  123457999


Q ss_pred             EEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHH--hhhccCCCChh--HHHHHHHHHHHHhCCHHHHH
Q 010136          276 IGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERL--MELSYIVFQPQ--ALELCARKVAAASGDMRKAL  351 (517)
Q Consensus       276 I~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl--~~~~~~~~~~~--ai~~ia~~~~~~~Gd~R~al  351 (517)
                      ||+||   .++.+||++.+.+...+.|.++.++..+..+++...+  .++   .++++  .++.+|+.+.+.+  .+..-
T Consensus      1776 IAATN---RPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~---~L~~~~vdl~~LA~~T~GfS--GADLa 1847 (2281)
T CHL00206       1776 IASTH---IPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGF---HLEKKMFHTNGFGSITMGSN--ARDLV 1847 (2281)
T ss_pred             EEeCC---CcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCC---CCCcccccHHHHHHhCCCCC--HHHHH
Confidence            99999   5888999999853346799999888888877776332  232   22222  2566777544443  34556


Q ss_pred             HHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          352 SVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       352 ~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      .+|.+|+.+|..+++.                            .|+.+++..|+.++..
T Consensus      1848 nLvNEAaliAirq~ks----------------------------~Id~~~I~~Al~Rq~~ 1879 (2281)
T CHL00206       1848 ALTNEALSISITQKKS----------------------------IIDTNTIRSALHRQTW 1879 (2281)
T ss_pred             HHHHHHHHHHHHcCCC----------------------------ccCHHHHHHHHHHHHh
Confidence            8999999999988765                            7888889888877643

>TIGR00763 lon ATP-dependent protease La

Probab=99.67  E-value=4.2e-15  Score=165.11  Aligned_cols=233  Identities=19%  Similarity=0.274  Sum_probs=153.1

Q ss_pred             hhhhhccCCCCCCC-ChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHH
Q 010136           92 LCDSFKSKPNWNPQ-DVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus        92 ~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~  168 (517)
                      +.+.+...|+.... +...+..+++.|+.+     ++|.++..+.|.+++......  ..+.+++|+||||||||++++.
T Consensus       292 yl~~~~~ip~~~~~~~~~~~~~~~~~l~~~-----~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~  366 (775)
T TIGR00763       292 YLDWLTDLPWGKYSKENLDLKRAKEILDED-----HYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKS  366 (775)
T ss_pred             HHHHHHCCCCcccccchhhHHHHHHHhhhh-----cCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHH
Confidence            45555555654332 333566777776665     689999999999987654322  2455799999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCc
Q 010136          169 VQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADEL  248 (517)
Q Consensus       169 v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEi  248 (517)
                      +++.+.          ..++.+++....+...+        .+....+.+..+ ..+.+.|...    .....|||||||
T Consensus       367 iA~~l~----------~~~~~i~~~~~~~~~~i--------~g~~~~~~g~~~-g~i~~~l~~~----~~~~~villDEi  423 (775)
T TIGR00763       367 IAKALN----------RKFVRFSLGGVRDEAEI--------RGHRRTYVGAMP-GRIIQGLKKA----KTKNPLFLLDEI  423 (775)
T ss_pred             HHHHhc----------CCeEEEeCCCcccHHHH--------cCCCCceeCCCC-chHHHHHHHh----CcCCCEEEEech
Confidence            999875          35788887665444332        222222223332 2233444421    222348899999


Q ss_pred             chhcccCc----hHHHHHhccCC------------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHH
Q 010136          249 DYLITRDR----AVLHDLFMLTT------------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQI  312 (517)
Q Consensus       249 D~L~~~~~----~~L~~l~~~~~------------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~  312 (517)
                      |.+....+    ++|..+++..+            ...+++++|+++|.   .+.+++.+.+| |  ..|.|++|+.++.
T Consensus       424 dk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~---~~~i~~~L~~R-~--~vi~~~~~~~~e~  497 (775)
T TIGR00763       424 DKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANS---IDTIPRPLLDR-M--EVIELSGYTEEEK  497 (775)
T ss_pred             hhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCC---chhCCHHHhCC-e--eEEecCCCCHHHH
Confidence            99986533    56777665310            12257899999995   56788999998 7  6899999999999


Q ss_pred             HHHHHHHHh-------hhc--cCCCChhHHHHHHHHHHHHhC--CHHHHH-HHHHHHH
Q 010136          313 IRILQERLM-------ELS--YIVFQPQALELCARKVAAASG--DMRKAL-SVCRSAI  358 (517)
Q Consensus       313 ~~IL~~rl~-------~~~--~~~~~~~ai~~ia~~~~~~~G--d~R~al-~ll~~A~  358 (517)
                      .+|+...+.       ++.  ...++++++..+++.+....|  ++++.+ .+|+.++
T Consensus       498 ~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r~i~~~~~~~~  555 (775)
T TIGR00763       498 LEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLERQIEKICRKAA  555 (775)
T ss_pred             HHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHHHHHHHHHHHH
Confidence            999987652       121  236889999999886655555  344443 3555543

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.67  E-value=3.7e-15  Score=152.52  Aligned_cols=204  Identities=20%  Similarity=0.288  Sum_probs=135.7

Q ss_pred             CcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhc--CCCCceEEEEeC
Q 010136          118 HVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEA--GLQQPEVFSINC  192 (517)
Q Consensus       118 ~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~--~~~~~~~v~vn~  192 (517)
                      ...|.|   ++++|++..++.+...+..   +..+.+++||||||+|||++++.+++.+.+.....  ....+.++.+++
T Consensus         8 ~~k~rP~~~~~iig~~~~~~~l~~~i~~---~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~   84 (367)
T PRK14970          8 ARKYRPQTFDDVVGQSHITNTLLNAIEN---NHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDA   84 (367)
T ss_pred             HHHHCCCcHHhcCCcHHHHHHHHHHHHc---CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEecc
Confidence            344544   4789999988777777654   23356899999999999999999998876421100  001134555554


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCC
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFS  271 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~  271 (517)
                      ....+...                        +..++.+. .........||+|||+|.+....++.|...++.   +..
T Consensus        85 ~~~~~~~~------------------------i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~---~~~  137 (367)
T PRK14970         85 ASNNSVDD------------------------IRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEE---PPA  137 (367)
T ss_pred             ccCCCHHH------------------------HHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhC---CCC
Confidence            43222222                        22222210 011123457999999999976555555544433   334


Q ss_pred             cEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHH
Q 010136          272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKAL  351 (517)
Q Consensus       272 ~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al  351 (517)
                      ..++|++++.   ...+.+.+.+| +  ..+.|.+++.+++..++...+... ...++++++++++.   ...||+|.++
T Consensus       138 ~~~~Il~~~~---~~kl~~~l~sr-~--~~v~~~~~~~~~l~~~l~~~~~~~-g~~i~~~al~~l~~---~~~gdlr~~~  207 (367)
T PRK14970        138 HAIFILATTE---KHKIIPTILSR-C--QIFDFKRITIKDIKEHLAGIAVKE-GIKFEDDALHIIAQ---KADGALRDAL  207 (367)
T ss_pred             ceEEEEEeCC---cccCCHHHHhc-c--eeEecCCccHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hCCCCHHHHH
Confidence            5566666663   56778889998 6  589999999999999999887643 23589999999987   4679999999


Q ss_pred             HHHHHHHHHH
Q 010136          352 SVCRSAIEIL  361 (517)
Q Consensus       352 ~ll~~A~~~a  361 (517)
                      +.+.....++
T Consensus       208 ~~lekl~~y~  217 (367)
T PRK14970        208 SIFDRVVTFC  217 (367)
T ss_pred             HHHHHHHHhc
Confidence            9998876543

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.67  E-value=5.2e-15  Score=153.80  Aligned_cols=185  Identities=14%  Similarity=0.171  Sum_probs=128.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+.++|+|++|+|||+|++++++++....     +...++|+++..      ++..+...+...         ...+..+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~-----~~~~v~yv~~~~------f~~~~~~~l~~~---------~~~~~~~  200 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNF-----SDLKVSYMSGDE------FARKAVDILQKT---------HKEIEQF  200 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhC-----CCCeEEEEEHHH------HHHHHHHHHHHh---------hhHHHHH
Confidence            45799999999999999999999876421     224688888743      445555554210         0122222


Q ss_pred             HHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCCCCCCcEEEEEEECC-CCcchhhcccccccCCCceEEEeC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTTFPFSRFILIGIANA-IDLADRFLPRLQSMNCKPLVVTFR  305 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~~~~~~v~lI~ian~-~~~~~~l~~~l~sr~~~~~~i~f~  305 (517)
                      ..     ......+|+|||++.+..+  .++.|+.+++.....+..+  |.+++. ......+++++.||.-..-.+.+.
T Consensus       201 ~~-----~~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~i--Iltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~  273 (450)
T PRK14087        201 KN-----EICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQL--FFSSDKSPELLNGFDNRLITRFNMGLSIAIQ  273 (450)
T ss_pred             HH-----HhccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcE--EEECCCCHHHHhhccHHHHHHHhCCceeccC
Confidence            22     1223468999999999754  3577888887754343333  333443 233445679999994345689999


Q ss_pred             CCCHHHHHHHHHHHHhhhcc-CCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Q 010136          306 AYSKDQIIRILQERLMELSY-IVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       306 p~~~~e~~~IL~~rl~~~~~-~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                      |++.+++.+||+.++..... ..++++++++|+.   ...||+|.++.+|.++...+..
T Consensus       274 ~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~---~~~gd~R~L~gaL~~l~~~a~~  329 (450)
T PRK14087        274 KLDNKTATAIIKKEIKNQNIKQEVTEEAINFISN---YYSDDVRKIKGSVSRLNFWSQQ  329 (450)
T ss_pred             CcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHH---ccCCCHHHHHHHHHHHHHHHhc
Confidence            99999999999999874321 2689999999988   5789999999999888755443

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

Probab=99.67  E-value=6.1e-16  Score=161.32  Aligned_cols=224  Identities=16%  Similarity=0.159  Sum_probs=160.1

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      ..+.++.|.++..+++.+.+.-...        ..-+.+++++||||||||+++++++.+..          ++|+++++
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~----------VPFf~iSG  216 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG----------VPFFSISG  216 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccC----------CCceeccc
Confidence            4567899999888777776544321        12377899999999999999999987643          57999999


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~  261 (517)
                      +.+...+.                 |. ....++.+|.+   +++..|+||||||+|.....+.           ..|.+
T Consensus       217 S~FVemfV-----------------Gv-GAsRVRdLF~q---Akk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQ  275 (596)
T COG0465         217 SDFVEMFV-----------------GV-GASRVRDLFEQ---AKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQ  275 (596)
T ss_pred             hhhhhhhc-----------------CC-CcHHHHHHHHH---hhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHH
Confidence            88633222                 11 25668888874   3466789999999999976531           24555


Q ss_pred             HhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCCh-hHHHHHHH
Q 010136          262 LFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQP-QALELCAR  338 (517)
Q Consensus       262 l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~-~ai~~ia~  338 (517)
                      |+-...  ..+..|++|++||.   ++-+|+.+.+.....+.|..+.++.....+||+-.+...   .+++ --+..+|+
T Consensus       276 lLvEmDGF~~~~gviviaaTNR---pdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~---~l~~~Vdl~~iAr  349 (596)
T COG0465         276 LLVEMDGFGGNEGVIVIAATNR---PDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNK---PLAEDVDLKKIAR  349 (596)
T ss_pred             HHhhhccCCCCCceEEEecCCC---cccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcC---CCCCcCCHHHHhh
Confidence            543321  24468999999995   555678877754446799999999999999999777643   2222 22445788


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      .+...+|.  ...+++.+|+-+|-+.+..                            .|++.|+.+|+.++..
T Consensus       350 ~tpGfsGA--dL~nl~NEAal~aar~n~~----------------------------~i~~~~i~ea~drv~~  392 (596)
T COG0465         350 GTPGFSGA--DLANLLNEAALLAARRNKK----------------------------EITMRDIEEAIDRVIA  392 (596)
T ss_pred             hCCCcccc--hHhhhHHHHHHHHHHhcCe----------------------------eEeccchHHHHHHHhc
Confidence            76666664  3347888888888887766                            7899999999888754

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.67  E-value=4.2e-15  Score=159.95  Aligned_cols=195  Identities=18%  Similarity=0.220  Sum_probs=129.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCC-CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhc-CC--------------CCceE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKA-GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEA-GL--------------QQPEV  187 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~-~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~-~~--------------~~~~~  187 (517)
                      ++++|.+..++.|..++..    +.. ..++|+||+|+|||++++.+++.+.+..... +.              ....+
T Consensus        16 ~eiiGq~~~~~~L~~~i~~----~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~   91 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAE----GRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDV   91 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHh----CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeE
Confidence            4799999977776666543    343 4568999999999999999999886422100 00              00122


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          188 FSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       188 v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                      +.+++....+                        .+.++.+.... .........||||||+|.|....++.|...++.+
T Consensus        92 ~~i~~~~~~~------------------------vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEep  147 (585)
T PRK14950         92 IEMDAASHTS------------------------VDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEP  147 (585)
T ss_pred             EEEeccccCC------------------------HHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcC
Confidence            3333321111                        22233222210 1112345679999999999766566666655543


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                         ...++||++++.   .+.+.+.++|| +  ..+.|.+++..++..++..++... ...+++++++++++   ...||
T Consensus       148 ---p~~tv~Il~t~~---~~kll~tI~SR-~--~~i~f~~l~~~el~~~L~~~a~~e-gl~i~~eal~~La~---~s~Gd  214 (585)
T PRK14950        148 ---PPHAIFILATTE---VHKVPATILSR-C--QRFDFHRHSVADMAAHLRKIAAAE-GINLEPGALEAIAR---AATGS  214 (585)
T ss_pred             ---CCCeEEEEEeCC---hhhhhHHHHhc-c--ceeeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCC
Confidence               345667766764   45577888898 6  689999999999999999877642 23688999999887   46799


Q ss_pred             HHHHHHHHHHHHH
Q 010136          347 MRKALSVCRSAIE  359 (517)
Q Consensus       347 ~R~al~ll~~A~~  359 (517)
                      +|.+++.++....
T Consensus       215 lr~al~~LekL~~  227 (585)
T PRK14950        215 MRDAENLLQQLAT  227 (585)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999987543

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

Probab=99.67  E-value=4.3e-15  Score=163.44  Aligned_cols=222  Identities=16%  Similarity=0.229  Sum_probs=155.9

Q ss_pred             hhhhhhhhccCCCCCCC-ChhHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhc--cCCCCeEEEEcCCCCcHHHH
Q 010136           89 KKKLCDSFKSKPNWNPQ-DVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLE--EEKAGSLYVCGCPGTGKSLS  165 (517)
Q Consensus        89 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~--~~~~~~lli~G~pGtGKT~l  165 (517)
                      .+.|.+++..-||.... +.-.+..+++.|+.++     +|.++..+.|.+++.....  ...+..++|+||||+|||++
T Consensus       291 ~~~yl~~~~~~pw~~~~~~~~~~~~~~~~l~~~~-----~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl  365 (784)
T PRK10787        291 VRGYIDWMVQVPWNARSKVKKDLRQAQEILDTDH-----YGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSL  365 (784)
T ss_pred             HHHHHHHHHhCCCCCCCcccccHHHHHHHhhhhc-----cCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHH
Confidence            44567788887875544 4457899999988875     8999999999998874332  23466899999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEE
Q 010136          166 MEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIA  245 (517)
Q Consensus       166 ~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~i  245 (517)
                      ++.++..++          ..++.+++....+...+        .+....+.+..+.. +...+..    ......||+|
T Consensus       366 ~~~ia~~l~----------~~~~~i~~~~~~d~~~i--------~g~~~~~~g~~~G~-~~~~l~~----~~~~~~vill  422 (784)
T PRK10787        366 GQSIAKATG----------RKYVRMALGGVRDEAEI--------RGHRRTYIGSMPGK-LIQKMAK----VGVKNPLFLL  422 (784)
T ss_pred             HHHHHHHhC----------CCEEEEEcCCCCCHHHh--------ccchhccCCCCCcH-HHHHHHh----cCCCCCEEEE
Confidence            999998765          35777887766555432        22222222333233 3333331    1223358999


Q ss_pred             eCcchhcccC----chHHHHHhccC------------CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCH
Q 010136          246 DELDYLITRD----RAVLHDLFMLT------------TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSK  309 (517)
Q Consensus       246 DEiD~L~~~~----~~~L~~l~~~~------------~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~  309 (517)
                      ||+|.+....    +.+|+.+++-.            ...-+++++|+++|..    .+.+++.+| +  ..|.|.+|+.
T Consensus       423 DEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~----~i~~aLl~R-~--~ii~~~~~t~  495 (784)
T PRK10787        423 DEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM----NIPAPLLDR-M--EVIRLSGYTE  495 (784)
T ss_pred             EChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC----CCCHHHhcc-e--eeeecCCCCH
Confidence            9999998654    36788877642            1233789999999864    378899998 7  6899999999


Q ss_pred             HHHHHHHHHHHh--h-----hc--cCCCChhHHHHHHHHHHHHhC
Q 010136          310 DQIIRILQERLM--E-----LS--YIVFQPQALELCARKVAAASG  345 (517)
Q Consensus       310 ~e~~~IL~~rl~--~-----~~--~~~~~~~ai~~ia~~~~~~~G  345 (517)
                      ++..+|++..+.  .     +.  ...+++++++.+++.+....|
T Consensus       496 eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~G  540 (784)
T PRK10787        496 DEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAG  540 (784)
T ss_pred             HHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccC
Confidence            999999988773  1     11  236789999999885554445

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.66  E-value=1.1e-15  Score=170.73  Aligned_cols=212  Identities=17%  Similarity=0.185  Sum_probs=146.2

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.++||+++++++.++|..    ...++++|+||||||||++++.++..+........+....++.+++..+..     
T Consensus       178 ~~~~igr~~ei~~~~~~L~r----~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~a-----  248 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGR----RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLA-----  248 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcc----cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhc-----
Confidence            35689999999999998765    356789999999999999999999987532111111224677776643211     


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc----hHHHHHhccCCCCCCcEEEEEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR----AVLHDLFMLTTFPFSRFILIGI  278 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~----~~L~~l~~~~~~~~~~v~lI~i  278 (517)
                              +.  .+.| ...+.+..++...   ...+++||||||+|.|.....    ..+.+++. +......+.+||+
T Consensus       249 --------g~--~~~g-e~e~rl~~i~~~~---~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLk-p~l~rg~l~~Iga  313 (821)
T CHL00095        249 --------GT--KYRG-EFEERLKRIFDEI---QENNNIILVIDEVHTLIGAGAAEGAIDAANILK-PALARGELQCIGA  313 (821)
T ss_pred             --------cC--CCcc-HHHHHHHHHHHHH---HhcCCeEEEEecHHHHhcCCCCCCcccHHHHhH-HHHhCCCcEEEEe
Confidence                    00  0112 2255677777632   134578999999999986431    11233332 2234568999998


Q ss_pred             ECCCCcch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh---hhccCCCChhHHHHHHHHHHHHhCC---HHHH
Q 010136          279 ANAIDLAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM---ELSYIVFQPQALELCARKVAAASGD---MRKA  350 (517)
Q Consensus       279 an~~~~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~---~~~~~~~~~~ai~~ia~~~~~~~Gd---~R~a  350 (517)
                      ||..++..  ..++.+.+| |  +.|.+.+++.++...|++....   ......++++++..++....++.+|   +++|
T Consensus       314 Tt~~ey~~~ie~D~aL~rR-f--~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdka  390 (821)
T CHL00095        314 TTLDEYRKHIEKDPALERR-F--QPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKA  390 (821)
T ss_pred             CCHHHHHHHHhcCHHHHhc-c--eEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHH
Confidence            88544322  246888888 7  6789999999999999886543   2233458999999999887778887   9999


Q ss_pred             HHHHHHHHHHH
Q 010136          351 LSVCRSAIEIL  361 (517)
Q Consensus       351 l~ll~~A~~~a  361 (517)
                      +++++.|+..+
T Consensus       391 idlld~a~a~~  401 (821)
T CHL00095        391 IDLLDEAGSRV  401 (821)
T ss_pred             HHHHHHHHHHH
Confidence            99999988654

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.66  E-value=2.3e-15  Score=143.42  Aligned_cols=186  Identities=16%  Similarity=0.169  Sum_probs=122.8

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLK  208 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~  208 (517)
                      .+..++.+..+    +......+++|+|++|||||++++.+++.+...    +   ..+++++|..+....         
T Consensus        22 ~~~~~~~l~~~----~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~----~---~~~~~i~~~~~~~~~---------   81 (226)
T TIGR03420        22 NAELLAALRQL----AAGKGDRFLYLWGESGSGKSHLLQAACAAAEER----G---KSAIYLPLAELAQAD---------   81 (226)
T ss_pred             cHHHHHHHHHH----HhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc----C---CcEEEEeHHHHHHhH---------
Confidence            33444444444    334567899999999999999999999887532    2   358899987653211         


Q ss_pred             hCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCCC-cc
Q 010136          209 LQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAID-LA  285 (517)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~~-~~  285 (517)
                                       ...+..     .....+|+|||+|.+....  ++.|+.+++.....+.  .+|.+++... ..
T Consensus        82 -----------------~~~~~~-----~~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~--~iIits~~~~~~~  137 (226)
T TIGR03420        82 -----------------PEVLEG-----LEQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGG--RLLIAGRAAPAQL  137 (226)
T ss_pred             -----------------HHHHhh-----cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCC--eEEEECCCChHHC
Confidence                             111110     1122489999999997654  6777777764322222  2333344321 11


Q ss_pred             hhhcccccccCCC-ceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Q 010136          286 DRFLPRLQSMNCK-PLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       286 ~~l~~~l~sr~~~-~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                      ....+.+.+| +. ...+.++|++.+++..+++..+... ...+++++++.+++   ...|++|.+.++++.+...+..
T Consensus       138 ~~~~~~L~~r-~~~~~~i~l~~l~~~e~~~~l~~~~~~~-~~~~~~~~l~~L~~---~~~gn~r~L~~~l~~~~~~~~~  211 (226)
T TIGR03420       138 PLRLPDLRTR-LAWGLVFQLPPLSDEEKIAALQSRAARR-GLQLPDEVADYLLR---HGSRDMGSLMALLDALDRASLA  211 (226)
T ss_pred             CcccHHHHHH-HhcCeeEecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hccCCHHHHHHHHHHHHHHHHH
Confidence            1112567776 42 4689999999999999998776533 24689999999988   4899999999999887765444

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.

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

Probab=99.66  E-value=1.5e-15  Score=156.64  Aligned_cols=178  Identities=19%  Similarity=0.208  Sum_probs=128.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      ..++++|||||||||.+|.+++....          +.|+.|-++++.++|-                 |.+ ++.++.+
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~----------~~fisvKGPElL~KyI-----------------GaS-Eq~vR~l  752 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSN----------LRFISVKGPELLSKYI-----------------GAS-EQNVRDL  752 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCC----------eeEEEecCHHHHHHHh-----------------ccc-HHHHHHH
Confidence            56899999999999999999987754          5799999887655554                 555 8889999


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccC--------chHHHHHhccC-CC-CCCcEEEEEEECCCCcchhhcccccccCCC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRD--------RAVLHDLFMLT-TF-PFSRFILIGIANAIDLADRFLPRLQSMNCK  298 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~--------~~~L~~l~~~~-~~-~~~~v~lI~ian~~~~~~~l~~~l~sr~~~  298 (517)
                      |..   +...+|||+|+||+|.+..++        ..++.+|+... .. .-..|.++++|..   ++-++|++.+.+..
T Consensus       753 F~r---A~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsR---pdliDpALLRpGRl  826 (952)
T KOG0735|consen  753 FER---AQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSR---PDLIDPALLRPGRL  826 (952)
T ss_pred             HHH---hhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCC---ccccCHhhcCCCcc
Confidence            984   356789999999999999864        24555555331 11 1245777887774   55678888886445


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHH
Q 010136          299 PLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEM  365 (517)
Q Consensus       299 ~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~  365 (517)
                      .+.+.-+.++..+..+||+.....+  ..-++-.++.+|.++++.+| |+.   .+|..|-..|..+.
T Consensus       827 D~~v~C~~P~~~eRl~il~~ls~s~--~~~~~vdl~~~a~~T~g~tgADlq---~ll~~A~l~avh~~  889 (952)
T KOG0735|consen  827 DKLVYCPLPDEPERLEILQVLSNSL--LKDTDVDLECLAQKTDGFTGADLQ---SLLYNAQLAAVHEI  889 (952)
T ss_pred             ceeeeCCCCCcHHHHHHHHHHhhcc--CCccccchHHHhhhcCCCchhhHH---HHHHHHHHHHHHHH
Confidence            5678888999999999999665544  12234458889998888887 554   35556555544443

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

Probab=99.65  E-value=1.4e-15  Score=148.65  Aligned_cols=157  Identities=15%  Similarity=0.119  Sum_probs=112.7

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      ..+..++|+||||||||.++++++++++          +.++.+++.++.+.+.                 |.+ .+.++
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg----------~~~i~vsa~eL~sk~v-----------------GEs-Ek~IR  197 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMG----------IEPIVMSAGELESENA-----------------GEP-GKLIR  197 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcC----------CCeEEEEHHHhhcCcC-----------------CcH-HHHHH
Confidence            4577899999999999999999999875          4689999988755444                 444 88899


Q ss_pred             HHHHhhhc--cCCCceEEEEEeCcchhcccCc--------h----HHHHHhc----------c-CCCCCCcEEEEEEECC
Q 010136          227 NLYSQKLH--SSVMKMMLIIADELDYLITRDR--------A----VLHDLFM----------L-TTFPFSRFILIGIANA  281 (517)
Q Consensus       227 ~~~~~~~~--~~~~~~~vI~iDEiD~L~~~~~--------~----~L~~l~~----------~-~~~~~~~v~lI~ian~  281 (517)
                      ++|.....  ....+|+||||||||.++.+..        .    .|.++++          | .......+.||+++|+
T Consensus       198 ~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNr  277 (413)
T PLN00020        198 QRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGND  277 (413)
T ss_pred             HHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCC
Confidence            99975321  1356899999999999986521        1    2333333          2 1224567999999995


Q ss_pred             CCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHH
Q 010136          282 IDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKV  340 (517)
Q Consensus       282 ~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~  340 (517)
                         ++.|++.+.+. +|.  .+ |..++.+++.+||+..+...   .++...+..++...
T Consensus       278 ---pd~LDpALlRpGRfD--k~-i~lPd~e~R~eIL~~~~r~~---~l~~~dv~~Lv~~f  328 (413)
T PLN00020        278 ---FSTLYAPLIRDGRME--KF-YWAPTREDRIGVVHGIFRDD---GVSREDVVKLVDTF  328 (413)
T ss_pred             ---cccCCHhHcCCCCCC--ce-eCCCCHHHHHHHHHHHhccC---CCCHHHHHHHHHcC
Confidence               67788999883 152  32 45789999999999877653   45666666666643

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=1.6e-14  Score=155.12  Aligned_cols=216  Identities=20%  Similarity=0.229  Sum_probs=139.8

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |+..|.|   +.++|++...+.|..++..   +.-...++|+||+|+|||++|+.+++.+.+.....      ...-.|.
T Consensus         6 l~~kyRP~~f~~liGq~~i~~~L~~~l~~---~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~------~~~~~Cg   76 (620)
T PRK14948          6 LHHKYRPQRFDELVGQEAIATTLKNALIS---NRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDK------PTPEPCG   76 (620)
T ss_pred             HHHHhCCCcHhhccChHHHHHHHHHHHHc---CCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCC------CCCCCCc
Confidence            4455555   5789999877777666554   22356899999999999999999999987531100      0001122


Q ss_pred             CCCCHHHHHHHHHHHhCCCC--CCCCCCCHHHHHHHHHHhhh-ccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRK--KLNGSTSPLQYLQNLYSQKL-HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF  270 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~--~~~~~~~~~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~  270 (517)
                      .    ...+..+........  .........+.+++++.... ........||||||+|.|....++.|...++.   +.
T Consensus        77 ~----C~~C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEe---Pp  149 (620)
T PRK14948         77 K----CELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEE---PP  149 (620)
T ss_pred             c----cHHHHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhc---CC
Confidence            1    112222221111100  00001111445555554211 11124567999999999977666677666654   44


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKA  350 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~a  350 (517)
                      ..+++|+++++   +.++.+.++|| |  ..+.|.+++.+++...|...+... ...++++++.++++   ...||+|.|
T Consensus       150 ~~tvfIL~t~~---~~~llpTIrSR-c--~~~~f~~l~~~ei~~~L~~ia~ke-gi~is~~al~~La~---~s~G~lr~A  219 (620)
T PRK14948        150 PRVVFVLATTD---PQRVLPTIISR-C--QRFDFRRIPLEAMVQHLSEIAEKE-SIEIEPEALTLVAQ---RSQGGLRDA  219 (620)
T ss_pred             cCeEEEEEeCC---hhhhhHHHHhh-e--eEEEecCCCHHHHHHHHHHHHHHh-CCCCCHHHHHHHHH---HcCCCHHHH
Confidence            57888888874   56788899999 7  789999999999999888776542 23688899998887   478999999


Q ss_pred             HHHHHHHH
Q 010136          351 LSVCRSAI  358 (517)
Q Consensus       351 l~ll~~A~  358 (517)
                      +++++...
T Consensus       220 ~~lLekls  227 (620)
T PRK14948        220 ESLLDQLS  227 (620)
T ss_pred             HHHHHHHH
Confidence            99987643

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.65  E-value=1.1e-14  Score=153.20  Aligned_cols=215  Identities=14%  Similarity=0.185  Sum_probs=138.2

Q ss_pred             hhcCcCCCCCCCC-CcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          115 EALHVSTAPSTIV-CREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       115 ~~l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      ..|...+..++++ |-..++  ....+......  ...+.+||||++|+|||+|+.++++++....     +...++|++
T Consensus       279 a~L~~~~TFDnFvvG~sN~~--A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~-----~g~~V~Yit  351 (617)
T PRK14086        279 ARLNPKYTFDTFVIGASNRF--AHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLY-----PGTRVRYVS  351 (617)
T ss_pred             CCCCCCCCHhhhcCCCccHH--HHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhC-----CCCeEEEee
Confidence            3466677777665 443332  11222222221  1234599999999999999999999876421     124688998


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCC
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFP  269 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~  269 (517)
                      +..+      ...+...+..        ...+.+.+.|.        ..-+|+||||+.+..+.  ++.|+.+++.....
T Consensus       352 aeef------~~el~~al~~--------~~~~~f~~~y~--------~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~  409 (617)
T PRK14086        352 SEEF------TNEFINSIRD--------GKGDSFRRRYR--------EMDILLVDDIQFLEDKESTQEEFFHTFNTLHNA  409 (617)
T ss_pred             HHHH------HHHHHHHHHh--------ccHHHHHHHhh--------cCCEEEEehhccccCCHHHHHHHHHHHHHHHhc
Confidence            7553      2233333311        01233444333        34689999999997653  56777888764433


Q ss_pred             CCcEEEEEEECCC-CcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          270 FSRFILIGIANAI-DLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       270 ~~~v~lI~ian~~-~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                      +..++|  ++|.. .-...++++|.||+...-.+.+.+++.+.+.+||+.++... ...++++++++|++   ...+|+|
T Consensus       410 gk~III--TSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r-~l~l~~eVi~yLa~---r~~rnvR  483 (617)
T PRK14086        410 NKQIVL--SSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQE-QLNAPPEVLEFIAS---RISRNIR  483 (617)
T ss_pred             CCCEEE--ecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHHH---hccCCHH
Confidence            334333  35532 22234678999995455689999999999999999887642 34789999999998   4678888


Q ss_pred             HHHHHHHHHHHHHHHH
Q 010136          349 KALSVCRSAIEILEAE  364 (517)
Q Consensus       349 ~al~ll~~A~~~a~~~  364 (517)
                      ....++.+....+...
T Consensus       484 ~LegaL~rL~a~a~~~  499 (617)
T PRK14086        484 ELEGALIRVTAFASLN  499 (617)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            8887777665555443

>PRK05642 DNA replication initiation factor; Validated

Probab=99.64  E-value=7.2e-15  Score=140.24  Aligned_cols=168  Identities=18%  Similarity=0.196  Sum_probs=116.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+.++|+|++|+|||++++++++++...    +   ..++|+++..+...                       ...+.+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~----~---~~v~y~~~~~~~~~-----------------------~~~~~~~   94 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQR----G---EPAVYLPLAELLDR-----------------------GPELLDN   94 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhC----C---CcEEEeeHHHHHhh-----------------------hHHHHHh
Confidence            4689999999999999999999887532    2   35788887543210                       0112222


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRA  306 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p  306 (517)
                      +.        ..-+|+||+++.+....  ++.|+.+++..... .+.+|++.+..........+++.||.-....+.+.+
T Consensus        95 ~~--------~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~-g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~  165 (234)
T PRK05642         95 LE--------QYELVCLDDLDVIAGKADWEEALFHLFNRLRDS-GRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRG  165 (234)
T ss_pred             hh--------hCCEEEEechhhhcCChHHHHHHHHHHHHHHhc-CCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCC
Confidence            22        12478999999886543  46688888764322 345555533333333334799999943445788999


Q ss_pred             CCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 010136          307 YSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       307 ~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                      ++.+++..|++.+.... ...+++++++++++   ...||+|.++.++.....
T Consensus       166 ~~~e~~~~il~~ka~~~-~~~l~~ev~~~L~~---~~~~d~r~l~~~l~~l~~  214 (234)
T PRK05642        166 LSDEDKLRALQLRASRR-GLHLTDEVGHFILT---RGTRSMSALFDLLERLDQ  214 (234)
T ss_pred             CCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hcCCCHHHHHHHHHHHHH
Confidence            99999999999776532 24689999999998   578999999888876643

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

Probab=99.63  E-value=2.6e-15  Score=163.86  Aligned_cols=239  Identities=13%  Similarity=0.145  Sum_probs=153.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-CHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-NTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-s~~~i~  202 (517)
                      +.++||++++.++.+.|..    ....+++|+||||||||++++.++..+...    +.   ++...+|..+. +...+ 
T Consensus       186 ~~liGR~~ei~~~i~iL~r----~~~~n~LLvGppGvGKT~lae~la~~i~~~----~v---P~~l~~~~~~~l~~~~l-  253 (758)
T PRK11034        186 DPLIGREKELERAIQVLCR----RRKNNPLLVGESGVGKTAIAEGLAWRIVQG----DV---PEVMADCTIYSLDIGSL-  253 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhc----cCCCCeEEECCCCCCHHHHHHHHHHHHHhc----CC---CchhcCCeEEeccHHHH-
Confidence            4699999999999988766    356789999999999999999999876431    11   12222222211 11111 


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----chHHHHHhccCCCCCCcEEEEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----RAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                            +.+.  ...| ...+.++.++...   ....+.||||||+|.|....     +..+.+++.- ......+.+||
T Consensus       254 ------laG~--~~~G-e~e~rl~~l~~~l---~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp-~L~~g~i~vIg  320 (758)
T PRK11034        254 ------LAGT--KYRG-DFEKRFKALLKQL---EQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKP-LLSSGKIRVIG  320 (758)
T ss_pred             ------hccc--chhh-hHHHHHHHHHHHH---HhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHH-HHhCCCeEEEe
Confidence                  1000  0111 1245556665421   12356799999999996432     2223333321 12356899999


Q ss_pred             EECCCCcc--hhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh---hhccCCCChhHHHHHHHHHHHHhCC---HHH
Q 010136          278 IANAIDLA--DRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM---ELSYIVFQPQALELCARKVAAASGD---MRK  349 (517)
Q Consensus       278 ian~~~~~--~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~---~~~~~~~~~~ai~~ia~~~~~~~Gd---~R~  349 (517)
                      +||..++.  ...++++.+| |  +.|.+++++.++...||+....   ......++++++..++.....+-.+   +.+
T Consensus       321 ATt~~E~~~~~~~D~AL~rR-F--q~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdK  397 (758)
T PRK11034        321 STTYQEFSNIFEKDRALARR-F--QKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDK  397 (758)
T ss_pred             cCChHHHHHHhhccHHHHhh-C--cEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHH
Confidence            88854432  1358999988 7  6899999999999999997554   3345678999998887765554433   679


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          350 ALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       350 al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                      |+++|+.|+..+......  .                      ....|+.+||.+++....+-|.
T Consensus       398 aidlldea~a~~~~~~~~--~----------------------~~~~v~~~~i~~v~~~~tgip~  438 (758)
T PRK11034        398 AIDVIDEAGARARLMPVS--K----------------------RKKTVNVADIESVVARIARIPE  438 (758)
T ss_pred             HHHHHHHHHHhhccCccc--c----------------------cccccChhhHHHHHHHHhCCCh
Confidence            999999998543211000  0                      0015888889888888776653

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=2.8e-14  Score=153.18  Aligned_cols=197  Identities=20%  Similarity=0.255  Sum_probs=137.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHh---------------cCCCCceE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKE---------------AGLQQPEV  187 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~---------------~~~~~~~~  187 (517)
                      ++++|++...+.|..++..    +...+ ++|+||+|+|||++++.+++.+.+....               .....+.+
T Consensus        17 ~~viGq~~~~~~L~~~i~~----~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~   92 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIAT----NKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI   92 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHc----CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce
Confidence            5799999987777666553    44444 7899999999999999999988632100               00012345


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          188 FSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       188 v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                      +++++....+..                        .++.++.+. .........|+||||+|.|....++.|...++.+
T Consensus        93 ~~ld~~~~~~vd------------------------~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEep  148 (614)
T PRK14971         93 HELDAASNNSVD------------------------DIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEP  148 (614)
T ss_pred             EEecccccCCHH------------------------HHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCC
Confidence            555554332222                        222222210 0112234579999999999776677777777653


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                         ....++|++++.   ...+.+.++|| |  ..+.|.+++.+++...|...+... ...++++++++++.   ...||
T Consensus       149 ---p~~tifIL~tt~---~~kIl~tI~SR-c--~iv~f~~ls~~ei~~~L~~ia~~e-gi~i~~~al~~La~---~s~gd  215 (614)
T PRK14971        149 ---PSYAIFILATTE---KHKILPTILSR-C--QIFDFNRIQVADIVNHLQYVASKE-GITAEPEALNVIAQ---KADGG  215 (614)
T ss_pred             ---CCCeEEEEEeCC---chhchHHHHhh-h--heeecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCC
Confidence               346677777763   46788999999 7  689999999999999999877643 23678899999987   46899


Q ss_pred             HHHHHHHHHHHHHHH
Q 010136          347 MRKALSVCRSAIEIL  361 (517)
Q Consensus       347 ~R~al~ll~~A~~~a  361 (517)
                      +|.|++.+.....++
T Consensus       216 lr~al~~Lekl~~y~  230 (614)
T PRK14971        216 MRDALSIFDQVVSFT  230 (614)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999998876554

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.63  E-value=1.8e-14  Score=149.19  Aligned_cols=205  Identities=14%  Similarity=0.205  Sum_probs=133.4

Q ss_pred             cCcCCCCCCCC-CcHHHHHHHHHHHHHhhc------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE
Q 010136          117 LHVSTAPSTIV-CREDEQKKVLEFCKKNLE------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS  189 (517)
Q Consensus       117 l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~  189 (517)
                      |++++..++++ |...+..  ...+.....      +...+.++|||++|+|||++++++++++...    +   ..++|
T Consensus       104 l~~~~tFdnFv~g~~N~~a--~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~----~---~~v~y  174 (445)
T PRK12422        104 LDPLMTFANFLVTPENDLP--HRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRES----G---GKILY  174 (445)
T ss_pred             CCccccccceeeCCcHHHH--HHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHc----C---CCEEE
Confidence            55667777655 5544432  222222221      1123579999999999999999999988642    2   46788


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCC
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTT  267 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~  267 (517)
                      +++..      +...+...+..        ...+.+...+        ....+|+|||++.+..+  .++.|+.+++...
T Consensus       175 i~~~~------f~~~~~~~l~~--------~~~~~f~~~~--------~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~  232 (445)
T PRK12422        175 VRSEL------FTEHLVSAIRS--------GEMQRFRQFY--------RNVDALFIEDIEVFSGKGATQEEFFHTFNSLH  232 (445)
T ss_pred             eeHHH------HHHHHHHHHhc--------chHHHHHHHc--------ccCCEEEEcchhhhcCChhhHHHHHHHHHHHH
Confidence            88643      33334444421        0122333333        23469999999998754  3566777766432


Q ss_pred             CCCCcEEEEEEECC-CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          268 FPFSRFILIGIANA-IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       268 ~~~~~v~lI~ian~-~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      ..+ +.++++ ++. ......+++++.||.-....+.+.|++.+++..||+.++... ...++++++++++.   ...+|
T Consensus       233 ~~~-k~IIlt-s~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~-~~~l~~evl~~la~---~~~~d  306 (445)
T PRK12422        233 TEG-KLIVIS-STCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEAL-SIRIEETALDFLIE---ALSSN  306 (445)
T ss_pred             HCC-CcEEEe-cCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hcCCC
Confidence            222 333443 443 333345789999993234699999999999999999888753 24789999999988   57899


Q ss_pred             HHHHHHHHHHHH
Q 010136          347 MRKALSVCRSAI  358 (517)
Q Consensus       347 ~R~al~ll~~A~  358 (517)
                      +|..+..+...+
T Consensus       307 ir~L~g~l~~l~  318 (445)
T PRK12422        307 VKSLLHALTLLA  318 (445)
T ss_pred             HHHHHHHHHHHH
Confidence            999888877664

>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=99.63  E-value=9.2e-15  Score=137.90  Aligned_cols=211  Identities=18%  Similarity=0.214  Sum_probs=130.9

Q ss_pred             cCcCCCCCCCC-CcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAPSTIV-CREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |++.|..++++ |-..+.  ...........  ...+.+||||++|+|||+|++++++++.....     ...++|+++.
T Consensus         1 ln~~~tFdnfv~g~~N~~--a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~-----~~~v~y~~~~   73 (219)
T PF00308_consen    1 LNPKYTFDNFVVGESNEL--AYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHP-----GKRVVYLSAE   73 (219)
T ss_dssp             S-TT-SCCCS--TTTTHH--HHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCT-----TS-EEEEEHH
T ss_pred             CCCCCccccCCcCCcHHH--HHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccc-----cccceeecHH
Confidence            45667777764 543332  22222222222  22457999999999999999999998875321     2468999874


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFS  271 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~  271 (517)
                      .      +...+...+..       .. ...+...+.        ..-+|+||++|.+..+.  |+.|+.+++.....+.
T Consensus        74 ~------f~~~~~~~~~~-------~~-~~~~~~~~~--------~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k  131 (219)
T PF00308_consen   74 E------FIREFADALRD-------GE-IEEFKDRLR--------SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGK  131 (219)
T ss_dssp             H------HHHHHHHHHHT-------TS-HHHHHHHHC--------TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTS
T ss_pred             H------HHHHHHHHHHc-------cc-chhhhhhhh--------cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCC
Confidence            4      44444444421       11 333444332        34699999999998754  6788888877543444


Q ss_pred             cEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHH
Q 010136          272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKAL  351 (517)
Q Consensus       272 ~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al  351 (517)
                      ++ |+.....+.-...+.+++.||..+.-.+.+.+++.+++..||+.++.... -.+++++++++++   ...+|+|...
T Consensus       132 ~l-i~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~-~~l~~~v~~~l~~---~~~~~~r~L~  206 (219)
T PF00308_consen  132 QL-ILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERG-IELPEEVIEYLAR---RFRRDVRELE  206 (219)
T ss_dssp             EE-EEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT---S-HHHHHHHHH---HTTSSHHHHH
T ss_pred             eE-EEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhC-CCCcHHHHHHHHH---hhcCCHHHHH
Confidence            43 33323433333446789999855567999999999999999999887432 3689999999988   4688999888


Q ss_pred             HHHHHHHHHH
Q 010136          352 SVCRSAIEIL  361 (517)
Q Consensus       352 ~ll~~A~~~a  361 (517)
                      .++.+....+
T Consensus       207 ~~l~~l~~~~  216 (219)
T PF00308_consen  207 GALNRLDAYA  216 (219)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            8887765443

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.63  E-value=1.2e-14  Score=138.64  Aligned_cols=185  Identities=16%  Similarity=0.122  Sum_probs=128.1

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      ....+++|+|++|||||++++++++++...    +   ..+++++|......          +                 
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai~~~~~~~----~---~~~~~i~~~~~~~~----------~-----------------   85 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQALVADASYG----G---RNARYLDAASPLLA----------F-----------------   85 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHhC----C---CcEEEEehHHhHHH----------H-----------------
Confidence            346789999999999999999999876431    2   35788888653110          0                 


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCC
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRA  306 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p  306 (517)
                      . +       .....+|+|||+|.+....+..|+.+++..... ...++|.+++.......+.+.+.||.-....+.++|
T Consensus        86 ~-~-------~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~-~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~p  156 (227)
T PRK08903         86 D-F-------DPEAELYAVDDVERLDDAQQIALFNLFNRVRAH-GQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKP  156 (227)
T ss_pred             h-h-------cccCCEEEEeChhhcCchHHHHHHHHHHHHHHc-CCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecC
Confidence            0 1       112358999999999777778888888653322 233344434432222235577777721236999999


Q ss_pred             CCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhh
Q 010136          307 YSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQA  386 (517)
Q Consensus       307 ~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  386 (517)
                      ++.++...++....... ...+++++++++++   ...||+|.+.++++.....|...++                    
T Consensus       157 l~~~~~~~~l~~~~~~~-~v~l~~~al~~L~~---~~~gn~~~l~~~l~~l~~~~~~~~~--------------------  212 (227)
T PRK08903        157 LSDADKIAALKAAAAER-GLQLADEVPDYLLT---HFRRDMPSLMALLDALDRYSLEQKR--------------------  212 (227)
T ss_pred             CCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hccCCHHHHHHHHHHHHHHHHHhCC--------------------
Confidence            99999888888655432 35789999999988   5899999999999886554444332                    


Q ss_pred             hhhhhccCccccHHHHHHHHH
Q 010136          387 ASAFEFFNSQVRVDHMAVALS  407 (517)
Q Consensus       387 ~~~~~~~~~~Vt~~~v~~a~~  407 (517)
                               .||...+.+++.
T Consensus       213 ---------~i~~~~~~~~l~  224 (227)
T PRK08903        213 ---------PVTLPLLREMLA  224 (227)
T ss_pred             ---------CCCHHHHHHHHh
Confidence                     699999998875

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.62  E-value=1e-14  Score=158.42  Aligned_cols=219  Identities=15%  Similarity=0.158  Sum_probs=144.5

Q ss_pred             CCCCcHHHHHHHHHHHHHh--------hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          125 TIVCREDEQKKVLEFCKKN--------LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~--------l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      ++.|.+...+++.+.+...        +....+.+++|+||||||||++++.++.++.          +.++.+++..+.
T Consensus       153 di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~----------~~f~~is~~~~~  222 (644)
T PRK10733        153 DVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK----------VPFFTISGSDFV  222 (644)
T ss_pred             HHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcC----------CCEEEEehHHhH
Confidence            4566666666665554321        1122356799999999999999999987764          468888887642


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHHHhcc
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHDLFML  265 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~l~~~  265 (517)
                      ..+.                 +.. ...++.+|..   .....|+||||||+|.+.....           ..+..++..
T Consensus       223 ~~~~-----------------g~~-~~~~~~~f~~---a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~  281 (644)
T PRK10733        223 EMFV-----------------GVG-ASRVRDMFEQ---AKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVE  281 (644)
T ss_pred             Hhhh-----------------ccc-HHHHHHHHHH---HHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHh
Confidence            2111                 111 3456666663   2345789999999999965321           245555433


Q ss_pred             C--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          266 T--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       266 ~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                      .  ......+++|++||   .++.+++++.+.....+.|.|+.++.+++.+||...+...+.  -.+..+..+|+.   .
T Consensus       282 mdg~~~~~~vivIaaTN---~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l--~~~~d~~~la~~---t  353 (644)
T PRK10733        282 MDGFEGNEGIIVIAATN---RPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPL--APDIDAAIIARG---T  353 (644)
T ss_pred             hhcccCCCCeeEEEecC---ChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCC--CCcCCHHHHHhh---C
Confidence            1  12345799999999   577888888863223469999999999999999988775421  112224556653   3


Q ss_pred             hC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          344 SG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       344 ~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      .| .....-++|+.|...|.+.+..                            .|++.|+..|+..+.
T Consensus       354 ~G~sgadl~~l~~eAa~~a~r~~~~----------------------------~i~~~d~~~a~~~v~  393 (644)
T PRK10733        354 PGFSGADLANLVNEAALFAARGNKR----------------------------VVSMVEFEKAKDKIM  393 (644)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCC----------------------------cccHHHHHHHHHHHh
Confidence            44 2344457899998888776554                            688888888887664

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.61  E-value=1.1e-14  Score=161.58  Aligned_cols=247  Identities=17%  Similarity=0.170  Sum_probs=152.7

Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEE
Q 010136          120 STAPSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI  190 (517)
Q Consensus       120 ~~~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~v  190 (517)
                      ....+++.|.+++++.+.+++...+..         ..+.+++|+||||||||++++++++++.          ..++++
T Consensus       174 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~----------~~~i~i  243 (733)
T TIGR01243       174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG----------AYFISI  243 (733)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhC----------CeEEEE
Confidence            344567999999999999887643221         3467899999999999999999988764          368888


Q ss_pred             eCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHH
Q 010136          191 NCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDL  262 (517)
Q Consensus       191 n~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l  262 (517)
                      ++..+.+.+.                 + ...+.+..+|...   ....+.||||||+|.+.....        ..+..|
T Consensus       244 ~~~~i~~~~~-----------------g-~~~~~l~~lf~~a---~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~L  302 (733)
T TIGR01243       244 NGPEIMSKYY-----------------G-ESEERLREIFKEA---EENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQL  302 (733)
T ss_pred             ecHHHhcccc-----------------c-HHHHHHHHHHHHH---HhcCCcEEEeehhhhhcccccCCcchHHHHHHHHH
Confidence            8865432211                 1 1245677777632   245678999999999975432        233333


Q ss_pred             hccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHH
Q 010136          263 FMLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKV  340 (517)
Q Consensus       263 ~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~  340 (517)
                      +.+.  ......++||+++|.   ++.+++.+.+.......+.|+.++.++..+||+.....+.  ..++..++.+++.+
T Consensus       303 l~~ld~l~~~~~vivI~atn~---~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~--l~~d~~l~~la~~t  377 (733)
T TIGR01243       303 LTLMDGLKGRGRVIVIGATNR---PDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP--LAEDVDLDKLAEVT  377 (733)
T ss_pred             HHHhhccccCCCEEEEeecCC---hhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCC--CccccCHHHHHHhC
Confidence            3332  123467899999994   5667888776312246899999999999999997665431  22344466777654


Q ss_pred             HHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          341 AAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      .++.|  .....+|+.|...+.+...........   ....+.      .......|+.+|+..|+..+..+.
T Consensus       378 ~G~~g--adl~~l~~~a~~~al~r~~~~~~~~~~---~~~i~~------~~~~~~~v~~~df~~Al~~v~ps~  439 (733)
T TIGR01243       378 HGFVG--ADLAALAKEAAMAALRRFIREGKINFE---AEEIPA------EVLKELKVTMKDFMEALKMVEPSA  439 (733)
T ss_pred             CCCCH--HHHHHHHHHHHHHHHHHHhhccccccc---cccccc------hhcccccccHHHHHHHHhhccccc
Confidence            33333  222346777776655443221000000   000000      000111588888888888776553

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.59  E-value=2.1e-14  Score=160.92  Aligned_cols=213  Identities=14%  Similarity=0.172  Sum_probs=143.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||++++.++...|..    ...++++|+||||||||++++.++..+........+....++.++...+.....   
T Consensus       173 ~~~igr~~ei~~~~~~l~r----~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~---  245 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSR----RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAK---  245 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhc----CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcch---
Confidence            4699999998888887654    356789999999999999999999887531100011123566665433210000   


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC----chHHHHHhccCCCCCCcEEEEEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD----RAVLHDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~----~~~L~~l~~~~~~~~~~v~lI~ia  279 (517)
                                  . .....+.+..+|....  ....+.||||||+|.|....    .....+++. +......+.+||+|
T Consensus       246 ------------~-~g~~e~~l~~~l~~~~--~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk-~~l~~g~i~~IgaT  309 (852)
T TIGR03346       246 ------------Y-RGEFEERLKAVLNEVT--KSEGQIILFIDELHTLVGAGKAEGAMDAGNMLK-PALARGELHCIGAT  309 (852)
T ss_pred             ------------h-hhhHHHHHHHHHHHHH--hcCCCeEEEeccHHHhhcCCCCcchhHHHHHhc-hhhhcCceEEEEeC
Confidence                        0 0112455666665321  23457999999999997421    112233442 23356789999988


Q ss_pred             CCCCcch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---ccCCCChhHHHHHHHHHHHHhCC---HHHHH
Q 010136          280 NAIDLAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---SYIVFQPQALELCARKVAAASGD---MRKAL  351 (517)
Q Consensus       280 n~~~~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---~~~~~~~~ai~~ia~~~~~~~Gd---~R~al  351 (517)
                      |..++..  .+++.+.+| |  +.|.++.++.++...||+.....+   ....+.++++..++.....+-.|   +.+|+
T Consensus       310 t~~e~r~~~~~d~al~rR-f--~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAi  386 (852)
T TIGR03346       310 TLDEYRKYIEKDAALERR-F--QPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAI  386 (852)
T ss_pred             cHHHHHHHhhcCHHHHhc-C--CEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHH
Confidence            8544322  358999998 7  578899999999999998654432   23457889999988877777777   89999


Q ss_pred             HHHHHHHHHHH
Q 010136          352 SVCRSAIEILE  362 (517)
Q Consensus       352 ~ll~~A~~~a~  362 (517)
                      ++++.|+..+.
T Consensus       387 dlld~a~a~~~  397 (852)
T TIGR03346       387 DLIDEAAARIR  397 (852)
T ss_pred             HHHHHHHHHHH
Confidence            99999886543

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=99.58  E-value=1.4e-13  Score=150.45  Aligned_cols=170  Identities=17%  Similarity=0.211  Sum_probs=126.6

Q ss_pred             eEEEEc--CCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          151 SLYVCG--CPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       151 ~lli~G--~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      +-++.|  |.+.||||+|+++++++...    ++. ..++++|+++..+...+ +.+...+                   
T Consensus       566 ~~~~~G~lPh~lGKTT~A~ala~~l~g~----~~~-~~~lElNASd~rgid~I-R~iIk~~-------------------  620 (846)
T PRK04132        566 HNFIGGNLPTVLHNTTAALALARELFGE----NWR-HNFLELNASDERGINVI-REKVKEF-------------------  620 (846)
T ss_pred             hhhhcCCCCCcccHHHHHHHHHHhhhcc----ccc-CeEEEEeCCCcccHHHH-HHHHHHH-------------------
Confidence            345678  99999999999999997431    111 36999999986555442 2222221                   


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                      ...... ...+..|+||||+|.|....|++|..+++.+   ..++.+|+++|.   +..+.+.++|| |  +.+.|.|++
T Consensus       621 a~~~~~-~~~~~KVvIIDEaD~Lt~~AQnALLk~lEep---~~~~~FILi~N~---~~kIi~tIrSR-C--~~i~F~~ls  690 (846)
T PRK04132        621 ARTKPI-GGASFKIIFLDEADALTQDAQQALRRTMEMF---SSNVRFILSCNY---SSKIIEPIQSR-C--AIFRFRPLR  690 (846)
T ss_pred             HhcCCc-CCCCCEEEEEECcccCCHHHHHHHHHHhhCC---CCCeEEEEEeCC---hhhCchHHhhh-c--eEEeCCCCC
Confidence            110000 1123579999999999988889999888764   357778888994   67788999999 7  799999999


Q ss_pred             HHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 010136          309 KDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       309 ~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                      .+++..+|...+... ...++++++..+++   .+.||+|.|+++++.+..
T Consensus       691 ~~~i~~~L~~I~~~E-gi~i~~e~L~~Ia~---~s~GDlR~AIn~Lq~~~~  737 (846)
T PRK04132        691 DEDIAKRLRYIAENE-GLELTEEGLQAILY---IAEGDMRRAINILQAAAA  737 (846)
T ss_pred             HHHHHHHHHHHHHhc-CCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHHH
Confidence            999999998766532 23578999999887   589999999999988763

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.58  E-value=1.1e-13  Score=149.20  Aligned_cols=244  Identities=17%  Similarity=0.168  Sum_probs=150.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-CHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-NTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-s~~~i~  202 (517)
                      +.++|++..+..+...+    ....+.+++|+||||||||++++.+.+...............++.++|..+. +...+.
T Consensus       154 ~~iiGqs~~~~~l~~~i----a~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~  229 (615)
T TIGR02903       154 SEIVGQERAIKALLAKV----ASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVT  229 (615)
T ss_pred             HhceeCcHHHHHHHHHH----hcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHh
Confidence            57899999888765554    2345678999999999999999999876543211100112368999997753 222221


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHh--------hhccCCCceEEEEEeCcchhcccCchHHHHHhccCC-------
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQ--------KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT-------  267 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~--------~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~-------  267 (517)
                      ..++..+        .........+.+..        ... ......+|||||++.|....|..|..+++...       
T Consensus       230 ~~llg~~--------~~~~~~~a~~~l~~~gl~~~~~g~v-~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~  300 (615)
T TIGR02903       230 NPLLGSV--------HDPIYQGARRDLAETGVPEPKTGLV-TDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSY  300 (615)
T ss_pred             HHhcCCc--------cHHHHHHHHHHHHHcCCCchhcCch-hhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecce
Confidence            1111100        00000001111110        000 01123489999999998877777776664311       


Q ss_pred             ------------------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCC
Q 010136          268 ------------------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQ  329 (517)
Q Consensus       268 ------------------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~  329 (517)
                                        .....+++|++++.  .++.+.+.+++| |  ..+.|+||+.+++..|+...+.... ..++
T Consensus       301 ~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~--~~~~l~~aLrSR-~--~~i~~~pls~edi~~Il~~~a~~~~-v~ls  374 (615)
T TIGR02903       301 YDPDDPNVPKYIKKLFEEGAPADFVLIGATTR--DPEEINPALRSR-C--AEVFFEPLTPEDIALIVLNAAEKIN-VHLA  374 (615)
T ss_pred             eccCCcccchhhhhhcccCccceEEEEEeccc--cccccCHHHHhc-e--eEEEeCCCCHHHHHHHHHHHHHHcC-CCCC
Confidence                              12235677765543  345678889998 7  5889999999999999998887542 3578


Q ss_pred             hhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHh
Q 010136          330 PQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       330 ~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~  409 (517)
                      +++++.+++    ++.+.|++++++..+..++..+.......      ...              ..|+.+|+.+++..-
T Consensus       375 ~eal~~L~~----ys~~gRraln~L~~~~~~~~~~~~~~~~~------~~~--------------~~I~~edv~~~l~~~  430 (615)
T TIGR02903       375 AGVEELIAR----YTIEGRKAVNILADVYGYALYRAAEAGKE------NDK--------------VTITQDDVYEVIQIS  430 (615)
T ss_pred             HHHHHHHHH----CCCcHHHHHHHHHHHHHHHHHHHHHhccC------CCC--------------eeECHHHHHHHhCCC
Confidence            999888876    45688999999988876653322110000      000              168999999988764


Q ss_pred             c
Q 010136          410 F  410 (517)
Q Consensus       410 ~  410 (517)
                      .
T Consensus       431 r  431 (615)
T TIGR02903       431 R  431 (615)
T ss_pred             c
Confidence            4

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.

>PRK06620 hypothetical protein; Validated

Probab=99.56  E-value=8.1e-14  Score=130.83  Aligned_cols=150  Identities=12%  Similarity=0.162  Sum_probs=101.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY  229 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~  229 (517)
                      +.++||||||+|||++++++++...            ..+++....                             ....+
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~------------~~~~~~~~~-----------------------------~~~~~   83 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN------------AYIIKDIFF-----------------------------NEEIL   83 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC------------CEEcchhhh-----------------------------chhHH
Confidence            6799999999999999998765431            122221000                             00111


Q ss_pred             HhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCH
Q 010136          230 SQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSK  309 (517)
Q Consensus       230 ~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~  309 (517)
                      .        ...+|+|||||.+   .+..|..+++.....+ +.+||+.+...... .+ ++++||....-.+.+.+++.
T Consensus        84 ~--------~~d~lliDdi~~~---~~~~lf~l~N~~~e~g-~~ilits~~~p~~l-~l-~~L~SRl~~gl~~~l~~pd~  149 (214)
T PRK06620         84 E--------KYNAFIIEDIENW---QEPALLHIFNIINEKQ-KYLLLTSSDKSRNF-TL-PDLSSRIKSVLSILLNSPDD  149 (214)
T ss_pred             h--------cCCEEEEeccccc---hHHHHHHHHHHHHhcC-CEEEEEcCCCcccc-ch-HHHHHHHhCCceEeeCCCCH
Confidence            1        1247899999965   2356667766544333 45555544433222 25 89999933345899999999


Q ss_pred             HHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          310 DQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       310 ~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      +++..+++..+... .-.+++++++++++   ...||+|.+++++....
T Consensus       150 ~~~~~~l~k~~~~~-~l~l~~ev~~~L~~---~~~~d~r~l~~~l~~l~  194 (214)
T PRK06620        150 ELIKILIFKHFSIS-SVTISRQIIDFLLV---NLPREYSKIIEILENIN  194 (214)
T ss_pred             HHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HccCCHHHHHHHHHHHH
Confidence            99999998776532 24789999999988   57999999999988754

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.55  E-value=6.2e-14  Score=140.85  Aligned_cols=208  Identities=17%  Similarity=0.209  Sum_probs=131.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +.++|+++..+.+...+.    .++ +..++|+||+|+|||++++.+++.+.+.......+  ......|...    ..+
T Consensus        23 ~~l~Gh~~a~~~L~~a~~----~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~--~~~~~~~~~c----~~c   92 (351)
T PRK09112         23 TRLFGHEEAEAFLAQAYR----EGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAP--ETLADPDPAS----PVW   92 (351)
T ss_pred             hhccCcHHHHHHHHHHHH----cCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCc--cccCCCCCCC----HHH
Confidence            368999997776666654    344 44599999999999999999999886521000000  1111122111    122


Q ss_pred             HHHHHHhCCC---------CC--CCCCCCHHHHHH---HHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC
Q 010136          203 SKILLKLQPR---------KK--LNGSTSPLQYLQ---NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF  268 (517)
Q Consensus       203 ~~i~~~l~~~---------~~--~~~~~~~~~~l~---~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~  268 (517)
                      ..+...-...         ..  .....-..+.++   +.|..  ....++..|+||||+|.|....++.|...++.+  
T Consensus        93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~--~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEp--  168 (351)
T PRK09112         93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQ--TSGDGNWRIVIIDPADDMNRNAANAILKTLEEP--  168 (351)
T ss_pred             HHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhh--ccccCCceEEEEEchhhcCHHHHHHHHHHHhcC--
Confidence            2222211100         00  000111133343   33331  223456789999999999877778888877664  


Q ss_pred             CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          269 PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                       ..+..+|.+++.   +.++.+.++|| |  ..+.|+|++.+++.++|......  .. ++++++..+++   .+.|++|
T Consensus       169 -p~~~~fiLit~~---~~~llptIrSR-c--~~i~l~pl~~~~~~~~L~~~~~~--~~-~~~~~~~~i~~---~s~G~pr  235 (351)
T PRK09112        169 -PARALFILISHS---SGRLLPTIRSR-C--QPISLKPLDDDELKKALSHLGSS--QG-SDGEITEALLQ---RSKGSVR  235 (351)
T ss_pred             -CCCceEEEEECC---hhhccHHHHhh-c--cEEEecCCCHHHHHHHHHHhhcc--cC-CCHHHHHHHHH---HcCCCHH
Confidence             345556666763   56778999999 7  69999999999999999974322  12 77888877766   5789999


Q ss_pred             HHHHHHHHHH
Q 010136          349 KALSVCRSAI  358 (517)
Q Consensus       349 ~al~ll~~A~  358 (517)
                      .|++++....
T Consensus       236 ~Al~ll~~~~  245 (351)
T PRK09112        236 KALLLLNYGG  245 (351)
T ss_pred             HHHHHHhcCc
Confidence            9999986543

>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=99.55  E-value=1.7e-14  Score=125.03  Aligned_cols=119  Identities=24%  Similarity=0.337  Sum_probs=86.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ  231 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~  231 (517)
                      ++|+||||||||++++.+++.+.          ++++++++..+.+.+                  .....+.+...|.+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~----------~~~~~i~~~~~~~~~------------------~~~~~~~i~~~~~~   52 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG----------FPFIEIDGSELISSY------------------AGDSEQKIRDFFKK   52 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT----------SEEEEEETTHHHTSS------------------TTHHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc----------ccccccccccccccc------------------cccccccccccccc
Confidence            68999999999999999999874          579999998764221                  12235566677764


Q ss_pred             hhccCCCceEEEEEeCcchhcccC-----------chHHHHHhccCCCCCCcEEEEEEECCCCcchhhccccc-ccCCCc
Q 010136          232 KLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQ-SMNCKP  299 (517)
Q Consensus       232 ~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~-sr~~~~  299 (517)
                      ...  ...+.||+|||+|.+....           ...|+..++.......++++|+++|.   .+.+++.+. +| | .
T Consensus        53 ~~~--~~~~~vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~---~~~i~~~l~~~r-f-~  125 (132)
T PF00004_consen   53 AKK--SAKPCVLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNS---PDKIDPALLRSR-F-D  125 (132)
T ss_dssp             HHH--TSTSEEEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESS---GGGSCHHHHSTT-S-E
T ss_pred             ccc--cccceeeeeccchhcccccccccccccccccceeeecccccccccccceeEEeeCC---hhhCCHhHHhCC-C-c
Confidence            221  1247999999999998876           34566666665555578999999995   677888888 76 5 3


Q ss_pred             eEEEeC
Q 010136          300 LVVTFR  305 (517)
Q Consensus       300 ~~i~f~  305 (517)
                      ..|.|+
T Consensus       126 ~~i~~~  131 (132)
T PF00004_consen  126 RRIEFP  131 (132)
T ss_dssp             EEEEE-
T ss_pred             EEEEcC
Confidence            466664

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 ....

>PRK09087 hypothetical protein; Validated

Probab=99.55  E-value=1.3e-13  Score=130.50  Aligned_cols=190  Identities=11%  Similarity=0.039  Sum_probs=127.2

Q ss_pred             HHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC
Q 010136          137 LEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN  216 (517)
Q Consensus       137 ~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~  216 (517)
                      ..++.... +...+.++|+|++|+|||++++.++...            .+.|++...+..                   
T Consensus        33 ~~~l~~~~-~~~~~~l~l~G~~GsGKThLl~~~~~~~------------~~~~i~~~~~~~-------------------   80 (226)
T PRK09087         33 VSLVDHWP-NWPSPVVVLAGPVGSGKTHLASIWREKS------------DALLIHPNEIGS-------------------   80 (226)
T ss_pred             HHHHHhcc-cCCCCeEEEECCCCCCHHHHHHHHHHhc------------CCEEecHHHcch-------------------
Confidence            33454433 2334569999999999999999887642            234555532210                   


Q ss_pred             CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccC
Q 010136          217 GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMN  296 (517)
Q Consensus       217 ~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~  296 (517)
                            +.+..+.       .   -+|+||++|.+. ..++.|+.+++.....+ +.+||++...........++++||.
T Consensus        81 ------~~~~~~~-------~---~~l~iDDi~~~~-~~~~~lf~l~n~~~~~g-~~ilits~~~p~~~~~~~~dL~SRl  142 (226)
T PRK09087         81 ------DAANAAA-------E---GPVLIEDIDAGG-FDETGLFHLINSVRQAG-TSLLMTSRLWPSSWNVKLPDLKSRL  142 (226)
T ss_pred             ------HHHHhhh-------c---CeEEEECCCCCC-CCHHHHHHHHHHHHhCC-CeEEEECCCChHHhccccccHHHHH
Confidence                  0011111       1   378899999874 45777888887654333 4445543332222222468899984


Q ss_pred             CCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 010136          297 CKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSAS  376 (517)
Q Consensus       297 ~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~  376 (517)
                      -....+.+.+++.+++..||+.++... .-.+++++++++++.   ..|++|.++.++......+...++          
T Consensus       143 ~~gl~~~l~~pd~e~~~~iL~~~~~~~-~~~l~~ev~~~La~~---~~r~~~~l~~~l~~L~~~~~~~~~----------  208 (226)
T PRK09087        143 KAATVVEIGEPDDALLSQVIFKLFADR-QLYVDPHVVYYLVSR---MERSLFAAQTIVDRLDRLALERKS----------  208 (226)
T ss_pred             hCCceeecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHH---hhhhHHHHHHHHHHHHHHHHHhCC----------
Confidence            455699999999999999999888743 347899999999984   669999988887665544444332          


Q ss_pred             ccccchhhhhhhhhhccCccccHHHHHHHHHHh
Q 010136          377 AEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       377 ~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~  409 (517)
                                         .||...+.++++.+
T Consensus       209 -------------------~it~~~~~~~l~~~  222 (226)
T PRK09087        209 -------------------RITRALAAEVLNEM  222 (226)
T ss_pred             -------------------CCCHHHHHHHHHhh
Confidence                               69999999998765

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.54  E-value=2e-13  Score=138.94  Aligned_cols=202  Identities=17%  Similarity=0.250  Sum_probs=125.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +++++|.+..++.|...+.....      ..-+..++|+||||+|||++++.+++.+......         .-.|....
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~---------~~~Cg~C~   74 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD---------EPGCGECR   74 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC---------CCCCCCCH
Confidence            45789999988888888765321      0135568999999999999999999987642100         00111111


Q ss_pred             CHHHHHHHHHHHhCCCC---CCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCc
Q 010136          197 NTSEIFSKILLKLQPRK---KLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSR  272 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~---~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~  272 (517)
                      +...+.    ..-....   .........+.++.++... .....++..|+||||+|.|....++.|..+++.+  + ..
T Consensus        75 ~C~~~~----~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep--~-~~  147 (394)
T PRK07940         75 ACRTVL----AGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEP--P-PR  147 (394)
T ss_pred             HHHHHh----cCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcC--C-CC
Confidence            111110    0000000   0000011134455555431 1122345679999999999877777787777654  2 33


Q ss_pred             EEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHH
Q 010136          273 FILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALS  352 (517)
Q Consensus       273 v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~  352 (517)
                      .++|.+|++   ++.+.|.++|| |  +.+.|++++.+++.++|....      .++++....+++   .+.|++..|+.
T Consensus       148 ~~fIL~a~~---~~~llpTIrSR-c--~~i~f~~~~~~~i~~~L~~~~------~~~~~~a~~la~---~s~G~~~~A~~  212 (394)
T PRK07940        148 TVWLLCAPS---PEDVLPTIRSR-C--RHVALRTPSVEAVAEVLVRRD------GVDPETARRAAR---ASQGHIGRARR  212 (394)
T ss_pred             CeEEEEECC---hHHChHHHHhh-C--eEEECCCCCHHHHHHHHHHhc------CCCHHHHHHHHH---HcCCCHHHHHH
Confidence            444444553   67788999999 7  799999999999998887432      245666666665   57899999987


Q ss_pred             HHH
Q 010136          353 VCR  355 (517)
Q Consensus       353 ll~  355 (517)
                      ++.
T Consensus       213 l~~  215 (394)
T PRK07940        213 LAT  215 (394)
T ss_pred             Hhc
Confidence            763

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

Probab=99.53  E-value=1.4e-14  Score=136.63  Aligned_cols=222  Identities=18%  Similarity=0.197  Sum_probs=151.7

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+.+-|--.++.++.+.+.-.+..         ..|..++||||||||||.++++|+..+.          +.++.+.+.
T Consensus       131 ~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg----------~nfl~v~ss  200 (388)
T KOG0651|consen  131 FENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMG----------VNFLKVVSS  200 (388)
T ss_pred             HHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcC----------CceEEeeHh
Confidence            356777777777777776443321         2366899999999999999999998875          468888887


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--------chH---HHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--------RAV---LHDL  262 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--------~~~---L~~l  262 (517)
                      .+.+.+.                 |.+ ...+++.|..   ++...+||||+||||....+.        +++   |-+|
T Consensus       201 ~lv~kyi-----------------GEs-aRlIRemf~y---A~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeL  259 (388)
T KOG0651|consen  201 ALVDKYI-----------------GES-ARLIRDMFRY---AREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMEL  259 (388)
T ss_pred             hhhhhhc-----------------ccH-HHHHHHHHHH---HhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHH
Confidence            7755554                 443 7788888873   346678999999999987652        233   4444


Q ss_pred             hcc-C-CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhc-cCCCChhHHHHHHHH
Q 010136          263 FML-T-TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS-YIVFQPQALELCARK  339 (517)
Q Consensus       263 ~~~-~-~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~-~~~~~~~ai~~ia~~  339 (517)
                      ++- . .....+|-+|+++|+   ++.|+|.|.+.+.-.+.+..+-++......|++-..+.+. .+.++++++-.+   
T Consensus       260 lnqmdgfd~l~rVk~ImatNr---pdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~---  333 (388)
T KOG0651|consen  260 LNQMDGFDTLHRVKTIMATNR---PDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKL---  333 (388)
T ss_pred             HHhhccchhcccccEEEecCC---ccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHH---
Confidence            432 1 123467889999996   6667888877533445667776676666666664444221 245666655444   


Q ss_pred             HHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          340 VAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       340 ~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      +....| |.   .+.|++|...|..+.+.                            .+-++++..++.++...
T Consensus       334 ~d~f~gad~---rn~~tEag~Fa~~~~~~----------------------------~vl~Ed~~k~vrk~~~~  376 (388)
T KOG0651|consen  334 VDGFNGADL---RNVCTEAGMFAIPEERD----------------------------EVLHEDFMKLVRKQADA  376 (388)
T ss_pred             HhccChHHH---hhhcccccccccchhhH----------------------------HHhHHHHHHHHHHHHHH
Confidence            334455 43   37999999888887777                            78888888888776543

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

Probab=99.53  E-value=4.4e-14  Score=141.52  Aligned_cols=241  Identities=19%  Similarity=0.200  Sum_probs=149.6

Q ss_pred             CCCCcHHHHHHHHHHHH--Hhh-----c---cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          125 TIVCREDEQKKVLEFCK--KNL-----E---EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~--~~l-----~---~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+-|.++|+..|...-.  +.+     .   -..-.++++|||||||||.+||.+..-|...         .---||++.
T Consensus       222 GIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNAr---------ePKIVNGPe  292 (744)
T KOG0741|consen  222 GIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAR---------EPKIVNGPE  292 (744)
T ss_pred             ccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCC---------CCcccCcHH
Confidence            47788888887765421  111     1   1234579999999999999999998887642         123477777


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh-----hhccCCCceEEEEEeCcchhcccC----------chHH
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ-----KLHSSVMKMMLIIADELDYLITRD----------RAVL  259 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~vI~iDEiD~L~~~~----------~~~L  259 (517)
                      ..++|.                 |.+ ++.++++|.+     ........-.||++||+|.++..+          ..++
T Consensus       293 IL~KYV-----------------GeS-E~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VV  354 (744)
T KOG0741|consen  293 ILNKYV-----------------GES-EENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVV  354 (744)
T ss_pred             HHHHhh-----------------ccc-HHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHH
Confidence            655554                 444 7888888875     233345667899999999998652          3566


Q ss_pred             HHHhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHH---HHhhhccCCCChhH-H
Q 010136          260 HDLFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE---RLMELSYIVFQPQA-L  333 (517)
Q Consensus       260 ~~l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~---rl~~~~~~~~~~~a-i  333 (517)
                      .+|+....  ..-.++.|||.||..|+   ++.+|.+.......+...-++..-..+||+-   |....  ..+++++ +
T Consensus       355 NQLLsKmDGVeqLNNILVIGMTNR~Dl---IDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~--~~l~~dVdl  429 (744)
T KOG0741|consen  355 NQLLSKMDGVEQLNNILVIGMTNRKDL---IDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMREN--NKLSADVDL  429 (744)
T ss_pred             HHHHHhcccHHhhhcEEEEeccCchhh---HHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhc--CCCCCCcCH
Confidence            66664421  12248999999997554   5666666532234566667777766665554   44322  3455444 7


Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          334 ELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       334 ~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      +.+|+.+-..+|-  ..--+.+.|...|..+.......   .  ....        ....+-+|+++||..|+.++.+.
T Consensus       430 ~elA~lTKNfSGA--EleglVksA~S~A~nR~vk~~~~---~--~~~~--------~~~e~lkV~r~DFl~aL~dVkPA  493 (744)
T KOG0741|consen  430 KELAALTKNFSGA--ELEGLVKSAQSFAMNRHVKAGGK---V--EVDP--------VAIENLKVTRGDFLNALEDVKPA  493 (744)
T ss_pred             HHHHHHhcCCchh--HHHHHHHHHHHHHHHhhhccCcc---e--ecCc--------hhhhheeecHHHHHHHHHhcCcc
Confidence            7788776666664  12246677777776654331100   0  0000        00111279999999999876653

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

Probab=99.53  E-value=1.8e-13  Score=131.49  Aligned_cols=210  Identities=14%  Similarity=0.146  Sum_probs=135.3

Q ss_pred             hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCH-H
Q 010136          144 LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSP-L  222 (517)
Q Consensus       144 l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~-~  222 (517)
                      -...+.++++|+|++|.|||++++.+.+....... .+...+.++++.+....+...+|..|+.+++........... .
T Consensus        56 P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d-~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~  134 (302)
T PF05621_consen   56 PKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSD-EDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLE  134 (302)
T ss_pred             CcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCC-CCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHH
Confidence            34456789999999999999999999876543222 222346799999999999999999999999887655433221 2


Q ss_pred             HHHHHHHHhhhccCCCceEEEEEeCcchhccc---CchHHHHHhcc-CCCCCCcEEEEEEECCCCcchhhcccccccCCC
Q 010136          223 QYLQNLYSQKLHSSVMKMMLIIADELDYLITR---DRAVLHDLFML-TTFPFSRFILIGIANAIDLADRFLPRLQSMNCK  298 (517)
Q Consensus       223 ~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~---~~~~L~~l~~~-~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~  298 (517)
                      .....+|.      .-+..+|+|||++++...   .|..+.+++.. .+.-...++.+|+....+. =.-++++.+| | 
T Consensus       135 ~~~~~llr------~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~a-l~~D~QLa~R-F-  205 (302)
T PF05621_consen  135 QQVLRLLR------RLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRA-LRTDPQLASR-F-  205 (302)
T ss_pred             HHHHHHHH------HcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHH-hccCHHHHhc-c-
Confidence            22334554      445679999999998654   34444444433 2223344555553221111 1237899999 8 


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHHh-hhc----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          299 PLVVTFRAYSKDQIIRILQERLM-ELS----YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       299 ~~~i~f~p~~~~e~~~IL~~rl~-~~~----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                       ..+.+++|..++=..-|...++ .++    ...-+++...++.   +.+.|.+.....++..|+..|...+.+
T Consensus       206 -~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~---~~s~G~iG~l~~ll~~aA~~AI~sG~E  275 (302)
T PF05621_consen  206 -EPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIH---ERSEGLIGELSRLLNAAAIAAIRSGEE  275 (302)
T ss_pred             -CCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH---HHcCCchHHHHHHHHHHHHHHHhcCCc
Confidence             5688899876544433334444 222    1222233333443   346677888888999999999998888

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

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.52  E-value=2.3e-13  Score=125.85  Aligned_cols=169  Identities=18%  Similarity=0.254  Sum_probs=109.6

Q ss_pred             HHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC--------------CceEEEEeCCCCCCHHHHHHH
Q 010136          140 CKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ--------------QPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       140 L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~--------------~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      |...+..+. +..++|+||+|+|||++++.+++.+.......+.+              ...+.++.....         
T Consensus         4 l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~---------   74 (188)
T TIGR00678         4 LKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQ---------   74 (188)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccC---------
Confidence            344444444 45799999999999999999999886421111110              001111111100         


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                                    ....+.++.++... .........||||||+|.|....++.|...++.+   .....+|.+++.  
T Consensus        75 --------------~~~~~~i~~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~---~~~~~~il~~~~--  135 (188)
T TIGR00678        75 --------------SIKVDQVRELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEP---PPNTLFILITPS--  135 (188)
T ss_pred             --------------cCCHHHHHHHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCC---CCCeEEEEEECC--
Confidence                          01123333333211 1112356679999999999876677777777653   345666666774  


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKA  350 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~a  350 (517)
                       ...+.+.+++| +  ..+.|.|++.+++.++|..+       .+++++++++++   .+.||+|+|
T Consensus       136 -~~~l~~~i~sr-~--~~~~~~~~~~~~~~~~l~~~-------gi~~~~~~~i~~---~~~g~~r~~  188 (188)
T TIGR00678       136 -PEKLLPTIRSR-C--QVLPFPPLSEEALLQWLIRQ-------GISEEAAELLLA---LAGGSPGAA  188 (188)
T ss_pred             -hHhChHHHHhh-c--EEeeCCCCCHHHHHHHHHHc-------CCCHHHHHHHHH---HcCCCcccC
Confidence             36788999998 6  69999999999999999876       267888888877   577898864

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.

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

Probab=99.52  E-value=1.7e-13  Score=141.46  Aligned_cols=200  Identities=21%  Similarity=0.245  Sum_probs=143.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +.+.|-..++..+...+.-.+.         -..+.++++|||||||||.++++|+++..          ..++++|+..
T Consensus       184 ~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~----------a~~~~i~~pe  253 (693)
T KOG0730|consen  184 DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYG----------AFLFLINGPE  253 (693)
T ss_pred             cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhC----------ceeEecccHH
Confidence            4567777777777776544332         23467899999999999999999998865          3688899876


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCc-eEEEEEeCcchhcccCc----------hHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMK-MMLIIADELDYLITRDR----------AVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~vI~iDEiD~L~~~~~----------~~L~~l~  263 (517)
                      +..          .+        .....+.|++.|.+.   ...+ |.+|||||+|.+++++.          ..|+.|+
T Consensus       254 li~----------k~--------~gEte~~LR~~f~~a---~k~~~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~  312 (693)
T KOG0730|consen  254 LIS----------KF--------PGETESNLRKAFAEA---LKFQVPSIIFIDELDALCPKREGADDVESRVVSQLLTLL  312 (693)
T ss_pred             HHH----------hc--------ccchHHHHHHHHHHH---hccCCCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHH
Confidence            422          22        122377788888743   2334 89999999999997421          3466777


Q ss_pred             ccCCCCCCcEEEEEEECCCCcchhhcccccc-cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          264 MLTTFPFSRFILIGIANAIDLADRFLPRLQS-MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       264 ~~~~~~~~~v~lI~ian~~~~~~~l~~~l~s-r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      ++.. +..++++|+++|.   ++.+++.+++ | | .+.+.+.-++.++..+|++.......  ..++..+..+|..+.+
T Consensus       313 dg~~-~~~~vivl~atnr---p~sld~alRRgR-f-d~ev~IgiP~~~~RldIl~~l~k~~~--~~~~~~l~~iA~~thG  384 (693)
T KOG0730|consen  313 DGLK-PDAKVIVLAATNR---PDSLDPALRRGR-F-DREVEIGIPGSDGRLDILRVLTKKMN--LLSDVDLEDIAVSTHG  384 (693)
T ss_pred             hhCc-CcCcEEEEEecCC---ccccChhhhcCC-C-cceeeecCCCchhHHHHHHHHHHhcC--CcchhhHHHHHHHccc
Confidence            7754 5689999999994   7778888886 4 4 67999999999999999997777652  2356778888876555


Q ss_pred             HhCCHHHHHHHHHHHHHHHHHH
Q 010136          343 ASGDMRKALSVCRSAIEILEAE  364 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a~~~  364 (517)
                      +.|.  ..-.+|+.|..-+.++
T Consensus       385 yvGa--DL~~l~~ea~~~~~r~  404 (693)
T KOG0730|consen  385 YVGA--DLAALCREASLQATRR  404 (693)
T ss_pred             hhHH--HHHHHHHHHHHHHhhh
Confidence            4441  2335777776655554

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.52  E-value=1.2e-12  Score=125.95  Aligned_cols=133  Identities=20%  Similarity=0.196  Sum_probs=95.8

Q ss_pred             ceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCC---------CcchhhcccccccCCCceEEEeCCCCH
Q 010136          239 KMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI---------DLADRFLPRLQSMNCKPLVVTFRAYSK  309 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~---------~~~~~l~~~l~sr~~~~~~i~f~p~~~  309 (517)
                      -|-||||||++.|.-..-..|...++.   .-++++++ +||.-         .-|.-+...+..| +  -.|.-.||+.
T Consensus       291 VpGVLFIDEvHmLDIE~FsFlnrAlEs---e~aPIii~-AtNRG~~kiRGTd~~sPhGIP~DlLDR-l--lII~t~py~~  363 (450)
T COG1224         291 VPGVLFIDEVHMLDIECFSFLNRALES---ELAPIIIL-ATNRGMTKIRGTDIESPHGIPLDLLDR-L--LIISTRPYSR  363 (450)
T ss_pred             ecceEEEechhhhhHHHHHHHHHHhhc---ccCcEEEE-EcCCceeeecccCCcCCCCCCHhhhhh-e--eEEecCCCCH
Confidence            367999999999954433444444433   33455544 47741         1222233445555 3  4788999999


Q ss_pred             HHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhh
Q 010136          310 DQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASA  389 (517)
Q Consensus       310 ~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  389 (517)
                      +++.+|++.|+... ...++++|+++++..  ...-.+|.|++++.-|..+|...+..                      
T Consensus       364 ~EireIi~iRa~ee-~i~l~~~Ale~L~~i--g~etSLRYa~qLL~pa~iiA~~rg~~----------------------  418 (450)
T COG1224         364 EEIREIIRIRAKEE-DIELSDDALEYLTDI--GEETSLRYAVQLLTPASIIAKRRGSK----------------------  418 (450)
T ss_pred             HHHHHHHHHhhhhh-ccccCHHHHHHHHhh--chhhhHHHHHHhccHHHHHHHHhCCC----------------------
Confidence            99999999998632 247899999999874  45568999999999999999988766                      


Q ss_pred             hhccCccccHHHHHHHHHHh
Q 010136          390 FEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       390 ~~~~~~~Vt~~~v~~a~~~~  409 (517)
                            .|..+||.+|..-.
T Consensus       419 ------~V~~~dVe~a~~lF  432 (450)
T COG1224         419 ------RVEVEDVERAKELF  432 (450)
T ss_pred             ------eeehhHHHHHHHHH
Confidence                  79999999987543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.52  E-value=2e-13  Score=152.46  Aligned_cols=209  Identities=14%  Similarity=0.184  Sum_probs=131.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||++++.++.+.|..    ...++++|+||||||||++++.++..+........+....+++++...+.....   
T Consensus       178 ~~vigr~~ei~~~i~iL~r----~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~---  250 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQR----RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAK---  250 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhc----CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccc---
Confidence            4699999998888887655    356789999999999999999999887531100011124566766654321110   


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC----chHHHHHhccCCCCCCcEEEEEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD----RAVLHDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~----~~~L~~l~~~~~~~~~~v~lI~ia  279 (517)
                                  . .....+.+..+|.+..  ....++||||||+|.|....    .....+++ .+......+.+||+|
T Consensus       251 ------------~-~g~~e~~lk~~~~~~~--~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~l-kp~l~~g~l~~IgaT  314 (857)
T PRK10865        251 ------------Y-RGEFEERLKGVLNDLA--KQEGNVILFIDELHTMVGAGKADGAMDAGNML-KPALARGELHCVGAT  314 (857)
T ss_pred             ------------h-hhhhHHHHHHHHHHHH--HcCCCeEEEEecHHHhccCCCCccchhHHHHh-cchhhcCCCeEEEcC
Confidence                        0 1112556666665321  23467899999999997542    11123333 234456799999988


Q ss_pred             CCCCcch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---ccCCCChhHHHHHHHHHHHHhCC---HHHHH
Q 010136          280 NAIDLAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---SYIVFQPQALELCARKVAAASGD---MRKAL  351 (517)
Q Consensus       280 n~~~~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---~~~~~~~~ai~~ia~~~~~~~Gd---~R~al  351 (517)
                      +..++..  .+++.+.+| |  +.|.+..++.++...||+......   ....++++++..++....++-.+   +.+|+
T Consensus       315 t~~e~r~~~~~d~al~rR-f--~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi  391 (857)
T PRK10865        315 TLDEYRQYIEKDAALERR-F--QKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAI  391 (857)
T ss_pred             CCHHHHHHhhhcHHHHhh-C--CEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHHH
Confidence            8544322  357899998 7  467888889999999997654322   12345666666554433333222   45666


Q ss_pred             HHHHHHH
Q 010136          352 SVCRSAI  358 (517)
Q Consensus       352 ~ll~~A~  358 (517)
                      ++++.++
T Consensus       392 ~LiD~aa  398 (857)
T PRK10865        392 DLIDEAA  398 (857)
T ss_pred             HHHHHHh
Confidence            6655543

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

Probab=99.50  E-value=2e-12  Score=130.07  Aligned_cols=218  Identities=13%  Similarity=0.174  Sum_probs=140.9

Q ss_pred             hhcCcCCCCCCCCC-cHHHHHH-HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          115 EALHVSTAPSTIVC-REDEQKK-VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       115 ~~l~~~~~p~~l~g-Re~e~~~-l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      ..++++|.+++++. -...... +...+... .+...+.+||||+.|.|||+|++++++......     +...++|+..
T Consensus        78 ~~l~~~ytFdnFv~g~~N~~A~aa~~~va~~-~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~-----~~a~v~y~~s  151 (408)
T COG0593          78 SGLNPKYTFDNFVVGPSNRLAYAAAKAVAEN-PGGAYNPLFIYGGVGLGKTHLLQAIGNEALANG-----PNARVVYLTS  151 (408)
T ss_pred             ccCCCCCchhheeeCCchHHHHHHHHHHHhc-cCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhC-----CCceEEeccH
Confidence            34667788776544 4333311 11112221 122467899999999999999999999887532     2346777765


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCC
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPF  270 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~  270 (517)
                      .      .++..+...+..        ...+.+++.+         ..-+++||+|+.+..+.  |+.+..+|+.....+
T Consensus       152 e------~f~~~~v~a~~~--------~~~~~Fk~~y---------~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~  208 (408)
T COG0593         152 E------DFTNDFVKALRD--------NEMEKFKEKY---------SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENG  208 (408)
T ss_pred             H------HHHHHHHHHHHh--------hhHHHHHHhh---------ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcC
Confidence            3      444444444421        1133344333         33589999999998764  677777777644333


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKA  350 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~a  350 (517)
                      ..+ |+.......-...++++|+||+-....+.+.|++.+.+..||+.+.+. ....+++++++++|.   ....|+|.+
T Consensus       209 kqI-vltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~-~~~~i~~ev~~~la~---~~~~nvReL  283 (408)
T COG0593         209 KQI-VLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAED-RGIEIPDEVLEFLAK---RLDRNVREL  283 (408)
T ss_pred             CEE-EEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHh-cCCCCCHHHHHHHHH---HhhccHHHH
Confidence            333 333233322333457999999445578999999999999999987653 234889999999998   467788887


Q ss_pred             HHHHHHHHHHHHHHHH
Q 010136          351 LSVCRSAIEILEAEMR  366 (517)
Q Consensus       351 l~ll~~A~~~a~~~~~  366 (517)
                      ...+.+....+...++
T Consensus       284 egaL~~l~~~a~~~~~  299 (408)
T COG0593         284 EGALNRLDAFALFTKR  299 (408)
T ss_pred             HHHHHHHHHHHHhcCc
Confidence            7777776665555443

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

Probab=99.48  E-value=3.9e-13  Score=144.03  Aligned_cols=214  Identities=15%  Similarity=0.170  Sum_probs=147.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      -+-++||++|+.++.+.|.+    ...+|.++.|+||+|||+++..++..+....--..+....++.++...+..     
T Consensus       169 lDPvIGRd~EI~r~iqIL~R----R~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvA-----  239 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSR----RTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVA-----  239 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhc----cCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhc-----
Confidence            34589999999999999776    345788899999999999999999887641100011122344444333211     


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCch---H--HHHHhccCCCCCCcEEEEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRA---V--LHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~---~--L~~l~~~~~~~~~~v~lI~  277 (517)
                              +.  .. .+..++.|..++.+..   ...++||||||+|.+......   .  .-+++. +......+-+||
T Consensus       240 --------Ga--ky-RGeFEeRlk~vl~ev~---~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLK-PaLARGeL~~IG  304 (786)
T COG0542         240 --------GA--KY-RGEFEERLKAVLKEVE---KSKNVILFIDEIHTIVGAGATEGGAMDAANLLK-PALARGELRCIG  304 (786)
T ss_pred             --------cc--cc-cCcHHHHHHHHHHHHh---cCCCeEEEEechhhhcCCCcccccccchhhhhH-HHHhcCCeEEEE
Confidence                    00  11 2333677777776422   233899999999999875421   1  223332 344567899999


Q ss_pred             EECCCCcchhh--cccccccCCCceEEEeCCCCHHHHHHHHHHHHh---hhccCCCChhHHHHHHHHHHHHhCC---HHH
Q 010136          278 IANAIDLADRF--LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM---ELSYIVFQPQALELCARKVAAASGD---MRK  349 (517)
Q Consensus       278 ian~~~~~~~l--~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~---~~~~~~~~~~ai~~ia~~~~~~~Gd---~R~  349 (517)
                      +|+..++...+  +++|.+| |  +.|.+..++.++...||+..-.   ......++++|+..++....++-.|   +.+
T Consensus       305 ATT~~EYRk~iEKD~AL~RR-F--Q~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDK  381 (786)
T COG0542         305 ATTLDEYRKYIEKDAALERR-F--QKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDK  381 (786)
T ss_pred             eccHHHHHHHhhhchHHHhc-C--ceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCch
Confidence            88754444444  6788888 8  7899999999999999986543   3344688999999999887776665   789


Q ss_pred             HHHHHHHHHHHHHH
Q 010136          350 ALSVCRSAIEILEA  363 (517)
Q Consensus       350 al~ll~~A~~~a~~  363 (517)
                      ||++++.|+.....
T Consensus       382 AIDLiDeA~a~~~l  395 (786)
T COG0542         382 AIDLLDEAGARVRL  395 (786)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999865544

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

Probab=99.46  E-value=1.1e-12  Score=143.34  Aligned_cols=213  Identities=16%  Similarity=0.166  Sum_probs=141.3

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhcc-----CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEE-----EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~-----~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      -..++|+++.++.|...+.....+     ...++++|+||||||||.+++.+++.+.          ..++.++|..+..
T Consensus       457 ~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~----------~~~i~id~se~~~  526 (758)
T PRK11034        457 KMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG----------IELLRFDMSEYME  526 (758)
T ss_pred             cceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC----------CCcEEeechhhcc
Confidence            346899999999999998876432     1235799999999999999999988873          2588999887654


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------C
Q 010136          198 TSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------P  269 (517)
Q Consensus       198 ~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~  269 (517)
                      ...+     ..+.+....+.+......|.+.+.      .....||+|||||.+....++.|.++++-...        .
T Consensus       527 ~~~~-----~~LiG~~~gyvg~~~~g~L~~~v~------~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd  595 (758)
T PRK11034        527 RHTV-----SRLIGAPPGYVGFDQGGLLTDAVI------KHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKAD  595 (758)
T ss_pred             cccH-----HHHcCCCCCcccccccchHHHHHH------hCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceec
Confidence            3321     233232222222221233444443      33457999999999988888888888875321        1


Q ss_pred             CCcEEEEEEECCC---------Cc-------------chhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhc---
Q 010136          270 FSRFILIGIANAI---------DL-------------ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS---  324 (517)
Q Consensus       270 ~~~v~lI~ian~~---------~~-------------~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~---  324 (517)
                      -.++++|+++|.-         .+             ...+.|.+..| + ...|.|.|++.+++.+|+...+..+.   
T Consensus       596 ~rn~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~R-i-d~ii~f~~L~~~~l~~I~~~~l~~~~~~l  673 (758)
T PRK11034        596 FRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNR-L-DNIIWFDHLSTDVIHQVVDKFIVELQAQL  673 (758)
T ss_pred             CCCcEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHcc-C-CEEEEcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            2578899988821         11             12245777777 4 46999999999999999987664221   


Q ss_pred             -----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          325 -----YIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       325 -----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                           .-.+++++++++++......-.+|-.-.+++.-+
T Consensus       674 ~~~~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~~l  712 (758)
T PRK11034        674 DQKGVSLEVSQEARDWLAEKGYDRAMGARPMARVIQDNL  712 (758)
T ss_pred             HHCCCCceECHHHHHHHHHhCCCCCCCCchHHHHHHHHH
Confidence                 2467899999998753322224454444444433

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

Probab=99.45  E-value=3.1e-12  Score=124.29  Aligned_cols=223  Identities=20%  Similarity=0.205  Sum_probs=145.0

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      +-..++|||.++..+...+.+.-. .-+.+++|+|..|||||.+++.+++.++          .+.+|+||.+.-+...+
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~-~~PS~~~iyG~sgTGKT~~~r~~l~~~n----------~~~vw~n~~ecft~~~l   72 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSC-TIPSIVHIYGHSGTGKTYLVRQLLRKLN----------LENVWLNCVECFTYAIL   72 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCc-ccceeEEEeccCCCchhHHHHHHHhhcC----------CcceeeehHHhccHHHH
Confidence            445789999999999988776332 2355679999999999999999998873          46899999999999999


Q ss_pred             HHHHHHHhC-CCCCCCCCCCHHH---HHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCC-CCCcEEE
Q 010136          202 FSKILLKLQ-PRKKLNGSTSPLQ---YLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF-PFSRFIL  275 (517)
Q Consensus       202 ~~~i~~~l~-~~~~~~~~~~~~~---~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~-~~~~v~l  275 (517)
                      +..|+.++. ....+.....+.+   .+-..|.+. ...+.....+|++|.+|.+.......|..++++... ....+.+
T Consensus        73 le~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~i  152 (438)
T KOG2543|consen   73 LEKILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVI  152 (438)
T ss_pred             HHHHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEE
Confidence            999999985 2221111111122   233344431 122234689999999999987666666666666322 2224555


Q ss_pred             EEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          276 IGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       276 I~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                      |.+...  ++.....+. +. +.+.+++|+.|+.+++..|+..--.+.....|-..-++.+..-....++|++....++.
T Consensus       153 ils~~~--~e~~y~~n~-g~-~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~crd~~eL~~~~~  228 (438)
T KOG2543|consen  153 ILSAPS--CEKQYLINT-GT-LEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACRDVNELRSLIS  228 (438)
T ss_pred             EEeccc--cHHHhhccc-CC-CCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            554442  222222222 22 45679999999999999999854332111011123355555555567889887777777


Q ss_pred             HHHH
Q 010136          356 SAIE  359 (517)
Q Consensus       356 ~A~~  359 (517)
                      .+|-
T Consensus       229 ~~wp  232 (438)
T KOG2543|consen  229 LAWP  232 (438)
T ss_pred             HHHH
Confidence            7663

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

Probab=99.44  E-value=9.3e-13  Score=143.70  Aligned_cols=246  Identities=18%  Similarity=0.143  Sum_probs=162.4

Q ss_pred             CCCCCCCcHHHHHHHHHHHHH-hhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          122 APSTIVCREDEQKKVLEFCKK-NLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~-~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      -.+.+.|.+..+.++.+.+.. .+.        -.++..++++||||||||..+++++..+...     ..++.|+--.+
T Consensus       263 ~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~-----~~kisffmrkg  337 (1080)
T KOG0732|consen  263 GFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRG-----NRKISFFMRKG  337 (1080)
T ss_pred             CccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhccc-----ccccchhhhcC
Confidence            346788899888888887432 211        2347789999999999999999998877542     22223333333


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC---ch--------HHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD---RA--------VLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~---~~--------~L~~  261 (517)
                      ....+.                 |.|.. .++++-+|.+   +....|.|||+||||-|....   |+        .|..
T Consensus       338 aD~lsk-----------------wvgEa-ERqlrllFee---A~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLa  396 (1080)
T KOG0732|consen  338 ADCLSK-----------------WVGEA-ERQLRLLFEE---AQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLA  396 (1080)
T ss_pred             chhhcc-----------------ccCcH-HHHHHHHHHH---HhccCceEEeccccccccccccchHHHhhhhHHHHHHH
Confidence            332222                 22443 7889999984   357789999999999887643   22        2334


Q ss_pred             HhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          262 LFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       262 l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      |++-. ...++++|||++|   .++.++|.+++.....++++|+-++.+...+|+.-+-.... ..+....+..+|+...
T Consensus       397 LmdGl-dsRgqVvvigATn---Rpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~-~~i~~~l~~~la~~t~  471 (1080)
T KOG0732|consen  397 LMDGL-DSRGQVVVIGATN---RPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWE-PPISRELLLWLAEETS  471 (1080)
T ss_pred             hccCC-CCCCceEEEcccC---CccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCC-CCCCHHHHHHHHHhcc
Confidence            44432 2457999999999   47778899988755568999999999999999987665443 5677778888888665


Q ss_pred             HHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          342 AASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       342 ~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      ++.| |++   .+|-.|+.++.+..-...    -.+.++...        ......|...|+-.|+.+...+.
T Consensus       472 gy~gaDlk---aLCTeAal~~~~r~~Pq~----y~s~~kl~~--------d~~~ikV~~~~f~~A~~~i~ps~  529 (1080)
T KOG0732|consen  472 GYGGADLK---ALCTEAALIALRRSFPQI----YSSSDKLLI--------DVALIKVEVRDFVEAMSRITPSS  529 (1080)
T ss_pred             ccchHHHH---HHHHHHhhhhhccccCee----ecccccccc--------cchhhhhhhHhhhhhhhccCCCC
Confidence            5555 443   588888877765432210    000111111        11112577888888887776553

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

Probab=99.43  E-value=1.4e-11  Score=114.91  Aligned_cols=193  Identities=16%  Similarity=0.215  Sum_probs=135.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.|+|-|.+.+.|......++.+.+..++||+|++|||||+++++++.++...    |   +.+|+|.-..+.+...++.
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~----G---LRlIev~k~~L~~l~~l~~   99 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ----G---LRLIEVSKEDLGDLPELLD   99 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc----C---ceEEEECHHHhccHHHHHH
Confidence            57999999999999999999999999999999999999999999999887653    3   5789998777655444322


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccC-CCCCCcEEEEEEEC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLT-TFPFSRFILIGIAN  280 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~-~~~~~~v~lI~ian  280 (517)
                                              .+.     ......|||+|++. +....  -..|..+++-. .....+|++.+++|
T Consensus       100 ------------------------~l~-----~~~~kFIlf~DDLs-Fe~~d~~yk~LKs~LeGgle~~P~NvliyATSN  149 (249)
T PF05673_consen  100 ------------------------LLR-----DRPYKFILFCDDLS-FEEGDTEYKALKSVLEGGLEARPDNVLIYATSN  149 (249)
T ss_pred             ------------------------HHh-----cCCCCEEEEecCCC-CCCCcHHHHHHHHHhcCccccCCCcEEEEEecc
Confidence                                    222     23456899999854 22222  24677777653 34567999999999


Q ss_pred             CCCcchh-hc-----------------c--cccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHH
Q 010136          281 AIDLADR-FL-----------------P--RLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKV  340 (517)
Q Consensus       281 ~~~~~~~-l~-----------------~--~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~  340 (517)
                      .-.+... ..                 .  .|..| |+. .|.|.+++.++..+|+...+.... ..++++.+..-|...
T Consensus       150 RRHLv~E~~~d~~~~~~~eih~~d~~eEklSLsDR-FGL-~l~F~~~~q~~YL~IV~~~~~~~g-~~~~~e~l~~~Al~w  226 (249)
T PF05673_consen  150 RRHLVPESFSDREDIQDDEIHPSDTIEEKLSLSDR-FGL-WLSFYPPDQEEYLAIVRHYAERYG-LELDEEELRQEALQW  226 (249)
T ss_pred             hhhccchhhhhccCCCccccCcchHHHHHHhHHHh-CCc-EEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHH
Confidence            7542211 11                 1  23455 776 999999999999999999886432 255555555544444


Q ss_pred             HHHhC--CHHHHHHHHHH
Q 010136          341 AAASG--DMRKALSVCRS  356 (517)
Q Consensus       341 ~~~~G--d~R~al~ll~~  356 (517)
                      +...|  +.|.|-+.++.
T Consensus       227 a~~rg~RSGRtA~QF~~~  244 (249)
T PF05673_consen  227 ALRRGGRSGRTARQFIDD  244 (249)
T ss_pred             HHHcCCCCHHHHHHHHHH
Confidence            44444  56766655543

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.43  E-value=9e-12  Score=121.12  Aligned_cols=221  Identities=16%  Similarity=0.107  Sum_probs=135.9

Q ss_pred             HHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH-----
Q 010136          132 EQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL-----  206 (517)
Q Consensus       132 e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~-----  206 (517)
                      .++.+.+.+..++.  .+.+++|+||||||||++|++++..++          ..++.++|....+..+++....     
T Consensus         6 ~~~~l~~~~l~~l~--~g~~vLL~G~~GtGKT~lA~~la~~lg----------~~~~~i~~~~~~~~~dllg~~~~~~~~   73 (262)
T TIGR02640         6 AVKRVTSRALRYLK--SGYPVHLRGPAGTGKTTLAMHVARKRD----------RPVMLINGDAELTTSDLVGSYAGYTRK   73 (262)
T ss_pred             HHHHHHHHHHHHHh--cCCeEEEEcCCCCCHHHHHHHHHHHhC----------CCEEEEeCCccCCHHHHhhhhcccchh
Confidence            34555555555554  356899999999999999999987553          3689999988666655432211     


Q ss_pred             ---HHh----CCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--C---------
Q 010136          207 ---LKL----QPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--F---------  268 (517)
Q Consensus       207 ---~~l----~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--~---------  268 (517)
                         ..+    ...............+...+        ....+|+|||++.+....+..|..+++...  .         
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~g~l~~A~--------~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~  145 (262)
T TIGR02640        74 KVHDQFIHNVVKLEDIVRQNWVDNRLTLAV--------REGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRY  145 (262)
T ss_pred             hHHHHHHHHhhhhhcccceeecCchHHHHH--------HcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCce
Confidence               000    00000000000000011111        123589999999998878888888886421  0         


Q ss_pred             --CCCcEEEEEEECCCCc--chhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHh
Q 010136          269 --PFSRFILIGIANAIDL--ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAAS  344 (517)
Q Consensus       269 --~~~~v~lI~ian~~~~--~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~  344 (517)
                        ....+.+|+++|...+  ...+.+.+.+| |  ..+.+..++.++..+|+..+.      .++++.++.+.+.+....
T Consensus       146 i~~~~~frvIaTsN~~~~~g~~~l~~aL~~R-~--~~i~i~~P~~~~e~~Il~~~~------~~~~~~~~~iv~~~~~~R  216 (262)
T TIGR02640       146 VDVHPEFRVIFTSNPVEYAGVHETQDALLDR-L--ITIFMDYPDIDTETAILRAKT------DVAEDSAATIVRLVREFR  216 (262)
T ss_pred             EecCCCCEEEEeeCCccccceecccHHHHhh-c--EEEECCCCCHHHHHHHHHHhh------CCCHHHHHHHHHHHHHHH
Confidence              1236778999997532  22346678887 6  578888889999999999764      245666666666554322


Q ss_pred             --C-----CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          345 --G-----DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       345 --G-----d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                        +     .+|.++.+++.+...+.   ..                            .++.++|.++...+..+
T Consensus       217 ~~~~~~~~~~r~~i~~~~~~~~~~~---~~----------------------------~~~~~~~~~~~~~~~~~  260 (262)
T TIGR02640       217 ASGDEITSGLRASLMIAEVATQQDI---PV----------------------------DVDDEDFVDLCIDILAS  260 (262)
T ss_pred             hhCCccCCcHHHHHHHHHHHHHcCC---CC----------------------------CCCcHHHHHHHHHHhcc
Confidence              1     26777777776654321   11                            68888888887665543

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).

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.43  E-value=5.2e-12  Score=131.51  Aligned_cols=211  Identities=17%  Similarity=0.199  Sum_probs=140.4

Q ss_pred             hcCcCCCCC---CCCCcHHHHHHHHHHHHHh------------------------------hccCCCCeEEEEcCCCCcH
Q 010136          116 ALHVSTAPS---TIVCREDEQKKVLEFCKKN------------------------------LEEEKAGSLYVCGCPGTGK  162 (517)
Q Consensus       116 ~l~~~~~p~---~l~gRe~e~~~l~~~L~~~------------------------------l~~~~~~~lli~G~pGtGK  162 (517)
                      +|...|.|.   +|++-|..-..+..||+.+                              ........++|+||||.||
T Consensus       260 LWVdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGK  339 (877)
T KOG1969|consen  260 LWVDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGK  339 (877)
T ss_pred             eeecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCCh
Confidence            555556554   5666666666666666543                              1112234799999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEE
Q 010136          163 SLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMML  242 (517)
Q Consensus       163 T~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~v  242 (517)
                      ||+|+.++++.+          +.+++||++...+...+-..|...+...                   .+..+..+|..
T Consensus       340 TTLAHViAkqaG----------YsVvEINASDeRt~~~v~~kI~~avq~~-------------------s~l~adsrP~C  390 (877)
T KOG1969|consen  340 TTLAHVIAKQAG----------YSVVEINASDERTAPMVKEKIENAVQNH-------------------SVLDADSRPVC  390 (877)
T ss_pred             hHHHHHHHHhcC----------ceEEEecccccccHHHHHHHHHHHHhhc-------------------cccccCCCcce
Confidence            999999998865          6899999999999888755555444211                   12334678899


Q ss_pred             EEEeCcchhcccCchHHHHHhccC--C---CCC-------------CcEEEEEEECCCCcchhhcccccccCCCceEEEe
Q 010136          243 IIADELDYLITRDRAVLHDLFMLT--T---FPF-------------SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTF  304 (517)
Q Consensus       243 I~iDEiD~L~~~~~~~L~~l~~~~--~---~~~-------------~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f  304 (517)
                      |||||||--....-++|..+++..  +   ...             -.=-||||.|++.     -|.|+--+-....|.|
T Consensus       391 LViDEIDGa~~~~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLY-----aPaLR~Lr~~A~ii~f  465 (877)
T KOG1969|consen  391 LVIDEIDGAPRAAVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLY-----APALRPLRPFAEIIAF  465 (877)
T ss_pred             EEEecccCCcHHHHHHHHHHHHhhcchhhcCcccchhhhhhhccccccCCEEEEecCcc-----chhhhhcccceEEEEe
Confidence            999999976543346677776631  0   011             0113788899743     3444332123479999


Q ss_pred             CCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Q 010136          305 RAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAE  364 (517)
Q Consensus       305 ~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~  364 (517)
                      .|++..-+.+-|+.... .+.-..+..++..+++   -+.+|+|..|+.|+-....+.+.
T Consensus       466 ~~p~~s~Lv~RL~~IC~-rE~mr~d~~aL~~L~e---l~~~DIRsCINtLQfLa~~~~r~  521 (877)
T KOG1969|consen  466 VPPSQSRLVERLNEICH-RENMRADSKALNALCE---LTQNDIRSCINTLQFLASNVDRR  521 (877)
T ss_pred             cCCChhHHHHHHHHHHh-hhcCCCCHHHHHHHHH---HhcchHHHHHHHHHHHHHhcccc
Confidence            99999888866664432 1223667888888877   47899999999998766544443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.43  E-value=8.7e-12  Score=126.05  Aligned_cols=208  Identities=15%  Similarity=0.202  Sum_probs=125.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCC-c-eEEEEeCCCCCCHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQ-P-EVFSINCTSLTNTSE  200 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~-~-~~v~vn~~~~~s~~~  200 (517)
                      ++++|+++..+.|...+..    ++.+ .++|+||+|+||++++..+++.+.+.....+... . ......|....    
T Consensus        19 ~~iiGq~~~~~~L~~~~~~----~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~----   90 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRS----GRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHP----   90 (365)
T ss_pred             hhccChHHHHHHHHHHHHc----CCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCCh----
Confidence            4689999877666655443    4444 5889999999999999999999875321110000 0 00000011111    


Q ss_pred             HHHHHHHHhCCC---------CCCC--CCCCHHHHHHHHHHh-hhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC
Q 010136          201 IFSKILLKLQPR---------KKLN--GSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF  268 (517)
Q Consensus       201 i~~~i~~~l~~~---------~~~~--~~~~~~~~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~  268 (517)
                      .+..+...-...         .+..  ...-..+.++.+... ......+.+.|+||||+|.+....++.|..+++.+  
T Consensus        91 ~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEep--  168 (365)
T PRK07471         91 VARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEP--  168 (365)
T ss_pred             HHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcC--
Confidence            111111110000         0000  011123445544432 12233467789999999999877777777777653  


Q ss_pred             CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          269 PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                       ....++|.+++.   ++.+.+.++|| |  +.+.|.|++.+++.++|.....     ..+++.+..+++   .+.|+++
T Consensus       169 -p~~~~~IL~t~~---~~~llpti~SR-c--~~i~l~~l~~~~i~~~L~~~~~-----~~~~~~~~~l~~---~s~Gsp~  233 (365)
T PRK07471        169 -PARSLFLLVSHA---PARLLPTIRSR-C--RKLRLRPLAPEDVIDALAAAGP-----DLPDDPRAALAA---LAEGSVG  233 (365)
T ss_pred             -CCCeEEEEEECC---chhchHHhhcc-c--eEEECCCCCHHHHHHHHHHhcc-----cCCHHHHHHHHH---HcCCCHH
Confidence             345566666774   45678889998 7  7999999999999999987542     223444444443   5789999


Q ss_pred             HHHHHHHH
Q 010136          349 KALSVCRS  356 (517)
Q Consensus       349 ~al~ll~~  356 (517)
                      .|+.++..
T Consensus       234 ~Al~ll~~  241 (365)
T PRK07471        234 RALRLAGG  241 (365)
T ss_pred             HHHHHhcc
Confidence            99998853

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=99.42  E-value=7.9e-13  Score=125.66  Aligned_cols=200  Identities=19%  Similarity=0.202  Sum_probs=130.2

Q ss_pred             CcCCCCC---CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          118 HVSTAPS---TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       118 ~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+.|-|.   .+++.++.+..+.++    ...++-+++|+|||||||||+++.+.++.+....   +.. --+...|++.
T Consensus        32 vekyrP~~l~dv~~~~ei~st~~~~----~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~---~~~-~m~lelnaSd  103 (360)
T KOG0990|consen   32 VEKYRPPFLGIVIKQEPIWSTENRY----SGMPGLPHLLFYGPPGTGKTSTILANARDFYSPH---PTT-SMLLELNASD  103 (360)
T ss_pred             ccCCCCchhhhHhcCCchhhHHHHh----ccCCCCCcccccCCCCCCCCCchhhhhhhhcCCC---Cch-hHHHHhhccC
Confidence            3445553   466666655555444    4445667999999999999999999998876410   000 0122233332


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh----hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCC
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK----LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF  270 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~----~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~  270 (517)
                      ....                     ...+.-...|...    .-+......++|+||+|.+....|++|....+-.+   
T Consensus       104 ~rgi---------------------d~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRviek~t---  159 (360)
T KOG0990|consen  104 DRGI---------------------DPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIEKYT---  159 (360)
T ss_pred             ccCC---------------------cchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHHHHHHHHHhc---
Confidence            2211                     1111111111100    00113467899999999999999999998554432   


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKA  350 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~a  350 (517)
                      .++.++.++|   .+..+.|.++|| |  .++.|.|++..+...++.+..+. +....+++....+++   -+.||+|.|
T Consensus       160 ~n~rF~ii~n---~~~ki~pa~qsR-c--trfrf~pl~~~~~~~r~shi~e~-e~~~~~~~~~~a~~r---~s~gDmr~a  229 (360)
T KOG0990|consen  160 ANTRFATISN---PPQKIHPAQQSR-C--TRFRFAPLTMAQQTERQSHIRES-EQKETNPEGYSALGR---LSVGDMRVA  229 (360)
T ss_pred             cceEEEEecc---ChhhcCchhhcc-c--ccCCCCCCChhhhhhHHHHHHhc-chhhcCHHHHHHHHH---HhHHHHHHH
Confidence            3444445578   577889999999 8  78999999999999999877763 223566666666555   478999999


Q ss_pred             HHHHHHHHH
Q 010136          351 LSVCRSAIE  359 (517)
Q Consensus       351 l~ll~~A~~  359 (517)
                      ++.++....
T Consensus       230 ~n~Lqs~~~  238 (360)
T KOG0990|consen  230 LNYLQSILK  238 (360)
T ss_pred             HHHHHHHHH
Confidence            999988764

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.41  E-value=2.1e-12  Score=144.00  Aligned_cols=218  Identities=13%  Similarity=0.181  Sum_probs=147.4

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhcc----CCC-CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEE----EKA-GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~----~~~-~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +-..++|++..++.+...+..+..+    .++ +.++|+||+|||||.+++++++.+...     .  -.++.++++.+.
T Consensus       564 L~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~-----~--~~~~~~dmse~~  636 (852)
T TIGR03345       564 LAERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG-----E--QNLITINMSEFQ  636 (852)
T ss_pred             hcCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC-----C--cceEEEeHHHhh
Confidence            4457899999999999999876332    122 368999999999999999999988531     1  257888887765


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------  268 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------  268 (517)
                      ....+     ..|.+...++.|......|...+.      .....||+||||+.+....++.|.++++....        
T Consensus       637 ~~~~~-----~~l~g~~~gyvg~~~~g~L~~~v~------~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~v  705 (852)
T TIGR03345       637 EAHTV-----SRLKGSPPGYVGYGEGGVLTEAVR------RKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREI  705 (852)
T ss_pred             hhhhh-----ccccCCCCCcccccccchHHHHHH------hCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEE
Confidence            44332     223333333333322234555554      35668999999999887777888888875321        


Q ss_pred             CCCcEEEEEEECCCC--------------------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh
Q 010136          269 PFSRFILIGIANAID--------------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME  322 (517)
Q Consensus       269 ~~~~v~lI~ian~~~--------------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~  322 (517)
                      .-.+.++|.+||.-.                          +...+.|.+.+| +  ..|.|.|++.+++..|+...+..
T Consensus       706 d~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnR-i--~iI~F~pLs~e~l~~Iv~~~L~~  782 (852)
T TIGR03345       706 DFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLGR-M--TVIPYLPLDDDVLAAIVRLKLDR  782 (852)
T ss_pred             eccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhcc-e--eEEEeCCCCHHHHHHHHHHHHHH
Confidence            125788888888410                          011244677777 6  58999999999999999887753


Q ss_pred             hc---------cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          323 LS---------YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       323 ~~---------~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +.         .-.+++++++++++......-++|....+++.-+.-
T Consensus       783 l~~rl~~~~gi~l~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~~i~~  829 (852)
T TIGR03345       783 IARRLKENHGAELVYSEALVEHIVARCTEVESGARNIDAILNQTLLP  829 (852)
T ss_pred             HHHHHHHhcCceEEECHHHHHHHHHHcCCCCCChHHHHHHHHHHHHH
Confidence            21         125899999999885322223788887777665543

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.

>cd08768 Cdc6_C Winged-helix domain of essential DNA replication protein Cell division control protein (Cdc6), which mediates DNA binding

Probab=99.41  E-value=8.7e-13  Score=105.64  Aligned_cols=81  Identities=23%  Similarity=0.521  Sum_probs=73.2

Q ss_pred             CHHHHHHHHHHHHHHhc-CCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCceeEEEe
Q 010136          422 PQHQQILLCSAVKFFRG-GKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKLKRVTL  495 (517)
Q Consensus       422 ~~~~k~iL~al~~l~~~-~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~~~~~l  495 (517)
                      |.|+|++|+|++.+.+. +..++++++||+.|+.+|+..+.+|+++++|.++|+.|+.+|||...     ++|+++.|+|
T Consensus         1 p~~~Kl~L~Al~~~~~~~~~~~~~~~~vy~~Y~~~c~~~~~~~l~~~~~~~~l~~L~~~gli~~~~~~~g~~g~~~~~~l   80 (87)
T cd08768           1 PLHQKLVLLALLLLFKRGGEEEATTGEVYEVYEELCEEIGVDPLTQRRISDLLSELEMLGLLETEVSSKGRRGRTRKISL   80 (87)
T ss_pred             CchHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHHcCCeEEEEecCCCCceEEEEEe
Confidence            68999999999998865 46789999999999999999999999999999999999999999876     2456999999


Q ss_pred             ecCHHHH
Q 010136          496 KADESDI  502 (517)
Q Consensus       496 ~~~~~~i  502 (517)
                      ++++++|
T Consensus        81 ~~~~~~v   87 (87)
T cd08768          81 NVDPDDV   87 (87)
T ss_pred             cCCcccC
Confidence            9998864

This model characterizes the winged-helix, C-terminal domain of the Cell division control protein (Cdc6_C). Cdc6 (also known as Cell division cycle 6 or Cdc18) functions as a regulator at the early stages of DNA replication, by helping to recruit and load the Minichromosome Maintenance Complex (MCM) onto DNA and may have additional roles in the control of mitotic entry. Precise duplication of chromosomal DNA is required for genomic stability during replication. Cdc6 has an essential role in DNA replication and irregular expression of Cdc6 may lead to genomic instability. Cdc6 over-expression is observed in many cancerous lesions. DNA replication begins when an origin recognition complex (ORC) binds to a replication origin site on the chromatin. Studies indicate that Cdc6 interacts with ORC through the Orc1 subunit, and that this association increases

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.41  E-value=1.4e-11  Score=122.32  Aligned_cols=215  Identities=14%  Similarity=0.128  Sum_probs=129.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHh--------cCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE--------AGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~--------~~~~~~~~v~vn~~~  194 (517)
                      .++++|++...+.+...+..   +.-+..++|+||+|+||++++.++++.+.+....        .....+.++++....
T Consensus         3 f~~iiGq~~~~~~L~~~i~~---~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~   79 (314)
T PRK07399          3 FANLIGQPLAIELLTAAIKQ---NRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTY   79 (314)
T ss_pred             HHHhCCHHHHHHHHHHHHHh---CCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccc
Confidence            34689999877777666544   2236789999999999999999999998653210        011112334433211


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcE
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRF  273 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v  273 (517)
                      ......+-..-+...+...... +.-..+.++++.... .....+...|+|||++|.|....++.|..+++.+.    +.
T Consensus        80 ~~~g~~~~~~~~~~~~~~~~~~-~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp----~~  154 (314)
T PRK07399         80 QHQGKLITASEAEEAGLKRKAP-PQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG----NG  154 (314)
T ss_pred             cccccccchhhhhhcccccccc-ccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC----CC
Confidence            0000000000001111000100 111133344433211 12224567899999999998877888888887753    33


Q ss_pred             EEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHH
Q 010136          274 ILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSV  353 (517)
Q Consensus       274 ~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~l  353 (517)
                      ++|.+++.   ++++.|.++|| |  +.+.|.+++.+++.++|......   ...+. ....+   +..+.|+++.|+++
T Consensus       155 ~fILi~~~---~~~Ll~TI~SR-c--q~i~f~~l~~~~~~~~L~~~~~~---~~~~~-~~~~l---~~~a~Gs~~~al~~  221 (314)
T PRK07399        155 TLILIAPS---PESLLPTIVSR-C--QIIPFYRLSDEQLEQVLKRLGDE---EILNI-NFPEL---LALAQGSPGAAIAN  221 (314)
T ss_pred             eEEEEECC---hHhCcHHHHhh-c--eEEecCCCCHHHHHHHHHHhhcc---ccchh-HHHHH---HHHcCCCHHHHHHH
Confidence            45666774   67899999999 7  79999999999999999976431   11111 12333   33589999999998


Q ss_pred             HHHHH
Q 010136          354 CRSAI  358 (517)
Q Consensus       354 l~~A~  358 (517)
                      +....
T Consensus       222 l~~~~  226 (314)
T PRK07399        222 IEQLQ  226 (314)
T ss_pred             HHHHH
Confidence            86543

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

Probab=99.40  E-value=6e-12  Score=139.31  Aligned_cols=213  Identities=16%  Similarity=0.181  Sum_probs=141.4

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhcc----C-CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEE----E-KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~----~-~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      ...++|++..++.+...+.....+    . ..++++|+||+|||||.+++.+++.+.          ..++.+++..+..
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~----------~~~~~~d~se~~~  522 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG----------VHLERFDMSEYME  522 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc----------CCeEEEeCchhhh
Confidence            346799999999999998764322    1 234689999999999999999998874          2588899877655


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------C
Q 010136          198 TSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------P  269 (517)
Q Consensus       198 ~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~  269 (517)
                      ...+     ..+-+....+.|......+.+.+.      .....||+|||||.+....++.|.++++-...        .
T Consensus       523 ~~~~-----~~lig~~~gyvg~~~~~~l~~~~~------~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd  591 (731)
T TIGR02639       523 KHTV-----SRLIGAPPGYVGFEQGGLLTEAVR------KHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKAD  591 (731)
T ss_pred             cccH-----HHHhcCCCCCcccchhhHHHHHHH------hCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccC
Confidence            4332     122222222233333344555554      34568999999999988888888888875311        1


Q ss_pred             CCcEEEEEEECCCC----------------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh----
Q 010136          270 FSRFILIGIANAID----------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL----  323 (517)
Q Consensus       270 ~~~v~lI~ian~~~----------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~----  323 (517)
                      -.++++|+++|.-.                      +...+.|.+..| + ..+|.|.|++.+++.+|+...+..+    
T Consensus       592 ~~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~R-i-d~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l  669 (731)
T TIGR02639       592 FRNVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNR-L-DAIIHFNPLSEEVLEKIVQKFVDELSKQL  669 (731)
T ss_pred             CCCCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhc-C-CeEEEcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            24677888777421                      011245666676 4 3699999999999999999877532    


Q ss_pred             c----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          324 S----YIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       324 ~----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      .    .-.+++++++++++......-.+|-.-.+++.-+
T Consensus       670 ~~~~~~l~i~~~a~~~La~~~~~~~~GaR~l~r~i~~~~  708 (731)
T TIGR02639       670 NEKNIKLELTDDAKKYLAEKGYDEEFGARPLARVIQEEI  708 (731)
T ss_pred             HhCCCeEEeCHHHHHHHHHhCCCcccCchHHHHHHHHHh
Confidence            1    1367899999998853222334555444554444

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

Probab=99.39  E-value=6.1e-12  Score=126.64  Aligned_cols=189  Identities=22%  Similarity=0.258  Sum_probs=124.2

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC--------------CCceEEE
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL--------------QQPEVFS  189 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~--------------~~~~~v~  189 (517)
                      .+++.+.....+..+....   +..++ ++|+||||+|||+++.++++.+.........              ....+++
T Consensus         2 ~~~~~~~~~~~l~~~~~~~---~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~le   78 (325)
T COG0470           2 ELVPWQEAVKRLLVQALES---GRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLE   78 (325)
T ss_pred             CcccchhHHHHHHHHHHhc---CCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEE
Confidence            3566666666677765542   34555 9999999999999999999999843211111              1136788


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCC
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF  268 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~  268 (517)
                      +|.........                    ..+.++++.... ......+..||+|||+|.|....+++|...++.+  
T Consensus        79 l~~s~~~~~~i--------------------~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep--  136 (325)
T COG0470          79 LNPSDLRKIDI--------------------IVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEP--  136 (325)
T ss_pred             ecccccCCCcc--------------------hHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccC--
Confidence            88877654221                    022222222211 1111356689999999999988888888877664  


Q ss_pred             CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHH
Q 010136          269 PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMR  348 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R  348 (517)
                       ..+..+|.++|   .+..+.+.++|| |  ..+.|.|.+.......+.            ++++..++.   ...||+|
T Consensus       137 -~~~~~~il~~n---~~~~il~tI~SR-c--~~i~f~~~~~~~~i~~~e------------~~~l~~i~~---~~~gd~r  194 (325)
T COG0470         137 -PKNTRFILITN---DPSKILPTIRSR-C--QRIRFKPPSRLEAIAWLE------------DQGLEEIAA---VAEGDAR  194 (325)
T ss_pred             -CCCeEEEEEcC---Chhhccchhhhc-c--eeeecCCchHHHHHHHhh------------ccchhHHHH---HHHHHHH
Confidence             45667777788   577888999999 7  799999933322222211            445555544   5789999


Q ss_pred             HHHHHHHHHHHH
Q 010136          349 KALSVCRSAIEI  360 (517)
Q Consensus       349 ~al~ll~~A~~~  360 (517)
                      .+++.++.....
T Consensus       195 ~~i~~lq~~~~~  206 (325)
T COG0470         195 KAINPLQALAAL  206 (325)
T ss_pred             cCCCHHHHHHHh
Confidence            999988776644

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=99.38  E-value=1.2e-11  Score=129.83  Aligned_cols=224  Identities=16%  Similarity=0.194  Sum_probs=130.6

Q ss_pred             hcCcCCCCC---CCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE-E
Q 010136          116 ALHVSTAPS---TIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS-I  190 (517)
Q Consensus       116 ~l~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~-v  190 (517)
                      .|-+.|.|.   +|+...+.++++..||...+.+.. ...++|+|||||||||+++.++++++-          .+.+ .
T Consensus         8 ~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg~----------~v~Ew~   77 (519)
T PF03215_consen    8 PWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELGF----------EVQEWI   77 (519)
T ss_pred             ccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhCC----------eeEEec
Confidence            455667775   688888999999999998776543 557889999999999999999999863          2332 2


Q ss_pred             eCCCCCCHH---HHHHHHHHHhCCCCCCCCCCCHHHHHHHH-HHh-hh-------ccCCCceEEEEEeCcchhcccCchH
Q 010136          191 NCTSLTNTS---EIFSKILLKLQPRKKLNGSTSPLQYLQNL-YSQ-KL-------HSSVMKMMLIIADELDYLITRDRAV  258 (517)
Q Consensus       191 n~~~~~s~~---~i~~~i~~~l~~~~~~~~~~~~~~~l~~~-~~~-~~-------~~~~~~~~vI~iDEiD~L~~~~~~~  258 (517)
                      |........   .-|.........      -.+....+..+ +.. ..       ........||+|+|+..+.......
T Consensus        78 np~~~~~~~~~~~d~~s~~~~~~~------f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~~~~  151 (519)
T PF03215_consen   78 NPVSFRESDNQEDDFESDFNKFDE------FLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRDTSR  151 (519)
T ss_pred             CCCCcccccccccccccccccccc------ccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchhHHH
Confidence            332211000   000000000000      00111122222 111 00       0112456799999999987766555


Q ss_pred             HHHHhc-cCCCCCC-cEEEEEEE-CCC----Cc------chhhc-ccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh-
Q 010136          259 LHDLFM-LTTFPFS-RFILIGIA-NAI----DL------ADRFL-PRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL-  323 (517)
Q Consensus       259 L~~l~~-~~~~~~~-~v~lI~ia-n~~----~~------~~~l~-~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~-  323 (517)
                      +..++. |...... ++++|..- ...    ..      .+++. +.+... .+...|.|.|.+..-+...|...+... 
T Consensus       152 f~~~L~~~l~~~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~-~~i~~I~FNpIa~T~mkKaL~rI~~~E~  230 (519)
T PF03215_consen  152 FREALRQYLRSSRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNH-PGITRIKFNPIAPTFMKKALKRILKKEA  230 (519)
T ss_pred             HHHHHHHHHHcCCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhC-CCceEEEecCCCHHHHHHHHHHHHHHHh
Confidence            555544 3333334 66666541 110    01      11232 344444 566899999999999999888666532 


Q ss_pred             ----ccCCCC--hhHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 010136          324 ----SYIVFQ--PQALELCARKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       324 ----~~~~~~--~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                          ......  .+.++.|+.   .+.||+|.||+.|+-.+.
T Consensus       231 ~~~~~~~~~p~~~~~l~~I~~---~s~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  231 RSSSGKNKVPDKQSVLDSIAE---SSNGDIRSAINNLQFWCL  269 (519)
T ss_pred             hhhcCCccCCChHHHHHHHHH---hcCchHHHHHHHHHHHhc
Confidence                111222  234777665   567999999999987764

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.37  E-value=1.4e-11  Score=114.76  Aligned_cols=206  Identities=17%  Similarity=0.239  Sum_probs=134.7

Q ss_pred             cCCCCC---CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhc-CC------------
Q 010136          119 VSTAPS---TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEA-GL------------  182 (517)
Q Consensus       119 ~~~~p~---~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~-~~------------  182 (517)
                      ..|.|.   .+.++++..    ..|......+..+++++|||+|+||-|.+..+++++....-+. ..            
T Consensus         5 dkyrpksl~~l~~~~e~~----~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kk   80 (351)
T KOG2035|consen    5 DKYRPKSLDELIYHEELA----NLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKK   80 (351)
T ss_pred             hhcCcchhhhcccHHHHH----HHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCce
Confidence            445554   355555544    4444444445679999999999999999999999998522110 00            


Q ss_pred             ------CCceEEEEeCCCCCC-HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC
Q 010136          183 ------QQPEVFSINCTSLTN-TSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD  255 (517)
Q Consensus       183 ------~~~~~v~vn~~~~~s-~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~  255 (517)
                            ..-.+++++.++... ...+.+.+.+++......                 .........|++|-|+|.|..+.
T Consensus        81 lEistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qi-----------------e~~~qr~fKvvvi~ead~LT~dA  143 (351)
T KOG2035|consen   81 LEISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQI-----------------ETQGQRPFKVVVINEADELTRDA  143 (351)
T ss_pred             EEEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcch-----------------hhccccceEEEEEechHhhhHHH
Confidence                  001123333333222 223444455444221111                 01124456799999999999999


Q ss_pred             chHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHH
Q 010136          256 RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALEL  335 (517)
Q Consensus       256 ~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~  335 (517)
                      |.+|..-++...   +.+-+|.+.|.   ..++.+.++|| |  --|..+.++.+|+..+|...+.... -.++.+.+..
T Consensus       144 Q~aLRRTMEkYs---~~~RlIl~cns---~SriIepIrSR-C--l~iRvpaps~eeI~~vl~~v~~kE~-l~lp~~~l~r  213 (351)
T KOG2035|consen  144 QHALRRTMEKYS---SNCRLILVCNS---TSRIIEPIRSR-C--LFIRVPAPSDEEITSVLSKVLKKEG-LQLPKELLKR  213 (351)
T ss_pred             HHHHHHHHHHHh---cCceEEEEecC---cccchhHHhhh-e--eEEeCCCCCHHHHHHHHHHHHHHhc-ccCcHHHHHH
Confidence            999999887632   23444555674   56788999999 6  4789999999999999998876321 2556666666


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHH
Q 010136          336 CARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       336 ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      ||+   .+.|++|+|+-+|..+.
T Consensus       214 Ia~---kS~~nLRrAllmlE~~~  233 (351)
T KOG2035|consen  214 IAE---KSNRNLRRALLMLEAVR  233 (351)
T ss_pred             HHH---HhcccHHHHHHHHHHHH
Confidence            666   68999999998886654

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

Probab=99.36  E-value=1.2e-11  Score=120.71  Aligned_cols=139  Identities=15%  Similarity=0.198  Sum_probs=98.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .-.++++|||||||||+.++.+++.-+          ..+....+.+.                   .+-|......+.+
T Consensus       383 pfRNilfyGPPGTGKTm~ArelAr~SG----------lDYA~mTGGDV-------------------APlG~qaVTkiH~  433 (630)
T KOG0742|consen  383 PFRNILFYGPPGTGKTMFARELARHSG----------LDYAIMTGGDV-------------------APLGAQAVTKIHK  433 (630)
T ss_pred             hhhheeeeCCCCCCchHHHHHHHhhcC----------CceehhcCCCc-------------------cccchHHHHHHHH
Confidence            356899999999999999999876532          23443333332                   1223333556777


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccCc---------hHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCC
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRDR---------AVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCK  298 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~~---------~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~  298 (517)
                      +|+  .....++..+|||||+|.+...+.         ..|..|+=........|+++.++|   -+..++..+..| + 
T Consensus       434 lFD--WakkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtN---rpgdlDsAV~DR-i-  506 (630)
T KOG0742|consen  434 LFD--WAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATN---RPGDLDSAVNDR-I-  506 (630)
T ss_pred             HHH--HHhhcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccC---CccchhHHHHhh-h-
Confidence            887  334566789999999998865421         345444333333456788888899   588899999998 5 


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHHhh
Q 010136          299 PLVVTFRAYSKDQIIRILQERLME  322 (517)
Q Consensus       299 ~~~i~f~p~~~~e~~~IL~~rl~~  322 (517)
                      .++|+|+-+..+|...+|...+.+
T Consensus       507 de~veFpLPGeEERfkll~lYlnk  530 (630)
T KOG0742|consen  507 DEVVEFPLPGEEERFKLLNLYLNK  530 (630)
T ss_pred             hheeecCCCChHHHHHHHHHHHHH
Confidence            469999999999999999988863

>PF09079 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The C-terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8)

Probab=99.36  E-value=3.6e-12  Score=101.38  Aligned_cols=78  Identities=21%  Similarity=0.409  Sum_probs=67.4

Q ss_pred             HHHHHHHHhcCC-CCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec------cCCceeEEEeecCHHH
Q 010136          429 LCSAVKFFRGGK-KDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG------RDDKLKRVTLKADESD  501 (517)
Q Consensus       429 L~al~~l~~~~~-~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~------~~~~~~~~~l~~~~~~  501 (517)
                      |+|++.+.+.+. .++++++||+.|+.+|+..+..|+++++|+++|.+|+.+|||...      ++|++++|+|.+|+++
T Consensus         1 L~Al~~~~~~~~~~~~~~~~vy~~Y~~lc~~~~~~pls~~r~~~~l~eL~~~gli~~~~~~~G~~~G~~~~~~l~~d~~~   80 (85)
T PF09079_consen    1 LLALAALLKEGGKEEVTTGEVYEVYEELCESLGVDPLSYRRFSDYLSELEMLGLIESERKGRGRGRGRTREISLNVDPED   80 (85)
T ss_dssp             HHHHHHHHHHCTSSSEEHHHHHHHHHHHHHHTTS----HHHHHHHHHHHHHTTSEEEEEEE-TT-CTEEEEEEECSSSHH
T ss_pred             CHHHHHHHHhCCCCceeHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCeEEEeecCCCCCCeEEEEEecCCHHH
Confidence            678888877654 899999999999999999999999999999999999999999865      3789999999999999


Q ss_pred             HHHHH
Q 010136          502 ITFAL  506 (517)
Q Consensus       502 i~~~l  506 (517)
                      |.++|
T Consensus        81 v~~aL   85 (85)
T PF09079_consen   81 VLEAL   85 (85)
T ss_dssp             HHHHH
T ss_pred             HHhhC
Confidence            99986

It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity []. ; PDB: 2QBY_A 2V1U_A 1W5T_A 1W5S_B 1FNN_B.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.36  E-value=1.3e-11  Score=138.67  Aligned_cols=221  Identities=17%  Similarity=0.175  Sum_probs=148.3

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhcc----C-CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEE----E-KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~----~-~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +...++|++..++.+...+.....+    . +.+.++|+||+|||||++|+.++..+....       -.+++++|..+.
T Consensus       563 l~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~-------~~~i~~d~s~~~  635 (852)
T TIGR03346       563 LHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDE-------DAMVRIDMSEYM  635 (852)
T ss_pred             hhcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCC-------CcEEEEechhhc
Confidence            4457899999999999999876432    1 235689999999999999999998875311       258999998775


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------  268 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------  268 (517)
                      ....+     ..+.+......|......|...+.      .....||+||||+.+....++.|+++++....        
T Consensus       636 ~~~~~-----~~l~g~~~g~~g~~~~g~l~~~v~------~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~v  704 (852)
T TIGR03346       636 EKHSV-----ARLIGAPPGYVGYEEGGQLTEAVR------RKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTV  704 (852)
T ss_pred             ccchH-----HHhcCCCCCccCcccccHHHHHHH------cCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEE
Confidence            53332     222222222223222233444443      23456999999999988888889998865321        


Q ss_pred             CCCcEEEEEEECCCC----------------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---
Q 010136          269 PFSRFILIGIANAID----------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---  323 (517)
Q Consensus       269 ~~~~v~lI~ian~~~----------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---  323 (517)
                      .-.+.+||++||.-.                      ....+.|.+..| + ...+.|.|++.+++.+|+...+..+   
T Consensus       705 d~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~R-i-d~IivF~PL~~e~l~~I~~l~L~~l~~~  782 (852)
T TIGR03346       705 DFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLNR-I-DEIVVFHPLGREQIARIVEIQLGRLRKR  782 (852)
T ss_pred             ecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhcC-c-CeEEecCCcCHHHHHHHHHHHHHHHHHH
Confidence            124677888888511                      011133555555 4 3689999999999999988766421   


Q ss_pred             -c----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Q 010136          324 -S----YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       324 -~----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~  362 (517)
                       .    ...+++++++++++.-....+++|..-+++++.+.-..
T Consensus       783 l~~~~~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~~~i~~~l  826 (852)
T TIGR03346       783 LAERKITLELSDAALDFLAEAGYDPVYGARPLKRAIQREIENPL  826 (852)
T ss_pred             HHHCCCeecCCHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Confidence             1    14689999999988533336788887777777664433

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.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.34  E-value=1.2e-11  Score=126.56  Aligned_cols=207  Identities=18%  Similarity=0.268  Sum_probs=122.2

Q ss_pred             CCCCcHHHHHHHHHHHHHhhcc------------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          125 TIVCREDEQKKVLEFCKKNLEE------------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~------------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .++|++...+.+...+......            ....+++|+||||||||++++.+++.+.          ..++.++|
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~----------~pf~~id~  141 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD----------VPFAIADA  141 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC----------CCceecch
Confidence            4799999999887666432211            1246899999999999999999987763          36788888


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhccc--------------Cch
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITR--------------DRA  257 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~--------------~~~  257 (517)
                      ..+....                +.|......+..++... .......+.||||||||.+...              .|.
T Consensus       142 ~~l~~~g----------------yvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~  205 (412)
T PRK05342        142 TTLTEAG----------------YVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQ  205 (412)
T ss_pred             hhcccCC----------------cccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHH
Confidence            7653210                11222222333333210 0001234579999999999754              256


Q ss_pred             HHHHHhccC----------CCCCCcEEEEEEECCC-----------------------Ccc------------h------
Q 010136          258 VLHDLFMLT----------TFPFSRFILIGIANAI-----------------------DLA------------D------  286 (517)
Q Consensus       258 ~L~~l~~~~----------~~~~~~v~lI~ian~~-----------------------~~~------------~------  286 (517)
                      .|..+++-.          ..+...+++|.++|-+                       .|.            .      
T Consensus       206 ~LL~~Leg~~~~v~~~gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~  285 (412)
T PRK05342        206 ALLKILEGTVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQV  285 (412)
T ss_pred             HHHHHHhcCeEEeCCCCCcCcCCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhc
Confidence            677777531          0111233444433320                       010            0      


Q ss_pred             --------hhcccccccCCCceEEEeCCCCHHHHHHHHHH----HHhhh--------ccCCCChhHHHHHHHHHHHHhCC
Q 010136          287 --------RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE----RLMEL--------SYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       287 --------~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~----rl~~~--------~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                              .+.|.+..| + +..+.|.|++.+++..|+..    .+..+        -.-.|+++++++|++......-.
T Consensus       286 ~~~dL~~~gf~PEflgR-l-d~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~G  363 (412)
T PRK05342        286 EPEDLIKFGLIPEFIGR-L-PVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTG  363 (412)
T ss_pred             CHHHHHHHhhhHHHhCC-C-CeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCC
Confidence                    034556666 4 46899999999999999983    22211        11368999999999863232334


Q ss_pred             HHHHHHHHHHHHH
Q 010136          347 MRKALSVCRSAIE  359 (517)
Q Consensus       347 ~R~al~ll~~A~~  359 (517)
                      +|..-.++...+.
T Consensus       364 AR~Lrriie~~l~  376 (412)
T PRK05342        364 ARGLRSILEEILL  376 (412)
T ss_pred             CchHHHHHHHHhH
Confidence            5554445544443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.34  E-value=3.6e-11  Score=120.20  Aligned_cols=188  Identities=12%  Similarity=0.164  Sum_probs=121.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ++++|.+...+.+...+    ..+..+ ..+|+||+|+|||++++.+++.+.+.......+  .+..+....-.      
T Consensus         4 ~~i~g~~~~~~~l~~~~----~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~--D~~~~~~~~~~------   71 (313)
T PRK05564          4 HTIIGHENIKNRIKNSI----IKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYV--DIIEFKPINKK------   71 (313)
T ss_pred             hhccCcHHHHHHHHHHH----HcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCC--CeEEeccccCC------
Confidence            46789888777766665    334444 557999999999999999999876432111222  33333321100      


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                                     .. ..+.++++.... .....+...|+|||++|.+....++.|...++.+   ...+++|.+++.
T Consensus        72 ---------------~i-~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEep---p~~t~~il~~~~  132 (313)
T PRK05564         72 ---------------SI-GVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEP---PKGVFIILLCEN  132 (313)
T ss_pred             ---------------CC-CHHHHHHHHHHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCC---CCCeEEEEEeCC
Confidence                           00 022233333210 1112345679999999999877778888777753   345566666653


Q ss_pred             CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          282 IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       282 ~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                         ++.+.+.++|| |  +.+.|.+++.+++...|..++.     .+++++++.++.   .+.|....|+..+..
T Consensus       133 ---~~~ll~TI~SR-c--~~~~~~~~~~~~~~~~l~~~~~-----~~~~~~~~~l~~---~~~g~~~~a~~~~~~  193 (313)
T PRK05564        133 ---LEQILDTIKSR-C--QIYKLNRLSKEEIEKFISYKYN-----DIKEEEKKSAIA---FSDGIPGKVEKFIED  193 (313)
T ss_pred             ---hHhCcHHHHhh-c--eeeeCCCcCHHHHHHHHHHHhc-----CCCHHHHHHHHH---HcCCCHHHHHHHhcc
Confidence               56888999999 7  7999999999999998886653     345666665554   345668877766543

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.34  E-value=2.3e-11  Score=122.12  Aligned_cols=121  Identities=21%  Similarity=0.325  Sum_probs=81.6

Q ss_pred             ceEEEEEeCcchhcccC------------chHHHHHhccCC-------CCCCcEEEEEEECCCC--cchhhcccccccCC
Q 010136          239 KMMLIIADELDYLITRD------------RAVLHDLFMLTT-------FPFSRFILIGIANAID--LADRFLPRLQSMNC  297 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~------------~~~L~~l~~~~~-------~~~~~v~lI~ian~~~--~~~~l~~~l~sr~~  297 (517)
                      ..-||||||||.++...            |..|..+++-..       ....++.+|+ +...+  -+..+.|.+..| |
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~-~GAF~~~kp~DlIPEl~GR-~  326 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIA-SGAFHVSKPSDLIPELQGR-F  326 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEe-cCCcCCCChhhccHHHhCc-c
Confidence            34699999999998542            334555554421       1235677776 33322  245678999998 5


Q ss_pred             CceEEEeCCCCHHHHHHHHHH----HHhh----h--c--cCCCChhHHHHHHHHHHH-----HhCCHHHHHHHHHHHHHH
Q 010136          298 KPLVVTFRAYSKDQIIRILQE----RLME----L--S--YIVFQPQALELCARKVAA-----ASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       298 ~~~~i~f~p~~~~e~~~IL~~----rl~~----~--~--~~~~~~~ai~~ia~~~~~-----~~Gd~R~al~ll~~A~~~  360 (517)
                       |.++.+.+++.+++..||..    .+.+    +  .  .-.|++++++.||+....     ..-.+|....++....+-
T Consensus       327 -Pi~v~L~~L~~~dL~~ILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtI~E~~L~d  405 (443)
T PRK05201        327 -PIRVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVMEKLLED  405 (443)
T ss_pred             -ceEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHHH
Confidence             67999999999999999953    2221    1  0  236899999999998765     245688777777776654


Q ss_pred             HH
Q 010136          361 LE  362 (517)
Q Consensus       361 a~  362 (517)
                      ++
T Consensus       406 ~~  407 (443)
T PRK05201        406 IS  407 (443)
T ss_pred             Hh
Confidence            43

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.34  E-value=7.6e-11  Score=118.40  Aligned_cols=122  Identities=22%  Similarity=0.310  Sum_probs=81.9

Q ss_pred             ceEEEEEeCcchhcccC------------chHHHHHhccCC-------CCCCcEEEEEEECCCC--cchhhcccccccCC
Q 010136          239 KMMLIIADELDYLITRD------------RAVLHDLFMLTT-------FPFSRFILIGIANAID--LADRFLPRLQSMNC  297 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~------------~~~L~~l~~~~~-------~~~~~v~lI~ian~~~--~~~~l~~~l~sr~~  297 (517)
                      ..-||||||||.++.+.            |..|..+++-..       ....++.+|+ +....  -+..+.|.+..| |
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~-~GAF~~~kp~DlIPEl~GR-~  324 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIA-AGAFQLAKPSDLIPELQGR-F  324 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEe-cCCcCCCChhhccHHHhCc-c
Confidence            45699999999998542            344555555421       1235677776 33321  245678999998 5


Q ss_pred             CceEEEeCCCCHHHHHHHHHH----HHhh----h--c--cCCCChhHHHHHHHHHHH-----HhCCHHHHHHHHHHHHHH
Q 010136          298 KPLVVTFRAYSKDQIIRILQE----RLME----L--S--YIVFQPQALELCARKVAA-----ASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       298 ~~~~i~f~p~~~~e~~~IL~~----rl~~----~--~--~~~~~~~ai~~ia~~~~~-----~~Gd~R~al~ll~~A~~~  360 (517)
                       |.++.+.+++.+++..||..    .+.+    +  .  .-.|++++++.||+....     ..-.+|....++....+-
T Consensus       325 -Pi~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE~~l~d  403 (441)
T TIGR00390       325 -PIRVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLERLLED  403 (441)
T ss_pred             -ceEEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHHH
Confidence             67999999999999999942    1111    1  1  237899999999998765     345688777777776654


Q ss_pred             HHH
Q 010136          361 LEA  363 (517)
Q Consensus       361 a~~  363 (517)
                      +.-
T Consensus       404 ~~f  406 (441)
T TIGR00390       404 ISF  406 (441)
T ss_pred             HHh
Confidence            443

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.

>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=99.33  E-value=9e-12  Score=118.84  Aligned_cols=204  Identities=20%  Similarity=0.245  Sum_probs=105.2

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH-
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK-  204 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~-  204 (517)
                      ++||++|++.|..++..    +....++|+||+|+|||++++.+.+.+....       ..++|+++........+... 
T Consensus         1 F~gR~~el~~l~~~l~~----~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~-------~~~~y~~~~~~~~~~~~~~~~   69 (234)
T PF01637_consen    1 FFGREKELEKLKELLES----GPSQHILLYGPRGSGKTSLLKEFINELKEKG-------YKVVYIDFLEESNESSLRSFI   69 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH------SSEEEEEESTTSSHHHHHHHHHHHCT--E-------ECCCHHCCTTBSHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHh----hcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC-------CcEEEEecccchhhhHHHHHH
Confidence            58999999999887654    4578999999999999999999988874321       13556666554332221111 


Q ss_pred             ------------HHHHhCCCCC----CCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc-c--cCchHHHHHhcc
Q 010136          205 ------------ILLKLQPRKK----LNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI-T--RDRAVLHDLFML  265 (517)
Q Consensus       205 ------------i~~~l~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~-~--~~~~~L~~l~~~  265 (517)
                                  +...+.....    ..........+..++....  .....+||+|||+|.+. .  .....+..+...
T Consensus        70 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~--~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~  147 (234)
T PF01637_consen   70 EETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLK--KKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSL  147 (234)
T ss_dssp             HHHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHH--HCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHH--hcCCcEEEEEecHHHHhhcccchHHHHHHHHHH
Confidence                        2222211100    0011112344455444211  23333999999999998 2  223444444333


Q ss_pred             C--CCCCCcEEEEEEECCCCcchhh---cccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccC-CCChhHHHHHHHH
Q 010136          266 T--TFPFSRFILIGIANAIDLADRF---LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYI-VFQPQALELCARK  339 (517)
Q Consensus       266 ~--~~~~~~v~lI~ian~~~~~~~l---~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~-~~~~~ai~~ia~~  339 (517)
                      .  .....++.+|.++....+...+   ...+..+ +  ..+.+.|++.++..+++....... .. .++++.++.+.. 
T Consensus       148 ~~~~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~-~--~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~-  222 (234)
T PF01637_consen  148 LDSLLSQQNVSIVITGSSDSLMEEFLDDKSPLFGR-F--SHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYS-  222 (234)
T ss_dssp             HHH----TTEEEEEEESSHHHHHHTT-TTSTTTT------EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHH-
T ss_pred             HhhccccCCceEEEECCchHHHHHhhcccCccccc-c--ceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHH-
Confidence            1  1123455555545543333221   2334444 3  459999999999999999877654 21 247888877765 


Q ss_pred             HHHHhCCHHH
Q 010136          340 VAAASGDMRK  349 (517)
Q Consensus       340 ~~~~~Gd~R~  349 (517)
                        ...|.++.
T Consensus       223 --~~gG~P~~  230 (234)
T PF01637_consen  223 --LTGGNPRY  230 (234)
T ss_dssp             --HHTT-HHH
T ss_pred             --HhCCCHHH
Confidence              34555554

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

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

Probab=99.32  E-value=4.1e-12  Score=120.64  Aligned_cols=150  Identities=21%  Similarity=0.294  Sum_probs=101.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH-HHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE-IFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~-i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+-++++||||||||++++++++.|.-... ..+.....+++||.++-+++- --.++..++            .+.+++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~-~~y~~~~liEinshsLFSKWFsESgKlV~km------------F~kI~E  243 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTN-DRYYKGQLIEINSHSLFSKWFSESGKLVAKM------------FQKIQE  243 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeec-CccccceEEEEehhHHHHHHHhhhhhHHHHH------------HHHHHH
Confidence            346899999999999999999998863322 122334688999987644432 001111111            334444


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC----------------chHHHHHhccCCCCCCcEEEEEEECCCCcchhhccc
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD----------------RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPR  291 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~----------------~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~  291 (517)
                      +++     ..+..+.++|||++.|...+                ..+|.++-++.  ...+|++++++|   +.+.+|.+
T Consensus       244 Lv~-----d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK--~~~NvliL~TSN---l~~siD~A  313 (423)
T KOG0744|consen  244 LVE-----DRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLK--RYPNVLILATSN---LTDSIDVA  313 (423)
T ss_pred             HHh-----CCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhc--cCCCEEEEeccc---hHHHHHHH
Confidence            443     35667788999999997432                12344443333  235788888888   78889999


Q ss_pred             ccccCCCceEEEeCCCCHHHHHHHHHHHHhhh
Q 010136          292 LQSMNCKPLVVTFRAYSKDQIIRILQERLMEL  323 (517)
Q Consensus       292 l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~  323 (517)
                      +..| -. -+.+..|++...+++|++..++.+
T Consensus       314 fVDR-AD-i~~yVG~Pt~~ai~~IlkscieEL  343 (423)
T KOG0744|consen  314 FVDR-AD-IVFYVGPPTAEAIYEILKSCIEEL  343 (423)
T ss_pred             hhhH-hh-heeecCCccHHHHHHHHHHHHHHH
Confidence            9998 43 488889999999999999988743

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.30  E-value=4.6e-11  Score=121.69  Aligned_cols=211  Identities=18%  Similarity=0.255  Sum_probs=126.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc------C--------CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE
Q 010136          124 STIVCREDEQKKVLEFCKKNLEE------E--------KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS  189 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~------~--------~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~  189 (517)
                      ..++|+++..+.+...+.+....      .        ...+++|+||||||||++++.++..+.          ..++.
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~----------~pf~~  146 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN----------VPFAI  146 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC----------CCeEE
Confidence            35799999999887776432221      0        135899999999999999999987663          35677


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhccc--------------
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITR--------------  254 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~--------------  254 (517)
                      +++..+...                .+.|......+...+... ..-....+.||+|||+|.+..+              
T Consensus       147 ~da~~L~~~----------------gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~  210 (413)
T TIGR00382       147 ADATTLTEA----------------GYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEG  210 (413)
T ss_pred             echhhcccc----------------ccccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchh
Confidence            777654211                011222233333333210 0001223469999999999762              


Q ss_pred             CchHHHHHhccCC----------CCCCcEEEEEEECCC-----------------------Ccc----------------
Q 010136          255 DRAVLHDLFMLTT----------FPFSRFILIGIANAI-----------------------DLA----------------  285 (517)
Q Consensus       255 ~~~~L~~l~~~~~----------~~~~~v~lI~ian~~-----------------------~~~----------------  285 (517)
                      .|..|..+++-..          .+..+.++|.++|-+                       .|.                
T Consensus       211 vq~~LL~iLeG~~~~v~~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~  290 (413)
T TIGR00382       211 VQQALLKIIEGTVANVPPQGGRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQ  290 (413)
T ss_pred             HHHHHHHHhhccceecccCCCccccCCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHH
Confidence            3566777774211          112345666655541                       000                


Q ss_pred             -------h-hhcccccccCCCceEEEeCCCCHHHHHHHHHHHH----hhh----c----cCCCChhHHHHHHHHHHHHhC
Q 010136          286 -------D-RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERL----MEL----S----YIVFQPQALELCARKVAAASG  345 (517)
Q Consensus       286 -------~-~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl----~~~----~----~~~~~~~ai~~ia~~~~~~~G  345 (517)
                             . .+.|.+..| + +..+.|.|++.+++..|+...+    ..+    .    .-.|++++++++++......-
T Consensus       291 ~~~~dl~~~g~~PEflgR-l-d~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~  368 (413)
T TIGR00382       291 VEPEDLVKFGLIPEFIGR-L-PVIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKT  368 (413)
T ss_pred             HHHHHHHHHhhHHHHhCC-C-CeEeecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCC
Confidence                   0 134666666 4 4588999999999999987632    111    0    136789999999986433333


Q ss_pred             CHHHHHHHHHHHHHHHH
Q 010136          346 DMRKALSVCRSAIEILE  362 (517)
Q Consensus       346 d~R~al~ll~~A~~~a~  362 (517)
                      .+|..-.++++.+.-++
T Consensus       369 GAR~Lr~iie~~l~~~m  385 (413)
T TIGR00382       369 GARGLRSIVEGLLLDVM  385 (413)
T ss_pred             CchHHHHHHHHhhHHHH
Confidence            46655556655554333

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.30  E-value=3.9e-11  Score=134.25  Aligned_cols=217  Identities=17%  Similarity=0.193  Sum_probs=139.1

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhcc----CCC-CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEE----EKA-GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~----~~~-~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +...++|++..++.+...+.....+    ..+ ++++|+||+|||||++++++++.+...    +   -.+++++|..+.
T Consensus       566 l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~----~---~~~i~id~se~~  638 (857)
T PRK10865        566 LHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS----D---DAMVRIDMSEFM  638 (857)
T ss_pred             hCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC----C---CcEEEEEhHHhh
Confidence            4456899999999999999876422    122 478999999999999999999887531    1   247899997764


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------  268 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------  268 (517)
                      ....     ...+.+....+.|......+...+.      .....||+|||++.+....++.|+++++....        
T Consensus       639 ~~~~-----~~~LiG~~pgy~g~~~~g~l~~~v~------~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~v  707 (857)
T PRK10865        639 EKHS-----VSRLVGAPPGYVGYEEGGYLTEAVR------RRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTV  707 (857)
T ss_pred             hhhh-----HHHHhCCCCcccccchhHHHHHHHH------hCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEE
Confidence            3222     2223232222223222223444333      23347999999999988888888888865321        


Q ss_pred             CCCcEEEEEEECCC-C---------------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhc--
Q 010136          269 PFSRFILIGIANAI-D---------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS--  324 (517)
Q Consensus       269 ~~~~v~lI~ian~~-~---------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~--  324 (517)
                      .-.+.++|+++|.- +                     ....+.|.+.+| + ...+.|.|++.+++..|+...+..+.  
T Consensus       708 d~rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELlnR-l-d~iivF~PL~~edl~~Iv~~~L~~l~~r  785 (857)
T PRK10865        708 DFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINR-I-DEVVVFHPLGEQHIASIAQIQLQRLYKR  785 (857)
T ss_pred             eecccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHHh-C-CeeEecCCCCHHHHHHHHHHHHHHHHHH
Confidence            12355688878851 0                     011234667777 4 36999999999999999887775321  


Q ss_pred             ------cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          325 ------YIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       325 ------~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                            ...+++++++++++.-....-.+|-.-.+++.-+
T Consensus       786 l~~~gi~l~is~~al~~L~~~gy~~~~GARpL~r~I~~~i  825 (857)
T PRK10865        786 LEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQI  825 (857)
T ss_pred             HHhCCCcCcCCHHHHHHHHHcCCCccCChHHHHHHHHHHH
Confidence                  1357999999998742111123554444444433

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.29  E-value=3.2e-11  Score=119.95  Aligned_cols=252  Identities=18%  Similarity=0.173  Sum_probs=144.8

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +..++|+++..+.+.-.+..    ...++++|+|+||||||++++.++..+.......+.+ +.+..+.+........ .
T Consensus         7 f~~i~Gq~~~~~~l~~~~~~----~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~-~~~~~~~~~~~~~~~~-~   80 (334)
T PRK13407          7 FSAIVGQEEMKQAMVLTAID----PGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCP-VNSARPEDCPEWAHVS-S   80 (334)
T ss_pred             HHHhCCHHHHHHHHHHHHhc----cCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccc-cccCcccCCccccccc-C
Confidence            34688999877666543221    2347899999999999999999998875322211111 1111111110000000 0


Q ss_pred             HHHHHHhCCCCCCCCCCC-----HHHHHHHH-------HHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC---
Q 010136          203 SKILLKLQPRKKLNGSTS-----PLQYLQNL-------YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT---  267 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~-----~~~~l~~~-------~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~---  267 (517)
                      ..+...-..-...+.+..     ..-.+...       |...... ....-+|+|||++.+....|..|.+.++...   
T Consensus        81 ~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~-~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~v  159 (334)
T PRK13407         81 TTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLA-RANRGYLYIDEVNLLEDHIVDLLLDVAQSGENVV  159 (334)
T ss_pred             CcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceE-EcCCCeEEecChHhCCHHHHHHHHHHHHcCCeEE
Confidence            000000000000000000     00011111       1111110 1122489999999998888888888876432   


Q ss_pred             -------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCH-HHHHHHHHHHHhh-----------------
Q 010136          268 -------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSK-DQIIRILQERLME-----------------  322 (517)
Q Consensus       268 -------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~-~e~~~IL~~rl~~-----------------  322 (517)
                             ....++++|++.|..+  ..+.+.+..| |.. .+.+.+... ++..+|+..+...                 
T Consensus       160 ~r~G~~~~~p~rfiviAt~NP~e--~~l~~aLldR-F~~-~v~v~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~  235 (334)
T PRK13407        160 EREGLSIRHPARFVLVGSGNPEE--GELRPQLLDR-FGL-SVEVRSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQ  235 (334)
T ss_pred             EECCeEEecCCCEEEEecCCccc--CCCCHHHHhh-cce-EEEcCCCCcHHHHHHHHHHhhcccccchhhhccccccccC
Confidence                   1235789999888532  2356677777 654 555555444 7777777754320                 


Q ss_pred             -----------hccCCCChhHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhh
Q 010136          323 -----------LSYIVFQPQALELCARKVAAAS-GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAF  390 (517)
Q Consensus       323 -----------~~~~~~~~~ai~~ia~~~~~~~-Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  390 (517)
                                 +....++++.++++++.+.... ...|-.+.+++.|...|..++++                       
T Consensus       236 ~~~~i~~a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~-----------------------  292 (334)
T PRK13407        236 LRGRILGARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAE-----------------------  292 (334)
T ss_pred             CHHHHHHHHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCC-----------------------
Confidence                       1224578888999988776544 37899999999999999999988                       


Q ss_pred             hccCccccHHHHHHHHHHhccCh
Q 010136          391 EFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       391 ~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                           .|+.+||..+..-+....
T Consensus       293 -----~V~~~Di~~~~~~vl~hR  310 (334)
T PRK13407        293 -----AVGRSHLRSVATMALSHR  310 (334)
T ss_pred             -----eeCHHHHHHHHHHhhhhh
Confidence                 899999988875554433

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=99.29  E-value=5.1e-11  Score=116.78  Aligned_cols=110  Identities=20%  Similarity=0.224  Sum_probs=68.5

Q ss_pred             ceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC---------cchhhcccccccCCCceEEEeCCCCH
Q 010136          239 KMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID---------LADRFLPRLQSMNCKPLVVTFRAYSK  309 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~---------~~~~l~~~l~sr~~~~~~i~f~p~~~  309 (517)
                      -|-||||||+|.|.-..-..|...++.   +-++++++ +||.-.         -+.-+...+.+| +  -.|.-.||+.
T Consensus       278 vpGVLFIDEvHmLDiEcFsfLnralEs---~~sPiiIl-ATNRg~~~irGt~~~sphGiP~DlLDR-l--lII~t~py~~  350 (398)
T PF06068_consen  278 VPGVLFIDEVHMLDIECFSFLNRALES---ELSPIIIL-ATNRGITKIRGTDIISPHGIPLDLLDR-L--LIIRTKPYSE  350 (398)
T ss_dssp             EE-EEEEESGGGSBHHHHHHHHHHHTS---TT--EEEE-EES-SEEE-BTTS-EEETT--HHHHTT-E--EEEEE----H
T ss_pred             ecceEEecchhhccHHHHHHHHHHhcC---CCCcEEEE-ecCceeeeccCccCcCCCCCCcchHhh-c--EEEECCCCCH
Confidence            367999999999965544555555544   33455554 478421         122223345666 4  4889999999


Q ss_pred             HHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          310 DQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       310 ~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      +|+.+||..|++. +...+++++++++++.  +....+|.|++++.-|.
T Consensus       351 ~ei~~Il~iR~~~-E~v~i~~~al~~L~~i--g~~~SLRYAiqLi~~a~  396 (398)
T PF06068_consen  351 EEIKQILKIRAKE-EDVEISEDALDLLTKI--GVETSLRYAIQLITPAS  396 (398)
T ss_dssp             HHHHHHHHHHHHH-CT--B-HHHHHHHHHH--HHHS-HHHHHHCHHHHH
T ss_pred             HHHHHHHHhhhhh-hcCcCCHHHHHHHHHH--hhhccHHHHHHhhhhhh
Confidence            9999999999874 3358899999999975  46778999999887653

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.29  E-value=6.1e-11  Score=132.87  Aligned_cols=217  Identities=12%  Similarity=0.123  Sum_probs=141.6

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhcc----CC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEE----EK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~----~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +...++|++..++.|...+.....+    .+ .++++|+||+|||||.+++.+++.+....       ..++.+++..+.
T Consensus       507 L~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~-------~~~~~~d~s~~~  579 (821)
T CHL00095        507 LHKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSE-------DAMIRLDMSEYM  579 (821)
T ss_pred             hcCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCc-------cceEEEEchhcc
Confidence            3456899999999999998765432    12 24688999999999999999999875321       257888887765


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------  268 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------  268 (517)
                      ....+     ..+.+...++.|......|...+.      .....||+|||||.+....++.|+++++....        
T Consensus       580 ~~~~~-----~~l~g~~~gyvg~~~~~~l~~~~~------~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v  648 (821)
T CHL00095        580 EKHTV-----SKLIGSPPGYVGYNEGGQLTEAVR------KKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTI  648 (821)
T ss_pred             ccccH-----HHhcCCCCcccCcCccchHHHHHH------hCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEE
Confidence            54432     112222222333332334555543      34458999999999988888889998876321        


Q ss_pred             CCCcEEEEEEECCCC-----------cc-----------------------hhhcccccccCCCceEEEeCCCCHHHHHH
Q 010136          269 PFSRFILIGIANAID-----------LA-----------------------DRFLPRLQSMNCKPLVVTFRAYSKDQIIR  314 (517)
Q Consensus       269 ~~~~v~lI~ian~~~-----------~~-----------------------~~l~~~l~sr~~~~~~i~f~p~~~~e~~~  314 (517)
                      .-.+.++|+++|.-.           |.                       ..+.|.+.+| + ...|.|.|++.+++..
T Consensus       649 ~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnR-i-d~ii~F~pL~~~~l~~  726 (821)
T CHL00095        649 DFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNR-L-DEIIVFRQLTKNDVWE  726 (821)
T ss_pred             ecCceEEEEeCCcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhcc-C-CeEEEeCCCCHHHHHH
Confidence            235788898887421           10                       0123556666 4 3589999999999999


Q ss_pred             HHHHHHhhh----c----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          315 ILQERLMEL----S----YIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       315 IL~~rl~~~----~----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      |+...+..+    .    .-.+++++++++++......-.+|-.-.+++.-+
T Consensus       727 Iv~~~l~~l~~rl~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~~i  778 (821)
T CHL00095        727 IAEIMLKNLFKRLNEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMRLL  778 (821)
T ss_pred             HHHHHHHHHHHHHHHCCcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHHHH
Confidence            998777532    1    1367899999998853222223554444444433

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

Probab=99.29  E-value=1.4e-11  Score=106.61  Aligned_cols=121  Identities=25%  Similarity=0.347  Sum_probs=78.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ..+.++|+|+||+|||++++.+++.+.......+  ...+++++|....+...++..|+.+++.....  ... ...+.+
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~-~~~l~~   77 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKN--HPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQT-SDELRS   77 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCC--CEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS--HHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccC--CCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCC-HHHHHH
Confidence            4578999999999999999999999876443322  35789999999889999999999999766544  222 232333


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      .+.+...  .....+|+|||+|+|.  ..+.+..|..+......+++++|
T Consensus        78 ~~~~~l~--~~~~~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G  123 (131)
T PF13401_consen   78 LLIDALD--RRRVVLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVG  123 (131)
T ss_dssp             HHHHHHH--HCTEEEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEE
T ss_pred             HHHHHHH--hcCCeEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEE
Confidence            3332221  2333799999999985  35555555544443334444444

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.28  E-value=7.7e-11  Score=120.75  Aligned_cols=226  Identities=14%  Similarity=0.099  Sum_probs=138.7

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      -..++||++.++.+...+.      .+++++|.||||||||++|+.++..+...    +    .|.+++|.-. ++.+++
T Consensus        19 ~~~i~gre~vI~lll~aal------ag~hVLL~GpPGTGKT~LAraLa~~~~~~----~----~F~~~~~~ft-tp~DLf   83 (498)
T PRK13531         19 EKGLYERSHAIRLCLLAAL------SGESVFLLGPPGIAKSLIARRLKFAFQNA----R----AFEYLMTRFS-TPEEVF   83 (498)
T ss_pred             hhhccCcHHHHHHHHHHHc------cCCCEEEECCCChhHHHHHHHHHHHhccc----C----cceeeeeeec-CcHHhc
Confidence            3468999998877766643      46899999999999999999998876421    1    2344444321 234433


Q ss_pred             HHH-HHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcE
Q 010136          203 SKI-LLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRF  273 (517)
Q Consensus       203 ~~i-~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v  273 (517)
                      ..+ ......     .+     .+.. +...   .-...-+||+|||..+....|..|..+++....        -..++
T Consensus        84 G~l~i~~~~~-----~g-----~f~r-~~~G---~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rf  149 (498)
T PRK13531         84 GPLSIQALKD-----EG-----RYQR-LTSG---YLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRL  149 (498)
T ss_pred             CcHHHhhhhh-----cC-----chhh-hcCC---ccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcE
Confidence            221 111100     00     0111 1100   000123999999999988888888888754221        11233


Q ss_pred             EEEEEECCCCcch--hhcccccccCCCceEEEeCCCC-HHHHHHHHHHHHhh----------------------hccCCC
Q 010136          274 ILIGIANAIDLAD--RFLPRLQSMNCKPLVVTFRAYS-KDQIIRILQERLME----------------------LSYIVF  328 (517)
Q Consensus       274 ~lI~ian~~~~~~--~l~~~l~sr~~~~~~i~f~p~~-~~e~~~IL~~rl~~----------------------~~~~~~  328 (517)
                      ++ +++|.  +++  .+.+.+..| | ...+.+++++ .++..++|......                      .....+
T Consensus       150 iv-~ATN~--LPE~g~~leAL~DR-F-liri~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v  224 (498)
T PRK13531        150 LV-TASNE--LPEADSSLEALYDR-M-LIRLWLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITL  224 (498)
T ss_pred             EE-EECCC--CcccCCchHHhHhh-E-EEEEECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeC
Confidence            33 44564  443  345567777 5 4588888886 45667787643210                      112455


Q ss_pred             ChhHHHHHHHHHHHH---h----CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHH
Q 010136          329 QPQALELCARKVAAA---S----GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDH  401 (517)
Q Consensus       329 ~~~ai~~ia~~~~~~---~----Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~  401 (517)
                      ++.+++++.+.+...   .    -..|..+.+++.|-..|...++.                            .|+.+|
T Consensus       225 ~d~v~eyI~~L~~~lr~~r~~~~~SpR~~~~l~~~akA~A~l~GR~----------------------------~V~p~D  276 (498)
T PRK13531        225 PDHVFELIFQLRQQLDALPNAPYVSDRRWKKAIRLLQASAFFSGRD----------------------------AIAPID  276 (498)
T ss_pred             CHHHHHHHHHHHHHHhcCCCCCCcCcHHHHHHHHHHHHHHHHCCCC----------------------------CCCHHH
Confidence            777788888776531   1    35788888888888888888887                            899999


Q ss_pred             HHHHHHHhcc
Q 010136          402 MAVALSNTFK  411 (517)
Q Consensus       402 v~~a~~~~~~  411 (517)
                      |. .+..+..
T Consensus       277 v~-ll~~vL~  285 (498)
T PRK13531        277 LI-LLKDCLW  285 (498)
T ss_pred             HH-HhHHHhc
Confidence            99 5555443

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

Probab=99.28  E-value=4e-11  Score=128.72  Aligned_cols=217  Identities=16%  Similarity=0.165  Sum_probs=154.9

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccC-----CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEE-----KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~-----~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +-..++|+++.+..+.+.+.....+-     +.+++++.||.|+|||-++++++..|....       -..+.++.+.+.
T Consensus       489 L~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e-------~aliR~DMSEy~  561 (786)
T COG0542         489 LKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE-------QALIRIDMSEYM  561 (786)
T ss_pred             HhcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC-------ccceeechHHHH
Confidence            34568999999999999998865432     245899999999999999999999987321       257899998876


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------  268 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------  268 (517)
                      ....+     ..|-+..+++.|......|.+.+.      .+.+.||+||||+...++-.+.|+++++-...        
T Consensus       562 EkHsV-----SrLIGaPPGYVGyeeGG~LTEaVR------r~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~V  630 (786)
T COG0542         562 EKHSV-----SRLIGAPPGYVGYEEGGQLTEAVR------RKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTV  630 (786)
T ss_pred             HHHHH-----HHHhCCCCCCceeccccchhHhhh------cCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEE
Confidence            66553     555566666655554555666664      55678999999999988888999999987322        


Q ss_pred             CCCcEEEEEEECCCC-------------------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh
Q 010136          269 PFSRFILIGIANAID-------------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL  323 (517)
Q Consensus       269 ~~~~v~lI~ian~~~-------------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~  323 (517)
                      .-.+.++|+++|-=.                         +...+.|.+..| + ...|.|.|++.+.+.+|+...+..+
T Consensus       631 dFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNR-i-d~II~F~~L~~~~l~~Iv~~~L~~l  708 (786)
T COG0542         631 DFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNR-I-DEIIPFNPLSKEVLERIVDLQLNRL  708 (786)
T ss_pred             ecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHhh-c-ccEEeccCCCHHHHHHHHHHHHHHH
Confidence            225788899888420                         011123555566 4 3499999999999999988877532


Q ss_pred             c--------cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          324 S--------YIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       324 ~--------~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      .        .-.+++++.++++.+.......+|-...+++.-+
T Consensus       709 ~~~L~~~~i~l~~s~~a~~~l~~~gyd~~~GARpL~R~Iq~~i  751 (786)
T COG0542         709 AKRLAERGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQQEI  751 (786)
T ss_pred             HHHHHhCCceEEECHHHHHHHHHhccCCCcCchHHHHHHHHHH
Confidence            1        1367899999999865444445665555555444

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.28  E-value=7e-11  Score=117.85  Aligned_cols=179  Identities=17%  Similarity=0.181  Sum_probs=111.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC-----CCCCCCCHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK-----KLNGSTSPLQ  223 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~-----~~~~~~~~~~  223 (517)
                      +..++|+||+|+|||++++.+++.+.......+.        .|....+-..+    ...-....     .........+
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~--------~Cg~C~sC~~~----~~g~HPD~~~i~~~~~~~~i~id   89 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGG--------ACGSCKGCQLL----RAGSHPDNFVLEPEEADKTIKVD   89 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCC--------CCCCCHHHHHH----hcCCCCCEEEEeccCCCCCCCHH
Confidence            4568899999999999999999998753211000        12211111111    00000000     0000011144


Q ss_pred             HHHHHHHhhh-ccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEE
Q 010136          224 YLQNLYSQKL-HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVV  302 (517)
Q Consensus       224 ~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i  302 (517)
                      .++++..... ....++..|+||||+|.|....++.|...++.+   ..++.+|.+|+.   ++.+.|.++|| |  +.+
T Consensus        90 ~iR~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEP---p~~~~fiL~t~~---~~~ll~TI~SR-c--~~~  160 (328)
T PRK05707         90 QVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEP---SGDTVLLLISHQ---PSRLLPTIKSR-C--QQQ  160 (328)
T ss_pred             HHHHHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCC---CCCeEEEEEECC---hhhCcHHHHhh-c--eee
Confidence            5555443211 222455678899999999888888888888764   356777777874   67789999999 7  789


Q ss_pred             EeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          303 TFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       303 ~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                      .|.|++.+++.+.|..+..     ..+++....+++   .+.|.+..|+.++..
T Consensus       161 ~~~~~~~~~~~~~L~~~~~-----~~~~~~~~~~l~---la~Gsp~~A~~l~~~  206 (328)
T PRK05707        161 ACPLPSNEESLQWLQQALP-----ESDERERIELLT---LAGGSPLRALQLHEQ  206 (328)
T ss_pred             eCCCcCHHHHHHHHHHhcc-----cCChHHHHHHHH---HcCCCHHHHHHHHCc
Confidence            9999999999999986542     223444444443   478899999887643

>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=99.27  E-value=6.4e-11  Score=103.91  Aligned_cols=147  Identities=17%  Similarity=0.120  Sum_probs=89.8

Q ss_pred             CcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHH
Q 010136          128 CREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILL  207 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~  207 (517)
                      |++.++..+...+.    .....+++|+|+||||||++++.+++.+..    .   ...++++++............+..
T Consensus         2 ~~~~~~~~i~~~~~----~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~----~---~~~v~~~~~~~~~~~~~~~~~~~~   70 (151)
T cd00009           2 GQEEAIEALREALE----LPPPKNLLLYGPPGTGKTTLARAIANELFR----P---GAPFLYLNASDLLEGLVVAELFGH   70 (151)
T ss_pred             chHHHHHHHHHHHh----CCCCCeEEEECCCCCCHHHHHHHHHHHhhc----C---CCCeEEEehhhhhhhhHHHHHhhh
Confidence            56666666655543    345678999999999999999999988752    1   146888988776544332211110


Q ss_pred             HhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC---CCCcEEEEEEECCCCc
Q 010136          208 KLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF---PFSRFILIGIANAIDL  284 (517)
Q Consensus       208 ~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~---~~~~v~lI~ian~~~~  284 (517)
                      .             .......     ......+.+|+|||++.+.......+..++.....   ....+.+|+++|....
T Consensus        71 ~-------------~~~~~~~-----~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~  132 (151)
T cd00009          71 F-------------LVRLLFE-----LAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLL  132 (151)
T ss_pred             h-------------hHhHHHH-----hhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcccc
Confidence            0             0001111     11244568999999999844444445555544322   1357888888886442


Q ss_pred             chhhcccccccCCCceEEEeCC
Q 010136          285 ADRFLPRLQSMNCKPLVVTFRA  306 (517)
Q Consensus       285 ~~~l~~~l~sr~~~~~~i~f~p  306 (517)
                       ..+.+.+.+| +. .++.|+|
T Consensus       133 -~~~~~~~~~r-~~-~~i~~~~  151 (151)
T cd00009         133 -GDLDRALYDR-LD-IRIVIPL  151 (151)
T ss_pred             -CCcChhHHhh-hc-cEeecCC
Confidence             3566777777 53 4676654

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.

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

Probab=99.27  E-value=1.9e-10  Score=119.55  Aligned_cols=184  Identities=20%  Similarity=0.247  Sum_probs=126.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ..+++||+||+|+|||.+++++++++....      ...+.+++|..+....  +..|                .+.+..
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~k~~------~~hv~~v~Cs~l~~~~--~e~i----------------Qk~l~~  485 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYSKDL------IAHVEIVSCSTLDGSS--LEKI----------------QKFLNN  485 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhcccc------ceEEEEEechhccchh--HHHH----------------HHHHHH
Confidence            468999999999999999999999886321      2567889998874332  1111                333455


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC-----c---------hHHHHHhccCCCCCCcEEEEEEECCCCcchhhccccc
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD-----R---------AVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQ  293 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----~---------~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~  293 (517)
                      .|.+.   -...|.||+||++|.|....     |         ..|+++.......+..+.||+..+.   ...+.+.|.
T Consensus       486 vfse~---~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe---~qtl~~~L~  559 (952)
T KOG0735|consen  486 VFSEA---LWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQE---LQTLNPLLV  559 (952)
T ss_pred             HHHHH---HhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechh---hhhcChhhc
Confidence            55532   25678999999999998731     1         2355555554556677899998774   455677777


Q ss_pred             ccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHH
Q 010136          294 SMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEM  365 (517)
Q Consensus       294 sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~  365 (517)
                      +..+...++.++++...+..+||+.-+.... .....+.+++++.+   ..| +++....+..+|+..|..+.
T Consensus       560 s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~-~~~~~~dLd~ls~~---TEGy~~~DL~ifVeRai~~a~ler  628 (952)
T KOG0735|consen  560 SPLLFQIVIALPAPAVTRRKEILTTIFSKNL-SDITMDDLDFLSVK---TEGYLATDLVIFVERAIHEAFLER  628 (952)
T ss_pred             CccceEEEEecCCcchhHHHHHHHHHHHhhh-hhhhhHHHHHHHHh---cCCccchhHHHHHHHHHHHHHHHH
Confidence            7645556899999999999999998876421 23345557777664   344 45665667788887776443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.27  E-value=7.4e-11  Score=118.38  Aligned_cols=197  Identities=17%  Similarity=0.201  Sum_probs=117.5

Q ss_pred             CCCCC-cHHHHHHHHHHHHHhhccCCCCe-EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          124 STIVC-REDEQKKVLEFCKKNLEEEKAGS-LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       124 ~~l~g-Re~e~~~l~~~L~~~l~~~~~~~-lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      +.++| .+..++.+...    +..++.++ ++|+||+|+|||++++.+++.+.......+.        .|....+...+
T Consensus         5 ~~i~~~q~~~~~~L~~~----~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~--------~cg~C~~c~~~   72 (329)
T PRK08058          5 EQLTALQPVVVKMLQNS----IAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE--------PCGTCTNCKRI   72 (329)
T ss_pred             HHHHhhHHHHHHHHHHH----HHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC--------CCCcCHHHHHH
Confidence            34566 55555544444    44455454 5899999999999999999887642110000        01111110100


Q ss_pred             HHHHHHHhCCCC---CCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          202 FSKILLKLQPRK---KLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       202 ~~~i~~~l~~~~---~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                          ...-....   .........+.++.+.... .....+...|+||||+|.+....++.|...++.+   ...+++|.
T Consensus        73 ----~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEP---p~~~~~Il  145 (329)
T PRK08058         73 ----DSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEP---SGGTTAIL  145 (329)
T ss_pred             ----hcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCC---CCCceEEE
Confidence                00000000   0000001133444443321 1112345679999999999877778887777663   45667777


Q ss_pred             EECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          278 IANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       278 ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                      +++.   +.++.+.++|| +  ..+.|.+++.+++.++|...       .++++...+++.    ..|++..|+.++..
T Consensus       146 ~t~~---~~~ll~TIrSR-c--~~i~~~~~~~~~~~~~L~~~-------gi~~~~~~~l~~----~~g~~~~A~~l~~~  207 (329)
T PRK08058        146 LTEN---KHQILPTILSR-C--QVVEFRPLPPESLIQRLQEE-------GISESLATLLAG----LTNSVEEALALSED  207 (329)
T ss_pred             EeCC---hHhCcHHHHhh-c--eeeeCCCCCHHHHHHHHHHc-------CCChHHHHHHHH----HcCCHHHHHHHhcC
Confidence            7773   67888999999 7  79999999999998888642       245555445443    46889999887743

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.24  E-value=3.8e-09  Score=104.71  Aligned_cols=180  Identities=11%  Similarity=0.117  Sum_probs=114.8

Q ss_pred             HHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC--------------CCceEEEEeCCCCCCHHHH
Q 010136          137 LEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL--------------QQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       137 ~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~--------------~~~~~v~vn~~~~~s~~~i  201 (517)
                      ...|...+..++ +..++|+||+|+||+++++.+++.+.+.....+.              .++.+.++....       
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~-------   83 (325)
T PRK06871         11 YQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPID-------   83 (325)
T ss_pred             HHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcccc-------
Confidence            334444455555 4456699999999999999999998753211000              011222221100       


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEEC
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIAN  280 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian  280 (517)
                                  .   ..-..+.++++.... .....++..|+|||++|.|....++.|...++.+   ..++.+|.+++
T Consensus        84 ------------~---~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEP---p~~~~fiL~t~  145 (325)
T PRK06871         84 ------------N---KDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEP---RPNTYFLLQAD  145 (325)
T ss_pred             ------------C---CCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCC---CCCeEEEEEEC
Confidence                        0   001144445443321 2233466789999999999888888888888774   45667777777


Q ss_pred             CCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          281 AIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       281 ~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                      .   ++.+.|.++|| |  +.+.|.|++.+++.+.|.....      .++..+..+++   ...|.+..|+.++..
T Consensus       146 ~---~~~llpTI~SR-C--~~~~~~~~~~~~~~~~L~~~~~------~~~~~~~~~~~---l~~g~p~~A~~~~~~  206 (325)
T PRK06871        146 L---SAALLPTIYSR-C--QTWLIHPPEEQQALDWLQAQSS------AEISEILTALR---INYGRPLLALTFLEQ  206 (325)
T ss_pred             C---hHhCchHHHhh-c--eEEeCCCCCHHHHHHHHHHHhc------cChHHHHHHHH---HcCCCHHHHHHHhhC
Confidence            3   77899999999 7  7999999999999998886532      12222333332   466788888777644

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.24  E-value=1.7e-10  Score=115.16  Aligned_cols=142  Identities=20%  Similarity=0.204  Sum_probs=103.5

Q ss_pred             eEEEEEeCcchhcccCchHHHHHhccCC----------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCC-C
Q 010136          240 MMLIIADELDYLITRDRAVLHDLFMLTT----------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAY-S  308 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~~~~L~~l~~~~~----------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~-~  308 (517)
                      .-+|+|||++.|....|..|.++++...          ....++++|++.|..  ...+.+.+..| |.. .+.+.++ +
T Consensus       132 ~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~--eg~l~~~LldR-f~l-~i~l~~p~~  207 (337)
T TIGR02030       132 RGILYIDEVNLLEDHLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPE--EGELRPQLLDR-FGL-HAEIRTVRD  207 (337)
T ss_pred             CCEEEecChHhCCHHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccc--cCCCCHHHHhh-cce-EEECCCCCC
Confidence            3589999999998888888877775321          123578888877743  22466778888 655 4455444 4


Q ss_pred             HHHHHHHHHHHHhh----------------------------hccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHH
Q 010136          309 KDQIIRILQERLME----------------------------LSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIE  359 (517)
Q Consensus       309 ~~e~~~IL~~rl~~----------------------------~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~  359 (517)
                      .++..+|+..+...                            +....++++++++++..+..... ..|..+.+++.|-.
T Consensus       208 ~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~~~~~I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA  287 (337)
T TIGR02030       208 VELRVEIVERRTEYDADPHAFCEKWQTEQEALQAKIVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKA  287 (337)
T ss_pred             HHHHHHHHHhhhhcccCchhhhhhhhhhhhcCHHHHHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHH
Confidence            47777887763211                            12345788899999987766555 47999999999999


Q ss_pred             HHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          360 ILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       360 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      .|..+++.                            .|+.+||..+..-+....
T Consensus       288 ~Aal~GR~----------------------------~V~~dDv~~~a~~vL~HR  313 (337)
T TIGR02030       288 LAAFEGRT----------------------------EVTVDDIRRVAVLALRHR  313 (337)
T ss_pred             HHHHcCCC----------------------------CCCHHHHHHHHHHHHHHh
Confidence            99999988                            899999999987776554

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.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.24  E-value=2.3e-10  Score=112.30  Aligned_cols=170  Identities=16%  Similarity=0.150  Sum_probs=108.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .++++|.|+||||||++++.++..++          ..++.|+|....++.++...-.-.+..      +.....-....
T Consensus        64 ~~~ilL~G~pGtGKTtla~~lA~~l~----------~~~~rV~~~~~l~~~DliG~~~~~l~~------g~~~~~f~~Gp  127 (327)
T TIGR01650        64 DRRVMVQGYHGTGKSTHIEQIAARLN----------WPCVRVNLDSHVSRIDLVGKDAIVLKD------GKQITEFRDGI  127 (327)
T ss_pred             CCcEEEEeCCCChHHHHHHHHHHHHC----------CCeEEEEecCCCChhhcCCCceeeccC------CcceeEEecCc
Confidence            56899999999999999999999885          368999999988877653221100100      00000000000


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC------C-----CCCCcEEEEEEECCCC-------c--chhh
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT------T-----FPFSRFILIGIANAID-------L--ADRF  288 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~------~-----~~~~~v~lI~ian~~~-------~--~~~l  288 (517)
                      +.    .....+.+|++||+|......+..|..+++..      .     .+...+.||+++|+.+       +  ...+
T Consensus       128 L~----~A~~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l  203 (327)
T TIGR01650       128 LP----WALQHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQI  203 (327)
T ss_pred             ch----hHHhCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecC
Confidence            10    01134578999999999877788888888731      1     1334789999999865       1  2235


Q ss_pred             cccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          289 LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       289 ~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      ......| |. ..+.+.-++.++-.+||..+..+.. ..-+++.++++.+.+.
T Consensus       204 ~~A~lDR-F~-i~~~~~Yp~~e~E~~Il~~~~~~~~-~~~~~~i~~~mV~la~  253 (327)
T TIGR01650       204 NQAQMDR-WS-IVTTLNYLEHDNEAAIVLAKAKGFD-DTEGKDIINAMVRVAD  253 (327)
T ss_pred             CHHHHhh-ee-eEeeCCCCCHHHHHHHHHhhccCCC-ccchHHHHHHHHHHHH
Confidence            6777788 52 2567888899999999987654322 1223456666665443

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.

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.23  E-value=1.3e-10  Score=118.01  Aligned_cols=216  Identities=16%  Similarity=0.190  Sum_probs=121.7

Q ss_pred             hhcCcCCCCC---CCCCcHHHHHHHHHHHHHhh--c-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEE
Q 010136          115 EALHVSTAPS---TIVCREDEQKKVLEFCKKNL--E-EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVF  188 (517)
Q Consensus       115 ~~l~~~~~p~---~l~gRe~e~~~l~~~L~~~l--~-~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v  188 (517)
                      +.|-+.|.|.   +|.-+.+.+.++..||..+.  . .-+...+||+||+||||||+++.++++++-...         -
T Consensus        70 elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~---------E  140 (634)
T KOG1970|consen   70 ELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLI---------E  140 (634)
T ss_pred             chhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhCceee---------e
Confidence            3455566664   67888888999999998322  2 223557999999999999999999999863222         2


Q ss_pred             EEeCCCCCCHHHH------HH-HHHHHhCCCCCCCCCCCHHHHHHHHHHh---------hhccCCCceEEEEEeCcchhc
Q 010136          189 SINCTSLTNTSEI------FS-KILLKLQPRKKLNGSTSPLQYLQNLYSQ---------KLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       189 ~vn~~~~~s~~~i------~~-~i~~~l~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      +.|...+..+..+      .. ....+             ...++.++..         ........+.+|+|||+....
T Consensus       141 w~Npi~~~~~~~~h~~t~~~~~~~~s~-------------L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~  207 (634)
T KOG1970|consen  141 WSNPINLKEPENLHNETSFLMFPYQSQ-------------LAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQF  207 (634)
T ss_pred             ecCCccccccccccccchhcccchhhH-------------HHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhh
Confidence            3333332221110      00 00000             1111111111         011123456799999999887


Q ss_pred             cc-CchHHHHHhccC-CCCCCcEEEEEEECCCC----cchhhc-ccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh--
Q 010136          253 TR-DRAVLHDLFMLT-TFPFSRFILIGIANAID----LADRFL-PRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL--  323 (517)
Q Consensus       253 ~~-~~~~L~~l~~~~-~~~~~~v~lI~ian~~~----~~~~l~-~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~--  323 (517)
                      .. +.+.+..+++.. .....+ +|+++|+...    -.+++. ..++-. .+...|.|.|....-+.+.|.......  
T Consensus       208 ~~d~~~~f~evL~~y~s~g~~P-lIf~iTd~~~~g~nnq~rlf~~d~q~~-~ri~~IsFNPIa~T~MKK~L~ric~~e~~  285 (634)
T KOG1970|consen  208 YRDDSETFREVLRLYVSIGRCP-LIFIITDSLSNGNNNQDRLFPKDIQEE-PRISNISFNPIAPTIMKKFLKRICRIEAN  285 (634)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCc-EEEEEeccccCCCcchhhhchhhhhhc-cCcceEeecCCcHHHHHHHHHHHHHHhcc
Confidence            66 334444444432 222334 3444455431    112221 112222 345799999999999999888655321  


Q ss_pred             --ccCCCC-hhHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 010136          324 --SYIVFQ-PQALELCARKVAAASGDMRKALSVCRSA  357 (517)
Q Consensus       324 --~~~~~~-~~ai~~ia~~~~~~~Gd~R~al~ll~~A  357 (517)
                        ....+. ...++.++.   +++||+|.||+.|+-.
T Consensus       286 ~~s~~k~~~~~~v~~i~~---~s~GDIRsAInsLQls  319 (634)
T KOG1970|consen  286 KKSGIKVPDTAEVELICQ---GSGGDIRSAINSLQLS  319 (634)
T ss_pred             cccCCcCchhHHHHHHHH---hcCccHHHHHhHhhhh
Confidence              111122 233444443   6999999999999875

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=99.23  E-value=4e-10  Score=104.67  Aligned_cols=214  Identities=19%  Similarity=0.194  Sum_probs=139.4

Q ss_pred             HHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC
Q 010136          137 LEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN  216 (517)
Q Consensus       137 ~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~  216 (517)
                      ...+..++. ...+.+.++|+-|+|||.+.|++...+.+.       ...++++..... +...+...++..+.......
T Consensus        40 l~~l~~~i~-d~qg~~~vtGevGsGKTv~~Ral~~s~~~d-------~~~~v~i~~~~~-s~~~~~~ai~~~l~~~p~~~  110 (269)
T COG3267          40 LLMLHAAIA-DGQGILAVTGEVGSGKTVLRRALLASLNED-------QVAVVVIDKPTL-SDATLLEAIVADLESQPKVN  110 (269)
T ss_pred             HHHHHHHHh-cCCceEEEEecCCCchhHHHHHHHHhcCCC-------ceEEEEecCcch-hHHHHHHHHHHHhccCccch
Confidence            333444443 345688999999999999999665554421       134577777665 45667777888886632222


Q ss_pred             CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhh----cccc
Q 010136          217 GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRF----LPRL  292 (517)
Q Consensus       217 ~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l----~~~l  292 (517)
                      . ....+.+.+.+... ......+.++++||++.|.....+.|.-|.+........+.++.+.... +..++    ...+
T Consensus       111 ~-~~~~e~~~~~L~al-~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~-L~~~lr~~~l~e~  187 (269)
T COG3267         111 V-NAVLEQIDRELAAL-VKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPK-LRPRLRLPVLREL  187 (269)
T ss_pred             h-HHHHHHHHHHHHHH-HHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcc-cchhhchHHHHhh
Confidence            1 11122333333221 2245666999999999998877788887777755555554444333311 11111    1222


Q ss_pred             cccCCCceEEEeCCCCHHHHHHHHHHHHh--hhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          293 QSMNCKPLVVTFRAYSKDQIIRILQERLM--ELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       293 ~sr~~~~~~i~f~p~~~~e~~~IL~~rl~--~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                      .-| +.. +|..+|++.++...+|+.+++  +.+...|+++++..++.   +..|-+|..-++|..|...|...+..
T Consensus       188 ~~R-~~i-r~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~---~sqg~P~lin~~~~~Al~~a~~a~~~  259 (269)
T COG3267         188 EQR-IDI-RIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHE---ASQGIPRLINNLATLALDAAYSAGED  259 (269)
T ss_pred             hhe-EEE-EEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHH---HhccchHHHHHHHHHHHHHHHHcCCC
Confidence            333 433 388999999999999999998  45668999999999987   57777777778889999888776654

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.21  E-value=3.7e-10  Score=112.60  Aligned_cols=250  Identities=15%  Similarity=0.165  Sum_probs=152.0

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      |-...++|.++....|    ...+.....++++|.|++|||||++++.+.+.+.....-.+-   .|   +|... .+..
T Consensus        14 ~pf~~ivGq~~~k~al----~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~---pf---~~~p~-~p~~   82 (350)
T CHL00081         14 FPFTAIVGQEEMKLAL----ILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDD---PF---NSHPS-DPEL   82 (350)
T ss_pred             CCHHHHhChHHHHHHH----HHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCC---CC---CCCCC-Chhh
Confidence            3345789998754444    333444567889999999999999999998887642110000   11   22221 1222


Q ss_pred             HHHHHHHHhCCCC------------CCCCCCCHHHH------HHHHHHhhhc------cCCCceEEEEEeCcchhcccCc
Q 010136          201 IFSKILLKLQPRK------------KLNGSTSPLQY------LQNLYSQKLH------SSVMKMMLIIADELDYLITRDR  256 (517)
Q Consensus       201 i~~~i~~~l~~~~------------~~~~~~~~~~~------l~~~~~~~~~------~~~~~~~vI~iDEiD~L~~~~~  256 (517)
                      ....+.....+..            ..+.+.. .+.      +...|.....      -.....-+|+|||++.+....|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~t-ed~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q  161 (350)
T CHL00081         83 MSDEVREAIQNGETIETEKIKIPMVDLPLGAT-EDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLV  161 (350)
T ss_pred             hchhhhhhhcccccccceeccccceecCCCCc-hhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHH
Confidence            2112222111100            0001111 111      2222221100      0122235899999999998888


Q ss_pred             hHHHHHhccCC----------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCC-HHHHHHHHHHHHh----
Q 010136          257 AVLHDLFMLTT----------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYS-KDQIIRILQERLM----  321 (517)
Q Consensus       257 ~~L~~l~~~~~----------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~-~~e~~~IL~~rl~----  321 (517)
                      ..|...++...          ....++++|++.|..+  ..+.+.+..| |.. .+.+..++ .++..+|+..+..    
T Consensus       162 ~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~e--g~l~~~LldR-f~l-~i~l~~~~~~~~e~~il~~~~~~~~~  237 (350)
T CHL00081        162 DILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEE--GELRPQLLDR-FGM-HAEIRTVKDPELRVKIVEQRTSFDKN  237 (350)
T ss_pred             HHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCccc--CCCCHHHHHH-hCc-eeecCCCCChHHHHHHHHhhhccccC
Confidence            88877765411          1235788888777532  2466777777 544 66666665 5777777775432    


Q ss_pred             ------------------------hhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 010136          322 ------------------------ELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSAS  376 (517)
Q Consensus       322 ------------------------~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~  376 (517)
                                              .+....++++.++++++.+....- ..|-.+.+++.|-.+|..+++.         
T Consensus       238 ~~~~~~~~~~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~---------  308 (350)
T CHL00081        238 PQEFREKYEESQEELRSKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRT---------  308 (350)
T ss_pred             hhhhhhhhccccccCHHHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCC---------
Confidence                                    012356788889999987765543 5899999999999999999988         


Q ss_pred             ccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          377 AEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       377 ~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                                         .|+.+||..+..-+...+.
T Consensus       309 -------------------~V~pdDv~~~a~~vL~HR~  327 (350)
T CHL00081        309 -------------------EVTPKDIFKVITLCLRHRL  327 (350)
T ss_pred             -------------------CCCHHHHHHHHHHHHHHhC
Confidence                               8999999999987776553

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.21  E-value=3.9e-10  Score=111.55  Aligned_cols=186  Identities=16%  Similarity=0.184  Sum_probs=115.6

Q ss_pred             HHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhc-----------CCCCceEEEEeC-CCCCCHHHHH
Q 010136          136 VLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEA-----------GLQQPEVFSINC-TSLTNTSEIF  202 (517)
Q Consensus       136 l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~-----------~~~~~~~v~vn~-~~~~s~~~i~  202 (517)
                      ....|...+..++.+ .++|+||+|+||++++..+++.+.+.....           ....+.+.++.. ......    
T Consensus        12 ~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~----   87 (319)
T PRK08769         12 AYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGD----   87 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccc----
Confidence            344445555555544 588999999999999999999886521000           000112222211 000000    


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                                 +. ...-..+.++++.... .....++..|+|||++|.|.....+.|...++.+   ..++.+|.+++.
T Consensus        88 -----------k~-~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP---p~~~~fiL~~~~  152 (319)
T PRK08769         88 -----------KL-RTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEP---SPGRYLWLISAQ  152 (319)
T ss_pred             -----------cc-cccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCC---CCCCeEEEEECC
Confidence                       00 0011244555554421 1222346689999999999887788888888774   346666666773


Q ss_pred             CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          282 IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       282 ~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                         ++++.|.++|| |  +.+.|.+++.+++.+.|...       .+++.....++.   .+.|.+..|+.++..
T Consensus       153 ---~~~lLpTIrSR-C--q~i~~~~~~~~~~~~~L~~~-------~~~~~~a~~~~~---l~~G~p~~A~~~~~~  211 (319)
T PRK08769        153 ---PARLPATIRSR-C--QRLEFKLPPAHEALAWLLAQ-------GVSERAAQEALD---AARGHPGLAAQWLRE  211 (319)
T ss_pred             ---hhhCchHHHhh-h--eEeeCCCcCHHHHHHHHHHc-------CCChHHHHHHHH---HcCCCHHHHHHHhcC
Confidence               77889999999 8  79999999999999888742       233333333333   477888888887743

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.21  E-value=4.7e-10  Score=110.86  Aligned_cols=204  Identities=18%  Similarity=0.185  Sum_probs=117.3

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLK  208 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~  208 (517)
                      ||+++++|.+.|...-  .....+.|+|++|+|||++|..+++...   ....+.  .++++++....+...++..|+.+
T Consensus         1 re~~~~~l~~~L~~~~--~~~~~v~I~G~~G~GKT~LA~~~~~~~~---~~~~f~--~v~wv~~~~~~~~~~~~~~i~~~   73 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS--NEVRVVAIVGMGGIGKTTLARQVARDLR---IKNRFD--GVIWVSLSKNPSLEQLLEQILRQ   73 (287)
T ss_dssp             -HHHHHHHHHHHHTTT--TSSEEEEEEESTTSSHHHHHHHHHCHHH---HCCCCT--EEEEEEEES-SCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhCCC--CCeEEEEEEcCCcCCcceeeeecccccc---cccccc--ccccccccccccccccccccccc
Confidence            7899999999988743  5677899999999999999999987743   112222  46788888777778999999999


Q ss_pred             hCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchh
Q 010136          209 LQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADR  287 (517)
Q Consensus       209 l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~  287 (517)
                      +....... .... ...+...+.+..   ..++++||||+++...     .+..+.........+..+|.+|....    
T Consensus        74 l~~~~~~~~~~~~-~~~~~~~l~~~L---~~~~~LlVlDdv~~~~-----~~~~l~~~~~~~~~~~kilvTTR~~~----  140 (287)
T PF00931_consen   74 LGEPDSSISDPKD-IEELQDQLRELL---KDKRCLLVLDDVWDEE-----DLEELREPLPSFSSGSKILVTTRDRS----  140 (287)
T ss_dssp             HTCC-STSSCCSS-HHHHHHHHHHHH---CCTSEEEEEEEE-SHH-----HH-------HCHHSS-EEEEEESCGG----
T ss_pred             ccccccccccccc-cccccccchhhh---ccccceeeeeeecccc-----cccccccccccccccccccccccccc----
Confidence            98764322 2222 222333333221   2337999999998764     23222221111112344555566422    


Q ss_pred             hcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 010136          288 FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSA  357 (517)
Q Consensus       288 l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A  357 (517)
                      +......   ....+.+.+++.++..+++...+....  ..+...++..++.+....|....|+.++-..
T Consensus       141 v~~~~~~---~~~~~~l~~L~~~ea~~L~~~~~~~~~--~~~~~~~~~~~~~i~~~c~glPLal~~~a~~  205 (287)
T PF00931_consen  141 VAGSLGG---TDKVIELEPLSEEEALELFKKRAGRKE--SESPEDLEDLAKEIVEKCGGLPLALKLIASY  205 (287)
T ss_dssp             GGTTHHS---CEEEEECSS--HHHHHHHHHHHHTSHS------TTSCTHHHHHHHHTTT-HHHHHHHHHH
T ss_pred             ccccccc---ccccccccccccccccccccccccccc--ccccccccccccccccccccccccccccccc
Confidence            2122111   136899999999999999998875322  1111112223333334677788888777443

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.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.20  E-value=7e-10  Score=104.18  Aligned_cols=135  Identities=19%  Similarity=0.216  Sum_probs=97.1

Q ss_pred             CceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCC--------C--cchhhcccccccCCCceEEEeCCC
Q 010136          238 MKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI--------D--LADRFLPRLQSMNCKPLVVTFRAY  307 (517)
Q Consensus       238 ~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~--------~--~~~~l~~~l~sr~~~~~~i~f~p~  307 (517)
                      --|-||||||++.|.-..-..|+..++.+   -+++ +|+++|.-        +  -+.-+.+.+..| +  ..|.-.+|
T Consensus       295 lvPGVLFIDEVhMLDiEcFTyL~kalES~---iaPi-vifAsNrG~~~irGt~d~~sPhGip~dllDR-l--~Iirt~~y  367 (456)
T KOG1942|consen  295 LVPGVLFIDEVHMLDIECFTYLHKALESP---IAPI-VIFASNRGMCTIRGTEDILSPHGIPPDLLDR-L--LIIRTLPY  367 (456)
T ss_pred             hcCcceEeeehhhhhhHHHHHHHHHhcCC---CCce-EEEecCCcceeecCCcCCCCCCCCCHHHhhh-e--eEEeeccC
Confidence            34779999999999655555566666543   2333 45556642        1  222344566666 4  47888999


Q ss_pred             CHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhh
Q 010136          308 SKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAA  387 (517)
Q Consensus       308 ~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  387 (517)
                      +.+++.+|++.|.+. +.-.++++++.++++.  ..+..+|.++.++--|.-+|...++.                    
T Consensus       368 ~~~e~r~Ii~~Ra~~-E~l~~~e~a~~~l~~~--gt~tsLRy~vqLl~p~~~~ak~~g~~--------------------  424 (456)
T KOG1942|consen  368 DEEEIRQIIKIRAQV-EGLQVEEEALDLLAEI--GTSTSLRYAVQLLTPASILAKTNGRK--------------------  424 (456)
T ss_pred             CHHHHHHHHHHHHhh-hcceecHHHHHHHHhh--ccchhHHHHHHhcCHHHHHHHHcCCc--------------------
Confidence            999999999998862 1237899999999874  45668999999999988888888876                    


Q ss_pred             hhhhccCccccHHHHHHHHHHhc
Q 010136          388 SAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       388 ~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                              .|..+||.++..-..
T Consensus       425 --------~i~v~dvee~~~Lf~  439 (456)
T KOG1942|consen  425 --------EISVEDVEEVTELFL  439 (456)
T ss_pred             --------eeecccHHHHHHHHH
Confidence                    688888887765443

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.20  E-value=8.3e-11  Score=117.79  Aligned_cols=211  Identities=18%  Similarity=0.159  Sum_probs=136.1

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      ++|+...++.+.+.+.....  ...+++|+|++||||+++|+++-.....       ..-.|+.|||..... ..+-   
T Consensus         1 liG~S~~m~~~~~~~~~~a~--~~~pVLI~GE~GtGK~~lAr~iH~~s~r-------~~~pfv~vnc~~~~~-~~l~---   67 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAP--LDRPVLIIGERGTGKELIAARLHYLSKR-------WQGPLVKLNCAALSE-NLLD---   67 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhC--CCCCEEEECCCCChHHHHHHHHHHhcCc-------cCCCeEEEeCCCCCh-HHHH---
Confidence            46778888888888888754  5678999999999999999998654321       113699999998642 2221   


Q ss_pred             HHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEEEEE
Q 010136          206 LLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFILIG  277 (517)
Q Consensus       206 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~lI~  277 (517)
                       ..+.+......... ...-..+|.      ....-+||||||+.|....|..|..+++...        .....+-+|+
T Consensus        68 -~~lfG~~~g~~~ga-~~~~~G~~~------~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~  139 (329)
T TIGR02974        68 -SELFGHEAGAFTGA-QKRHQGRFE------RADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVC  139 (329)
T ss_pred             -HHHhccccccccCc-ccccCCchh------hCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEE
Confidence             22222221110000 000011122      1224579999999998888887777775422        1124677888


Q ss_pred             EECCCCcc-----hhhcccccccCCCceEEEeCCCC--HHHHHHHHHHHHhhh------cc-CCCChhHHHHHHHHHHHH
Q 010136          278 IANAIDLA-----DRFLPRLQSMNCKPLVVTFRAYS--KDQIIRILQERLMEL------SY-IVFQPQALELCARKVAAA  343 (517)
Q Consensus       278 ian~~~~~-----~~l~~~l~sr~~~~~~i~f~p~~--~~e~~~IL~~rl~~~------~~-~~~~~~ai~~ia~~~~~~  343 (517)
                      +++. ++.     ..+.+.+..| +....|.+||+.  .+++..++...+..+      .. ..+++++++.+..+  ..
T Consensus       140 at~~-~l~~~~~~g~fr~dL~~r-l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~~y--~W  215 (329)
T TIGR02974       140 ATNA-DLPALAAEGRFRADLLDR-LAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLLEY--HW  215 (329)
T ss_pred             echh-hHHHHhhcCchHHHHHHH-hcchhcCCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHhC--CC
Confidence            7763 221     1234555555 555689999997  577777776655421      22 36899999999874  46


Q ss_pred             hCCHHHHHHHHHHHHHHH
Q 010136          344 SGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~a  361 (517)
                      .|++|..-+++++|+..+
T Consensus       216 PGNvrEL~n~i~~~~~~~  233 (329)
T TIGR02974       216 PGNVRELKNVVERSVYRH  233 (329)
T ss_pred             CchHHHHHHHHHHHHHhC
Confidence            899999999998888654

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

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.18  E-value=9.8e-10  Score=109.97  Aligned_cols=180  Identities=13%  Similarity=0.160  Sum_probs=116.6

Q ss_pred             HHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC--------------CCceEEEEeCCCCCCHHHHH
Q 010136          138 EFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL--------------QQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       138 ~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~--------------~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +.|...+..++ +..++|+||+|+||++++..+++.+.+.....+.              .++.+.++.....       
T Consensus        12 ~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~-------   84 (334)
T PRK07993         12 EQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKG-------   84 (334)
T ss_pred             HHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccc-------
Confidence            33444444444 4457799999999999999999998653211100              0112222211000       


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                                   .... ..+.++++.... .....+...|+|||++|.|.....+.|..+++.+   ..+.++|.+++ 
T Consensus        85 -------------~~~I-~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP---p~~t~fiL~t~-  146 (334)
T PRK07993         85 -------------KSSL-GVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEP---PENTWFFLACR-  146 (334)
T ss_pred             -------------cccC-CHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCC---CCCeEEEEEEC-
Confidence                         0001 134444443321 2233466789999999999888888888888774   45677777777 


Q ss_pred             CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          282 IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       282 ~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                        -++++.|.++|| |  +.+.|++++.+++.+.|..+.      .++++....+++   .+.|++..|+.++..
T Consensus       147 --~~~~lLpTIrSR-C--q~~~~~~~~~~~~~~~L~~~~------~~~~~~a~~~~~---la~G~~~~Al~l~~~  207 (334)
T PRK07993        147 --EPARLLATLRSR-C--RLHYLAPPPEQYALTWLSREV------TMSQDALLAALR---LSAGAPGAALALLQP  207 (334)
T ss_pred             --ChhhChHHHHhc-c--ccccCCCCCHHHHHHHHHHcc------CCCHHHHHHHHH---HcCCCHHHHHHHhcC
Confidence              378899999999 7  689999999999998887532      244554444444   478899999988743

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.18  E-value=3.9e-10  Score=122.65  Aligned_cols=142  Identities=18%  Similarity=0.212  Sum_probs=101.0

Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCC----------CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCC-CH
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTT----------FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAY-SK  309 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~----------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~-~~  309 (517)
                      -|||||||+.|....|+.|..+++...          ....++.||+++|..+  ..+.+.+.+| |.. .|.+.+. +.
T Consensus       128 GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~e--g~l~~~L~dR-~~l-~i~v~~~~~~  203 (633)
T TIGR02442       128 GILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEE--GDLRPQLLDR-FGL-CVDVAAPRDP  203 (633)
T ss_pred             CeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCC--CCCCHHHHhh-cce-EEEccCCCch
Confidence            499999999999888888888876421          1125789999888532  2356677787 644 4445443 45


Q ss_pred             HHHHHHHHHHHh----------------------------hhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHH
Q 010136          310 DQIIRILQERLM----------------------------ELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEI  360 (517)
Q Consensus       310 ~e~~~IL~~rl~----------------------------~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~  360 (517)
                      ++..+++..++.                            .+....++++++++++..+....- ..|..+.+++.|..+
T Consensus       204 ~~~~~il~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ar~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~  283 (633)
T TIGR02442       204 EERVEIIRRRLAFDADPEAFAARWAAEQEELRNRIARARSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARAL  283 (633)
T ss_pred             HHHHHHHHHHHhhccCcHHHHHHhhhhHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Confidence            665666654321                            011246788889999887765544 489999999999999


Q ss_pred             HHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          361 LEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       361 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                      |..+++.                            .|+.+||..|+.-+.....
T Consensus       284 AaL~gr~----------------------------~V~~~Dv~~A~~lvL~hR~  309 (633)
T TIGR02442       284 AALDGRR----------------------------RVTAEDVREAAELVLPHRR  309 (633)
T ss_pred             HHHcCCC----------------------------cCCHHHHHHHHHHHhhhhc
Confidence            9988887                            8999999999988775543

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.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.17  E-value=9e-10  Score=110.94  Aligned_cols=163  Identities=18%  Similarity=0.209  Sum_probs=104.9

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      ++|+++.+..+...+.      .+++++|.|+||||||++++.+++.++          ..++.|+|.....+.+++...
T Consensus        26 ~~g~~~~~~~~l~a~~------~~~~vll~G~PG~gKT~la~~lA~~l~----------~~~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          26 VVGDEEVIELALLALL------AGGHVLLEGPPGVGKTLLARALARALG----------LPFVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeccHHHHHHHHHHHH------cCCCEEEECCCCccHHHHHHHHHHHhC----------CCeEEEecCCCCCHHHhcCch
Confidence            6777777665555433      368999999999999999999999876          369999999998888864332


Q ss_pred             HHH-h---CCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC---------CCCCCc
Q 010136          206 LLK-L---QPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT---------TFPFSR  272 (517)
Q Consensus       206 ~~~-l---~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~---------~~~~~~  272 (517)
                      .-. .   ........+.        +|.      ... .|+++|||+......|.+|+.+++..         ......
T Consensus        90 ~~~~~~~~~~~~~~~~gp--------l~~------~~~-~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~  154 (329)
T COG0714          90 AYAALLLEPGEFRFVPGP--------LFA------AVR-VILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPP  154 (329)
T ss_pred             hHhhhhccCCeEEEecCC--------ccc------ccc-eEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCC
Confidence            211 1   0000000000        011      111 59999999999988899999988761         112356


Q ss_pred             EEEEEEECCCCcch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh
Q 010136          273 FILIGIANAIDLAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       273 v~lI~ian~~~~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                      +.+|+++|..+...  .+...+.+| |. -.+.+..+..++...++..+..
T Consensus       155 f~viaT~Np~e~~g~~~l~eA~ldR-f~-~~~~v~yp~~~~e~~~i~~~~~  203 (329)
T COG0714         155 FIVIATQNPGEYEGTYPLPEALLDR-FL-LRIYVDYPDSEEEERIILARVG  203 (329)
T ss_pred             CEEEEccCccccCCCcCCCHHHHhh-EE-EEEecCCCCchHHHHHHHHhCc
Confidence            88888889654322  245677777 52 2556665545555555544443

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.16  E-value=4.8e-10  Score=120.63  Aligned_cols=215  Identities=13%  Similarity=0.084  Sum_probs=139.3

Q ss_pred             cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH--HHHhCCCCCCCCCCCHHH
Q 010136          146 EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI--LLKLQPRKKLNGSTSPLQ  223 (517)
Q Consensus       146 ~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i--~~~l~~~~~~~~~~~~~~  223 (517)
                      +...++++|.|+||||||++++.+...+...        ..|+.+++.  .+...++..+  ...+.....         
T Consensus        13 ~p~~g~vLl~G~~GtgKs~lar~l~~~~~~~--------~pfv~i~~~--~t~d~L~G~idl~~~~~~g~~---------   73 (589)
T TIGR02031        13 DPSLGGVAIRARAGTGKTALARALAEILPPI--------MPFVELPLG--VTEDRLIGGIDVEESLAGGQR---------   73 (589)
T ss_pred             CCCcceEEEEcCCCcHHHHHHHHHHHhCCcC--------CCeEecCcc--cchhhcccchhhhhhhhcCcc---------
Confidence            3457899999999999999999998765421        136666642  1223322221  111110000         


Q ss_pred             HHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC----------CCCCcEEEEEEECCCCcchhhccccc
Q 010136          224 YLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT----------FPFSRFILIGIANAIDLADRFLPRLQ  293 (517)
Q Consensus       224 ~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~----------~~~~~v~lI~ian~~~~~~~l~~~l~  293 (517)
                          .|..... .....-+||||||+.+....|..|..+++...          .....+.||+++|..+....+.+.+.
T Consensus        74 ----~~~~G~L-~~A~~GvL~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~Ll  148 (589)
T TIGR02031        74 ----VTQPGLL-DEAPRGVLYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLL  148 (589)
T ss_pred             ----cCCCCCe-eeCCCCcEeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHH
Confidence                0100001 01223589999999999888888888876432          01257889998886542245677788


Q ss_pred             ccCCCceEEEeCCCCHHHHHHHHHHHHh----------------------hhccCCCChhHHHHHHHHHHHHhCC-HHHH
Q 010136          294 SMNCKPLVVTFRAYSKDQIIRILQERLM----------------------ELSYIVFQPQALELCARKVAAASGD-MRKA  350 (517)
Q Consensus       294 sr~~~~~~i~f~p~~~~e~~~IL~~rl~----------------------~~~~~~~~~~ai~~ia~~~~~~~Gd-~R~a  350 (517)
                      .| |........+.+.++..+|+...+.                      .+....++++++++++..+.....+ .|..
T Consensus       149 dR-f~l~v~~~~~~~~~er~eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~  227 (589)
T TIGR02031       149 DR-LALHVSLEDVASQDLRVEIVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRAD  227 (589)
T ss_pred             Hh-ccCeeecCCCCCHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHH
Confidence            88 6553334444466666777765431                      1123567889999998877655544 8999


Q ss_pred             HHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          351 LSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       351 l~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      +.+++.|...|..+++.                            .|+.+||..|+.-+....
T Consensus       228 i~~~r~ArA~Aal~gr~----------------------------~V~~~Dv~~a~~lvl~hR  262 (589)
T TIGR02031       228 LFAVRAAKAHAALHGRT----------------------------EVTEEDLKLAVELVLLPR  262 (589)
T ss_pred             HHHHHHHHHHHHHhCCC----------------------------CCCHHHHHHHHHHHhhhh
Confidence            99999999999998887                            899999999998776544

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.

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

Probab=99.16  E-value=8.4e-11  Score=108.09  Aligned_cols=134  Identities=19%  Similarity=0.275  Sum_probs=70.1

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-H----HH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN-T----SE  200 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s-~----~~  200 (517)
                      ++||+++++++...+. ......+.+++|+|++|+|||++++.+...+....       ..+++++|..... +    ..
T Consensus         2 fvgR~~e~~~l~~~l~-~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~   73 (185)
T PF13191_consen    2 FVGREEEIERLRDLLD-AAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERG-------GYVISINCDDSERNPYSPFRS   73 (185)
T ss_dssp             -TT-HHHHHHHHHTTG-GTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT---------EEEEEEETTTS-HHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH-HHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcC-------CEEEEEEEeccccchhhHHHH
Confidence            7999999999999998 66777789999999999999999999998887641       1267777766521 3    33


Q ss_pred             HHHHHHHHhCCCCCC--------------------------------CCCCCHHHHHH----HHHHhh--hccCCCceEE
Q 010136          201 IFSKILLKLQPRKKL--------------------------------NGSTSPLQYLQ----NLYSQK--LHSSVMKMML  242 (517)
Q Consensus       201 i~~~i~~~l~~~~~~--------------------------------~~~~~~~~~l~----~~~~~~--~~~~~~~~~v  242 (517)
                      ++..+..++......                                .........+.    ..+...  ......++.+
T Consensus        74 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~v  153 (185)
T PF13191_consen   74 ALRQLIDQLLDQSQATTRSPLREKLAASLDDDAADLLVLLPDLDRLEAASALDPDSLEDRLEELLREILRELAARRKPLV  153 (185)
T ss_dssp             HHHHHS------------------------------------------SS---HHHHH----HHHHHHHTTS-SE---EE
T ss_pred             HHHHHHHHhhccccccccccccccccccccccccccccccccccccccccCCCHHHHHhHHHHHHHHHHHHHHhCCCeEE
Confidence            344443333221100                                00000011111    222221  1222344699


Q ss_pred             EEEeCcchhcccCchHHHHHhccCC
Q 010136          243 IIADELDYLITRDRAVLHDLFMLTT  267 (517)
Q Consensus       243 I~iDEiD~L~~~~~~~L~~l~~~~~  267 (517)
                      |+||++|.+....+..|..+++...
T Consensus       154 lviDd~d~~~~~~~~~l~~l~~~~~  178 (185)
T PF13191_consen  154 LVIDDLDWADPASLDLLRALARRLQ  178 (185)
T ss_dssp             EEEETTTHHHTTHHHHHHH------
T ss_pred             EEEeCCCCCCcHHHHHHHhcccccc
Confidence            9999999998777788888877643

>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=99.14  E-value=6.8e-10  Score=99.69  Aligned_cols=143  Identities=22%  Similarity=0.278  Sum_probs=87.5

Q ss_pred             HHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC-------------CCCceEEEEeCCCCCCHHHH
Q 010136          136 VLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG-------------LQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       136 l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~-------------~~~~~~v~vn~~~~~s~~~i  201 (517)
                      +.+.|...+..+..+ .++|+||+|+||++++..+++.+........             .....+.+++......    
T Consensus         5 ~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~----   80 (162)
T PF13177_consen    5 IIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK----   80 (162)
T ss_dssp             HHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS----
T ss_pred             HHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc----
Confidence            444455555555544 5799999999999999999999875432210             1112444444333200    


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEEC
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIAN  280 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian  280 (517)
                                       ....+.++++.... .........|++|||+|.|....+++|...++.+   ..++.+|.+++
T Consensus        81 -----------------~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEep---p~~~~fiL~t~  140 (162)
T PF13177_consen   81 -----------------SIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEP---PENTYFILITN  140 (162)
T ss_dssp             -----------------SBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHST---TTTEEEEEEES
T ss_pred             -----------------hhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCC---CCCEEEEEEEC
Confidence                             01134444444321 1222346789999999999988899999888875   45777777788


Q ss_pred             CCCcchhhcccccccCCCceEEEeCCCC
Q 010136          281 AIDLADRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       281 ~~~~~~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                         -++.+.+.++|| |  ..+.|+|++
T Consensus       141 ---~~~~il~TI~SR-c--~~i~~~~ls  162 (162)
T PF13177_consen  141 ---NPSKILPTIRSR-C--QVIRFRPLS  162 (162)
T ss_dssp             ----GGGS-HHHHTT-S--EEEEE----
T ss_pred             ---ChHHChHHHHhh-c--eEEecCCCC
Confidence               478899999999 7  789998864

...

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.13  E-value=3.8e-09  Score=113.93  Aligned_cols=139  Identities=17%  Similarity=0.150  Sum_probs=93.0

Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCC------------------CCCCcEEEEEEECCCCcchhhcccccccCCCc--e
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTT------------------FPFSRFILIGIANAIDLADRFLPRLQSMNCKP--L  300 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~------------------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~--~  300 (517)
                      -+|+|||++.|....|..|..+++...                  .....+.+|+++|.. ....+++.+.+| |..  -
T Consensus       219 GtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~-~l~~l~~~l~~r-f~~y~v  296 (608)
T TIGR00764       219 GVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLD-DLEGMHPALRSR-IRGYGY  296 (608)
T ss_pred             CEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHH-HHhhcCHHHHHH-hcCCeE
Confidence            589999999998777777777664311                  112467888888743 234578888888 641  2


Q ss_pred             EEEeCC---CCHHHHHHHHHH---HHhhh-ccCCCChhHHHHHHHHHHHHhC-------CHHHHHHHHHHHHHHHHHHHH
Q 010136          301 VVTFRA---YSKDQIIRILQE---RLMEL-SYIVFQPQALELCARKVAAASG-------DMRKALSVCRSAIEILEAEMR  366 (517)
Q Consensus       301 ~i~f~p---~~~~e~~~IL~~---rl~~~-~~~~~~~~ai~~ia~~~~~~~G-------d~R~al~ll~~A~~~a~~~~~  366 (517)
                      .+.|..   .+.+...++++.   .++.. ....|++++++.+.+...+..|       ..|..-++++.|..+|..++.
T Consensus       297 ~v~~~~~~~~~~e~~~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~  376 (608)
T TIGR00764       297 EVYMKDTMPDTPENRDKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGK  376 (608)
T ss_pred             EEEeeccCCCCHHHHHHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCC
Confidence            456644   355555554443   33221 1247899999888776554333       478889999999888876654


Q ss_pred             hhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHh
Q 010136          367 ESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~  409 (517)
                      .                            .|+.+||.+|++..
T Consensus       377 ~----------------------------~I~~ehV~~Ai~~~  391 (608)
T TIGR00764       377 V----------------------------YVTAEHVLKAKKLA  391 (608)
T ss_pred             c----------------------------eecHHHHHHHHHHH
Confidence            4                            79999999997754

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.12  E-value=2e-10  Score=123.36  Aligned_cols=216  Identities=14%  Similarity=0.185  Sum_probs=140.2

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      +..+.++|....++++.+.+.....  ...+++|+|++|||||++|+++......       ..-.|+.|||..+.. ..
T Consensus       193 ~~~~~liG~s~~~~~~~~~~~~~a~--~~~pvli~Ge~GtGK~~lA~~ih~~s~r-------~~~pfv~i~c~~~~~-~~  262 (534)
T TIGR01817       193 GKEDGIIGKSPAMRQVVDQARVVAR--SNSTVLLRGESGTGKELIAKAIHYLSPR-------AKRPFVKVNCAALSE-TL  262 (534)
T ss_pred             CccCceEECCHHHHHHHHHHHHHhC--cCCCEEEECCCCccHHHHHHHHHHhCCC-------CCCCeEEeecCCCCH-HH
Confidence            3456899999999999999888753  5678999999999999999998765321       113699999998743 22


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCc
Q 010136          201 IFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSR  272 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~  272 (517)
                      +    ...+.+..+......... -...+.      ....-+||||||+.|....|..|..+++....        ....
T Consensus       263 ~----~~~lfg~~~~~~~~~~~~-~~g~~~------~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~  331 (534)
T TIGR01817       263 L----ESELFGHEKGAFTGAIAQ-RKGRFE------LADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVD  331 (534)
T ss_pred             H----HHHHcCCCCCccCCCCcC-CCCccc------ccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeec
Confidence            1    222323222110000000 000111      12235799999999988888888777754221        1135


Q ss_pred             EEEEEEECCCCcch-----hhcccccccCCCceEEEeCCCC--HHHHHHHHHHHHhhhc-----cCCCChhHHHHHHHHH
Q 010136          273 FILIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYS--KDQIIRILQERLMELS-----YIVFQPQALELCARKV  340 (517)
Q Consensus       273 v~lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~--~~e~~~IL~~rl~~~~-----~~~~~~~ai~~ia~~~  340 (517)
                      +-+|++++. ++.+     .+.+.+..| +....|.+||+.  .+++..++...+..+.     ...|++++++.+..+ 
T Consensus       332 ~riI~~s~~-~l~~~~~~~~f~~~L~~r-l~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~~-  408 (534)
T TIGR01817       332 VRLVAATNR-DLEEAVAKGEFRADLYYR-INVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIRVLMSC-  408 (534)
T ss_pred             EEEEEeCCC-CHHHHHHcCCCCHHHHHH-hcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhC-
Confidence            778876653 2222     223344444 445689999997  5778777776664321     146899999998874 


Q ss_pred             HHHhCCHHHHHHHHHHHHHHH
Q 010136          341 AAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~~~a  361 (517)
                       ...|++|...+++++|+..+
T Consensus       409 -~WPGNvrEL~~v~~~a~~~~  428 (534)
T TIGR01817       409 -KWPGNVRELENCLERTATLS  428 (534)
T ss_pred             -CCCChHHHHHHHHHHHHHhC
Confidence             46899999999999887544

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.

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

Probab=99.10  E-value=1.1e-08  Score=93.92  Aligned_cols=193  Identities=15%  Similarity=0.180  Sum_probs=131.5

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .|+|-+.+.+.|.+.-..++.+...++++++|..||||+++++++..++....       ...|+|+-..+.+.-.    
T Consensus        61 ~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~g-------lrLVEV~k~dl~~Lp~----  129 (287)
T COG2607          61 DLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEG-------LRLVEVDKEDLATLPD----  129 (287)
T ss_pred             HHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcC-------CeEEEEcHHHHhhHHH----
Confidence            68999999999999999999999999999999999999999999999887532       3578887655432222    


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc-CchHHHHHhccC-CCCCCcEEEEEEECCC
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR-DRAVLHDLFMLT-TFPFSRFILIGIANAI  282 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~-~~~~L~~l~~~~-~~~~~~v~lI~ian~~  282 (517)
                                          |.+.+.     ......|||.|+.-.=... .-..|..+++-. .....+|++.+++|.-
T Consensus       130 --------------------l~~~Lr-----~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRR  184 (287)
T COG2607         130 --------------------LVELLR-----ARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRR  184 (287)
T ss_pred             --------------------HHHHHh-----cCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCc
Confidence                                222222     3556789999987432221 225666777653 3345789999999975


Q ss_pred             Ccch-hhcc------------------cccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          283 DLAD-RFLP------------------RLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       283 ~~~~-~l~~------------------~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                      .+.. .+..                  .+-.| |+. .+.|.|.+.++...|+...++.+.. .++++.++.-|..-+..
T Consensus       185 HLl~e~~~dn~~~~~eih~~eaveEKlSlSDR-FGL-wL~F~~~~Q~~YL~~V~~~a~~~~l-~~~~e~l~~eAl~WAt~  261 (287)
T COG2607         185 HLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDR-FGL-WLSFYPCDQDEYLKIVDHYAKHFGL-DISDEELHAEALQWATT  261 (287)
T ss_pred             ccccHhhhhCCCcccccChhHHHHHhhchhhh-cce-eecccCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHh
Confidence            4322 1111                  12234 765 8999999999999999998875532 45566666555433333


Q ss_pred             hC--CHHHHHHHHHH
Q 010136          344 SG--DMRKALSVCRS  356 (517)
Q Consensus       344 ~G--d~R~al~ll~~  356 (517)
                      .|  +-|.|-+..+.
T Consensus       262 rg~RSGR~A~QF~~~  276 (287)
T COG2607         262 RGGRSGRVAWQFIRD  276 (287)
T ss_pred             cCCCccHhHHHHHHH
Confidence            33  45555554433

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.10  E-value=1.3e-09  Score=115.20  Aligned_cols=220  Identities=13%  Similarity=0.127  Sum_probs=138.0

Q ss_pred             CcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          118 HVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       118 ~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      ...+..+.++|....++.+...+.....  ...+++|+|++||||+++|+.+-..-..       ..-.|+.|||..+..
T Consensus       206 ~~~~~f~~iiG~S~~m~~~~~~i~~~A~--~~~pVLI~GE~GTGKe~lA~~IH~~S~r-------~~~pfv~inC~~l~e  276 (526)
T TIGR02329       206 RTRYRLDDLLGASAPMEQVRALVRLYAR--SDATVLILGESGTGKELVAQAIHQLSGR-------RDFPFVAINCGAIAE  276 (526)
T ss_pred             ccccchhheeeCCHHHHHHHHHHHHHhC--CCCcEEEECCCCcCHHHHHHHHHHhcCc-------CCCCEEEeccccCCh
Confidence            3345566799999999999999887654  4678999999999999999998654221       113699999998753


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------C
Q 010136          198 TSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------P  269 (517)
Q Consensus       198 ~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~  269 (517)
                        ..   +-..|.+...+.........-.-+|.      ....-.||||||+.|....|..|..+++....        .
T Consensus       277 --~l---leseLFG~~~gaftga~~~~~~Gl~e------~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~  345 (526)
T TIGR02329       277 --SL---LEAELFGYEEGAFTGARRGGRTGLIE------AAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPV  345 (526)
T ss_pred             --hH---HHHHhcCCcccccccccccccccchh------hcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCcee
Confidence              21   22334333222111100000011232      12234799999999988888777777754221        1


Q ss_pred             CCcEEEEEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhhc---cCCCChhHHHH----
Q 010136          270 FSRFILIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMELS---YIVFQPQALEL----  335 (517)
Q Consensus       270 ~~~v~lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~~---~~~~~~~ai~~----  335 (517)
                      ...+-+|++++. ++.+     .+...+.-| +....|.+||+..  +++..++...+..+.   ...+++++++.    
T Consensus       346 ~~dvRiIaat~~-~l~~~v~~g~fr~dL~~r-L~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~~  423 (526)
T TIGR02329       346 PVDVRVVAATHC-ALTTAVQQGRFRRDLFYR-LSILRIALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAAQVLAGV  423 (526)
T ss_pred             eecceEEeccCC-CHHHHhhhcchhHHHHHh-cCCcEEeCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHHhHHH
Confidence            234567776653 2222     122334444 4556899999964  677777776665321   22488888877    


Q ss_pred             ---HHHHHHHHhCCHHHHHHHHHHHHHHH
Q 010136          336 ---CARKVAAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       336 ---ia~~~~~~~Gd~R~al~ll~~A~~~a  361 (517)
                         +..+  ...|++|..-+++.+++..+
T Consensus       424 ~~~L~~y--~WPGNvrEL~nvier~~i~~  450 (526)
T TIGR02329       424 ADPLQRY--PWPGNVRELRNLVERLALEL  450 (526)
T ss_pred             HHHHHhC--CCCchHHHHHHHHHHHHHhc
Confidence               4432  46799999999998887543

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.

>smart00350 MCM minichromosome maintenance proteins

Probab=99.09  E-value=1.7e-09  Score=114.83  Aligned_cols=232  Identities=14%  Similarity=0.080  Sum_probs=138.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc--------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLEE--------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~--------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      ..++|.+.....+.-.+......        ...-+++|+|+||||||++++.+.+....           ..++.+...
T Consensus       203 p~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r-----------~~~~~~~~~  271 (509)
T smart00350      203 PSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPR-----------AVYTTGKGS  271 (509)
T ss_pred             ccccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCc-----------ceEcCCCCC
Confidence            46888888655444443321100        01128999999999999999999876432           123332111


Q ss_pred             CCHHHHHHH-HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC-------
Q 010136          196 TNTSEIFSK-ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT-------  267 (517)
Q Consensus       196 ~s~~~i~~~-i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~-------  267 (517)
                       +...+... +.....+...              +..... .....-+++|||+|.+....|..|...++...       
T Consensus       272 -~~~~l~~~~~~~~~~g~~~--------------~~~G~l-~~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G  335 (509)
T smart00350      272 -SAVGLTAAVTRDPETREFT--------------LEGGAL-VLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAG  335 (509)
T ss_pred             -CcCCccccceEccCcceEE--------------ecCccE-EecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCC
Confidence             00000000 0000000000              000000 01123489999999998888888888875422       


Q ss_pred             ---CCCCcEEEEEEECCCCcc--------h--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh-----------h
Q 010136          268 ---FPFSRFILIGIANAIDLA--------D--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME-----------L  323 (517)
Q Consensus       268 ---~~~~~v~lI~ian~~~~~--------~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~-----------~  323 (517)
                         .-..++.||+++|...-.        +  .+.+.+.+| |..-.+...+++.+.-.+|+.+.+..           .
T Consensus       336 ~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n~~l~~~lLsR-FdLi~~~~d~~~~~~d~~i~~~i~~~~~~~~~~~~~~~  414 (509)
T smart00350      336 ITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLPAPILSR-FDLLFVVLDEVDEERDRELAKHVVDLHRYSHPEPDEAD  414 (509)
T ss_pred             EEEEecCCcEEEEEeCCCCcccCCCcChhhccCCChHHhCc-eeeEEEecCCCChHHHHHHHHHHHHhhcccCccccccc
Confidence               123678999999976311        1  466888898 75556666777777777777654320           0


Q ss_pred             -------------------ccCCCChhHHHHHHHHHHHHh-------------CCHHHHHHHHHHHHHHHHHHHHhhhhc
Q 010136          324 -------------------SYIVFQPQALELCARKVAAAS-------------GDMRKALSVCRSAIEILEAEMRESVSK  371 (517)
Q Consensus       324 -------------------~~~~~~~~ai~~ia~~~~~~~-------------Gd~R~al~ll~~A~~~a~~~~~~~~~~  371 (517)
                                         -...+++++.+++.+.+....             -.+|..+.+++.|-..|..+.+.    
T Consensus       415 ~~~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~----  490 (509)
T smart00350      415 EVPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSD----  490 (509)
T ss_pred             cccCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCC----
Confidence                               012567888777776554322             14677778888888888877776    


Q ss_pred             cccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          372 MNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                                              .|+.+||..|+.-+..
T Consensus       491 ------------------------~V~~~Dv~~ai~l~~~  506 (509)
T smart00350      491 ------------------------VVEEADVEEAIRLLRE  506 (509)
T ss_pred             ------------------------ccCHHHHHHHHHHHHH
Confidence                                    8999999999876543

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.08  E-value=1.3e-09  Score=116.07  Aligned_cols=216  Identities=14%  Similarity=0.104  Sum_probs=140.1

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      .+..++|+...++.+.+.+.....  ...+++|+|++|||||++++++......       ..-.++.|||..+.. ..+
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~--~~~pVlI~Ge~GtGK~~~A~~ih~~s~r-------~~~p~v~v~c~~~~~-~~~  254 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAA--SDLNVLILGETGVGKELVARAIHAASPR-------ADKPLVYLNCAALPE-SLA  254 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhC--CCCcEEEECCCCccHHHHHHHHHHhCCc-------CCCCeEEEEcccCCh-HHH
Confidence            567899999999999999988654  5778999999999999999998765321       113699999998753 222


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcE
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRF  273 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v  273 (517)
                          ...|.+............ -...|.      ....-.|||||||.|....|..|..+++....        ....+
T Consensus       255 ----e~~lfG~~~g~~~ga~~~-~~g~~~------~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~  323 (509)
T PRK05022        255 ----ESELFGHVKGAFTGAISN-RSGKFE------LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDV  323 (509)
T ss_pred             ----HHHhcCccccccCCCccc-CCcchh------hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecce
Confidence                223333222111000000 000122      11234689999999988878777777654211        12467


Q ss_pred             EEEEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHHH
Q 010136          274 ILIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARKV  340 (517)
Q Consensus       274 ~lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~  340 (517)
                      -+|++++.. +.+     .+...+..+ +....|.+||+..  +++..++.+.+..+      ....|++++++.+..+ 
T Consensus       324 RiI~~t~~~-l~~~~~~~~f~~dL~~r-l~~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y-  400 (509)
T PRK05022        324 RVIAATNRD-LREEVRAGRFRADLYHR-LSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAY-  400 (509)
T ss_pred             EEEEecCCC-HHHHHHcCCccHHHHhc-ccccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhC-
Confidence            788877642 211     233444444 4456899999964  56666665555321      2357899999998774 


Q ss_pred             HHHhCCHHHHHHHHHHHHHHHH
Q 010136          341 AAASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~~~a~  362 (517)
                       ...|++|..-+++.+|+..+.
T Consensus       401 -~WPGNvrEL~~~i~ra~~~~~  421 (509)
T PRK05022        401 -DWPGNVRELEHVISRAALLAR  421 (509)
T ss_pred             -CCCCcHHHHHHHHHHHHHhcC
Confidence             477999999999999886654

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.08  E-value=3.3e-09  Score=105.86  Aligned_cols=190  Identities=14%  Similarity=0.130  Sum_probs=113.4

Q ss_pred             cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhc-CC--------------CCceEEEEeCCCC-----CCHHHHHHHH
Q 010136          146 EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEA-GL--------------QQPEVFSINCTSL-----TNTSEIFSKI  205 (517)
Q Consensus       146 ~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~-~~--------------~~~~~v~vn~~~~-----~s~~~i~~~i  205 (517)
                      +.-+..++|+||+|+||+++++.+++.+.+..... +.              .+..+.++.....     .+....+...
T Consensus        18 ~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~   97 (342)
T PRK06964         18 ARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEAD   97 (342)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccch
Confidence            34466788999999999999999999987532110 00              0112222221100     0000000000


Q ss_pred             HHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCc
Q 010136          206 LLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDL  284 (517)
Q Consensus       206 ~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~  284 (517)
                      +.+-+.........-..+.++.+.... .....++..|+|||++|.|.....+.|...++.   +..++++|.+|+   -
T Consensus        98 ~~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEE---Pp~~t~fiL~t~---~  171 (342)
T PRK06964         98 ADEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALNVAAANALLKTLEE---PPPGTVFLLVSA---R  171 (342)
T ss_pred             hhcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcCHHHHHHHHHHhcC---CCcCcEEEEEEC---C
Confidence            000000000000111245555554431 122345677999999999988778888888875   456777777787   3


Q ss_pred             chhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHH
Q 010136          285 ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRS  356 (517)
Q Consensus       285 ~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~  356 (517)
                      ++.++|.++|| |  +.+.|+|++.+++.+.|..+  +     +++.  +.+   +....|.+..|+.++..
T Consensus       172 ~~~LLpTI~SR-c--q~i~~~~~~~~~~~~~L~~~--~-----~~~~--~~~---l~~~~Gsp~~Al~~~~~  228 (342)
T PRK06964        172 IDRLLPTILSR-C--RQFPMTVPAPEAAAAWLAAQ--G-----VADA--DAL---LAEAGGAPLAALALASD  228 (342)
T ss_pred             hhhCcHHHHhc-C--EEEEecCCCHHHHHHHHHHc--C-----CChH--HHH---HHHcCCCHHHHHHHHCC
Confidence            78899999999 7  79999999999999999864  2     1221  112   22468889888887633

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.07  E-value=8.9e-10  Score=110.46  Aligned_cols=213  Identities=16%  Similarity=0.159  Sum_probs=137.4

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.++|+...+..+.+.+.....  ...+++|+|++||||+++|+.+-..-..       ..-.|+.+||..... ..+-
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~--~~~pVlI~GE~GtGK~~lA~~iH~~s~r-------~~~pfv~v~c~~~~~-~~~~   74 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAP--LDKPVLIIGERGTGKELIASRLHYLSSR-------WQGPFISLNCAALNE-NLLD   74 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhC--CCCCEEEECCCCCcHHHHHHHHHHhCCc-------cCCCeEEEeCCCCCH-HHHH
Confidence            35689999999999999988764  5678999999999999999998543211       113699999998742 3322


Q ss_pred             HHHHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcE
Q 010136          203 SKILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRF  273 (517)
Q Consensus       203 ~~i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v  273 (517)
                      ..++    +..... .+.. ... ...+.      ....-.|||||||.|....|..|..+++....        ....+
T Consensus        75 ~~lf----g~~~~~~~g~~-~~~-~g~l~------~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~  142 (326)
T PRK11608         75 SELF----GHEAGAFTGAQ-KRH-PGRFE------RADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNV  142 (326)
T ss_pred             HHHc----cccccccCCcc-ccc-CCchh------ccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccE
Confidence            2222    221111 1110 000 11122      11234789999999998888888887754221        11356


Q ss_pred             EEEEEECCCCcc-----hhhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh----cc---CCCChhHHHHHHHH
Q 010136          274 ILIGIANAIDLA-----DRFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL----SY---IVFQPQALELCARK  339 (517)
Q Consensus       274 ~lI~ian~~~~~-----~~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~----~~---~~~~~~ai~~ia~~  339 (517)
                      -+|++++. ++.     ..+.+.+..+ +....|.++|+..  +++..++...+..+    ..   ..|++++++.+..+
T Consensus       143 RiI~~s~~-~l~~l~~~g~f~~dL~~~-l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y  220 (326)
T PRK11608        143 RLVCATNA-DLPAMVAEGKFRADLLDR-LAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNY  220 (326)
T ss_pred             EEEEeCch-hHHHHHHcCCchHHHHHh-cCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhC
Confidence            77775553 222     1233555555 5566899999964  67777766555321    11   35899999998774


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHH
Q 010136          340 VAAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a  361 (517)
                        ...|++|..-+++++|+..+
T Consensus       221 --~WPGNvrEL~~vl~~a~~~~  240 (326)
T PRK11608        221 --RWPGNIRELKNVVERSVYRH  240 (326)
T ss_pred             --CCCcHHHHHHHHHHHHHHhc
Confidence              57899999999998887543

>PF14516 AAA_35: AAA-like domain

Probab=99.07  E-value=1.8e-07  Score=94.10  Aligned_cols=209  Identities=14%  Similarity=0.144  Sum_probs=120.9

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC-----CCHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL-----TNTSE  200 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~-----~s~~~  200 (517)
                      .+.|...-+.+.+.|..     .+..++|.||..+|||+++..+.+.+...    |   +.++++++...     .+...
T Consensus        13 Yi~R~~~e~~~~~~i~~-----~G~~~~I~apRq~GKTSll~~l~~~l~~~----~---~~~v~id~~~~~~~~~~~~~~   80 (331)
T PF14516_consen   13 YIERPPAEQECYQEIVQ-----PGSYIRIKAPRQMGKTSLLLRLLERLQQQ----G---YRCVYIDLQQLGSAIFSDLEQ   80 (331)
T ss_pred             ccCchHHHHHHHHHHhc-----CCCEEEEECcccCCHHHHHHHHHHHHHHC----C---CEEEEEEeecCCCcccCCHHH
Confidence            56777444445544432     46789999999999999999998887652    2   57889998764     34555


Q ss_pred             HHHHHHHHhCCCCCCCC--------CCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc---hHHHHHhccCC--
Q 010136          201 IFSKILLKLQPRKKLNG--------STSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR---AVLHDLFMLTT--  267 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~---~~L~~l~~~~~--  267 (517)
                      ++..++..+........        ...+...+..+|.+.......+++||+|||||.+.....   +.+..|-.|..  
T Consensus        81 f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~  160 (331)
T PF14516_consen   81 FLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQR  160 (331)
T ss_pred             HHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhc
Confidence            66666655543222111        011223444555544444567899999999999987432   23222222311  


Q ss_pred             ---CCCCcEEEEEEECCCCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          268 ---FPFSRFILIGIANAIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       268 ---~~~~~v~lI~ian~~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                         ..-.++.+|++..+....  ....-.|. +. ...|.+++++.+|+..+++. ..    ..+++..++.+-.   ..
T Consensus       161 ~~~~~~~~L~li~~~~t~~~~--~~~~~~SPFNI-g~~i~L~~Ft~~ev~~L~~~-~~----~~~~~~~~~~l~~---~t  229 (331)
T PF14516_consen  161 KNNPIWQKLRLILAGSTEDYI--ILDINQSPFNI-GQPIELPDFTPEEVQELAQR-YG----LEFSQEQLEQLMD---WT  229 (331)
T ss_pred             ccCcccceEEEEEecCccccc--ccCCCCCCccc-ccceeCCCCCHHHHHHHHHh-hh----ccCCHHHHHHHHH---HH
Confidence               112345555544432211  11111232 22 24789999999999887764 32    2456666555543   56


Q ss_pred             hCCHHHHHHHHHHH
Q 010136          344 SGDMRKALSVCRSA  357 (517)
Q Consensus       344 ~Gd~R~al~ll~~A  357 (517)
                      +|-+-..-.+|...
T Consensus       230 gGhP~Lv~~~~~~l  243 (331)
T PF14516_consen  230 GGHPYLVQKACYLL  243 (331)
T ss_pred             CCCHHHHHHHHHHH
Confidence            77765433444443

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.07  E-value=7.9e-09  Score=97.54  Aligned_cols=135  Identities=18%  Similarity=0.228  Sum_probs=93.4

Q ss_pred             ceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCC-------C--cchhhcccccccCCCceEEEeCCCCH
Q 010136          239 KMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI-------D--LADRFLPRLQSMNCKPLVVTFRAYSK  309 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~-------~--~~~~l~~~l~sr~~~~~~i~f~p~~~  309 (517)
                      -|-||||||++.|.-..-..|...++-   .-+++++++ +|.-       +  -+.-+.-.+..| +  -.|.-.||+.
T Consensus       288 vpGVLFIDEvHMLDIEcFsFlNrAlE~---d~~Piiima-TNrgit~iRGTn~~SphGiP~D~lDR-~--lII~t~py~~  360 (454)
T KOG2680|consen  288 VPGVLFIDEVHMLDIECFSFLNRALEN---DMAPIIIMA-TNRGITRIRGTNYRSPHGIPIDLLDR-M--LIISTQPYTE  360 (454)
T ss_pred             ccceEEEeeehhhhhHHHHHHHHHhhh---ccCcEEEEE-cCCceEEeecCCCCCCCCCcHHHhhh-h--heeecccCcH
Confidence            367999999999965544555554433   234555554 5642       1  111122234444 3  3788899999


Q ss_pred             HHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhh
Q 010136          310 DQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASA  389 (517)
Q Consensus       310 ~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  389 (517)
                      +++.+||..|.+. +...++++|++++...  +..-.+|.|++++..|...+.+....                      
T Consensus       361 ~d~~~IL~iRc~E-Edv~m~~~A~d~Lt~i--~~~tsLRYai~Lit~a~~~~~krk~~----------------------  415 (454)
T KOG2680|consen  361 EDIKKILRIRCQE-EDVEMNPDALDLLTKI--GEATSLRYAIHLITAASLVCLKRKGK----------------------  415 (454)
T ss_pred             HHHHHHHHhhhhh-hccccCHHHHHHHHHh--hhhhhHHHHHHHHHHHHHHHHHhcCc----------------------
Confidence            9999999999864 2357899999998774  34557999999999888887766544                      


Q ss_pred             hhccCccccHHHHHHHHHHhcc
Q 010136          390 FEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       390 ~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                            .|..+|+.+|..-...
T Consensus       416 ------~v~~~di~r~y~LFlD  431 (454)
T KOG2680|consen  416 ------VVEVDDIERVYRLFLD  431 (454)
T ss_pred             ------eeehhHHHHHHHHHhh
Confidence                  7899999998865543

>TIGR00368 Mg chelatase-related protein

Probab=99.06  E-value=1.7e-09  Score=113.48  Aligned_cols=138  Identities=12%  Similarity=0.115  Sum_probs=95.2

Q ss_pred             eEEEEEeCcchhcccCchHHHHHhccCCC----------CCCcEEEEEEECCCC--------------------cchhhc
Q 010136          240 MMLIIADELDYLITRDRAVLHDLFMLTTF----------PFSRFILIGIANAID--------------------LADRFL  289 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~~~~L~~l~~~~~~----------~~~~v~lI~ian~~~--------------------~~~~l~  289 (517)
                      .-+|||||++.|....++.|++.++....          -..++.+|+++|...                    +..++.
T Consensus       296 ~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is  375 (499)
T TIGR00368       296 NGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLS  375 (499)
T ss_pred             CCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhcc
Confidence            36999999999988888889888754221          125789999999741                    122577


Q ss_pred             ccccccCCCceEEEeCCCCHHHHHH--------HHHHHHh-----h---hcc------------------CCCChhHHHH
Q 010136          290 PRLQSMNCKPLVVTFRAYSKDQIIR--------ILQERLM-----E---LSY------------------IVFQPQALEL  335 (517)
Q Consensus       290 ~~l~sr~~~~~~i~f~p~~~~e~~~--------IL~~rl~-----~---~~~------------------~~~~~~ai~~  335 (517)
                      ..+.+| |.. .+.+++++.+++.+        .++.|+.     .   +..                  ..+++++.++
T Consensus       376 ~pllDR-~dl-~~~~~~~~~~~l~~~~~~e~s~~ir~rV~~Ar~~q~~R~~~~~~~~~N~~l~~~~l~~~~~l~~~~~~~  453 (499)
T TIGR00368       376 GPFLDR-IDL-SVEVPLLPPEKLLSTGSGESSAEVKQRVIKAREIQNIRYEKFANINKNADLNSDEIEQFCKLSAIDAND  453 (499)
T ss_pred             HhHHhh-CCE-EEEEcCCCHHHHhccCCCCCHHHHHHHHHHHHHHHHHHhcCCCCCcccccCCHHHHHhhcCCCHHHHHH
Confidence            888888 755 78888876655421        1222221     0   100                  2345566666


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHH
Q 010136          336 CARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS  407 (517)
Q Consensus       336 ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~  407 (517)
                      +.+.+....=.+|....+++-|+.+|..++.+                            .|+.+||.+|+.
T Consensus       454 l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~----------------------------~i~~~hv~eA~~  497 (499)
T TIGR00368       454 LEGALNKLGLSSRATHRILKVARTIADLKEEK----------------------------NISREHLAEAIE  497 (499)
T ss_pred             HHHHHHhcCCCchHHHHHHHHHHHHHhhcCCC----------------------------CCCHHHHHHHHh
Confidence            65555444557899999999999999998877                            899999999985

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

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

Probab=99.06  E-value=3.8e-09  Score=107.60  Aligned_cols=172  Identities=13%  Similarity=0.130  Sum_probs=96.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++..+..++.+...|.      ..++++|+||||||||++|+.++..+....   ..  ..+..|......+...+  
T Consensus       175 ~d~~i~e~~le~l~~~L~------~~~~iil~GppGtGKT~lA~~la~~l~~~~---~~--~~v~~VtFHpsySYeDF--  241 (459)
T PRK11331        175 NDLFIPETTIETILKRLT------IKKNIILQGPPGVGKTFVARRLAYLLTGEK---AP--QRVNMVQFHQSYSYEDF--  241 (459)
T ss_pred             hcccCCHHHHHHHHHHHh------cCCCEEEECCCCCCHHHHHHHHHHHhcCCc---cc--ceeeEEeecccccHHHH--
Confidence            346677777777766654      357999999999999999999988774210   11  12223333332232222  


Q ss_pred             HHHHHhCCCCCCCCCCCHH-HHHHHHHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhccC---------------
Q 010136          204 KILLKLQPRKKLNGSTSPL-QYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFMLT---------------  266 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~---------------  266 (517)
                        ...+   .....+.... ..+.+++.. .......+.+||||||+...... ...+..+++..               
T Consensus       242 --I~G~---rP~~vgy~~~~G~f~~~~~~-A~~~p~~~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~  315 (459)
T PRK11331        242 --IQGY---RPNGVGFRRKDGIFYNFCQQ-AKEQPEKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSEN  315 (459)
T ss_pred             --hccc---CCCCCCeEecCchHHHHHHH-HHhcccCCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeecccc
Confidence              2111   1111111100 012222221 11123467999999999875432 23444444421               


Q ss_pred             ----CCCCCcEEEEEEECCCCcc-hhhcccccccCCCceEEEeCC-CCHHHHHHHHH
Q 010136          267 ----TFPFSRFILIGIANAIDLA-DRFLPRLQSMNCKPLVVTFRA-YSKDQIIRILQ  317 (517)
Q Consensus       267 ----~~~~~~v~lI~ian~~~~~-~~l~~~l~sr~~~~~~i~f~p-~~~~e~~~IL~  317 (517)
                          -....++.+||+.|+.|.. ..++.++++| |  ..|.+.| |+...+.+.+.
T Consensus       316 d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrRR-F--~fi~i~p~~~~~~~~~~l~  369 (459)
T PRK11331        316 DEERFYVPENVYIIGLMNTADRSLAVVDYALRRR-F--SFIDIEPGFDTPQFRNFLL  369 (459)
T ss_pred             ccccccCCCCeEEEEecCccccchhhccHHHHhh-h--heEEecCCCChHHHHHHHH
Confidence                0123689999999987722 2468888888 7  4666666 67666665544

>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=99.05  E-value=9.1e-11  Score=102.80  Aligned_cols=121  Identities=21%  Similarity=0.256  Sum_probs=76.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYS  230 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~  230 (517)
                      +++|+||||||||++++.+++.+.          ..++.++|....+..+++....-. .+...-..+.           
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~----------~~~~~i~~~~~~~~~dl~g~~~~~-~~~~~~~~~~-----------   58 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLG----------RPVIRINCSSDTTEEDLIGSYDPS-NGQFEFKDGP-----------   58 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHT----------CEEEEEE-TTTSTHHHHHCEEET--TTTTCEEE-C-----------
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhh----------cceEEEEeccccccccceeeeeec-cccccccccc-----------
Confidence            589999999999999999999883          378999999998888864322111 0000000000           


Q ss_pred             hhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC----------CCC------cEEEEEEECCCC-cchhhccccc
Q 010136          231 QKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF----------PFS------RFILIGIANAID-LADRFLPRLQ  293 (517)
Q Consensus       231 ~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~----------~~~------~v~lI~ian~~~-~~~~l~~~l~  293 (517)
                        ......++.++||||++.....-+..|..+++....          ...      .+.+|+++|+.+ -...+.++++
T Consensus        59 --l~~a~~~~~il~lDEin~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~  136 (139)
T PF07728_consen   59 --LVRAMRKGGILVLDEINRAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALL  136 (139)
T ss_dssp             --CCTTHHEEEEEEESSCGG--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHH
T ss_pred             --ccccccceeEEEECCcccCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHH
Confidence              001122678999999998876556667776654110          011      389999999866 3446788888


Q ss_pred             cc
Q 010136          294 SM  295 (517)
Q Consensus       294 sr  295 (517)
                      +|
T Consensus       137 ~R  138 (139)
T PF07728_consen  137 DR  138 (139)
T ss_dssp             TT
T ss_pred             hh
Confidence            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.

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=99.05  E-value=3.6e-08  Score=107.93  Aligned_cols=166  Identities=17%  Similarity=0.135  Sum_probs=91.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc-----------------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCce
Q 010136          124 STIVCREDEQKKVLEFCKKNLEE-----------------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPE  186 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~-----------------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~  186 (517)
                      ..++|.+.....|.-.|......                 ....++||+|+||||||.+++++.+......-..|.   .
T Consensus       450 P~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~---~  526 (915)
T PTZ00111        450 PSIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGK---S  526 (915)
T ss_pred             CeEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCC---C
Confidence            47899998777666555332210                 012289999999999999999987642211000000   1


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       187 ~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                      +..++|....    .+   .....+......|         .+.      ....-+++|||+|.+....|..|.++++-.
T Consensus       527 ~s~vgLTa~~----~~---~d~~tG~~~le~G---------aLv------lAdgGtL~IDEidkms~~~Q~aLlEaMEqq  584 (915)
T PTZ00111        527 SSSVGLTASI----KF---NESDNGRAMIQPG---------AVV------LANGGVCCIDELDKCHNESRLSLYEVMEQQ  584 (915)
T ss_pred             Cccccccchh----hh---cccccCcccccCC---------cEE------EcCCCeEEecchhhCCHHHHHHHHHHHhCC
Confidence            2222222210    00   0000000000000         010      112248999999999888888888888542


Q ss_pred             C----------CCCCcEEEEEEECCCC--------cchh--hcccccccCCCceEEEeCCCCHHHHHHH
Q 010136          267 T----------FPFSRFILIGIANAID--------LADR--FLPRLQSMNCKPLVVTFRAYSKDQIIRI  315 (517)
Q Consensus       267 ~----------~~~~~v~lI~ian~~~--------~~~~--l~~~l~sr~~~~~~i~f~p~~~~e~~~I  315 (517)
                      .          .-..++.||+++|...        +.+.  +.+.+.|| |..--+.+..++.+.=..|
T Consensus       585 tIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLSR-FDLIf~l~D~~d~~~D~~l  652 (915)
T PTZ00111        585 TVTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINISPSLFTR-FDLIYLVLDHIDQDTDQLI  652 (915)
T ss_pred             EEEEecCCcceecCCCeEEEEEcCCcccccCcccCcccccCCChHHhhh-hcEEEEecCCCChHHHHHH
Confidence            2          1236899999999853        1122  45778888 7554555666665543444

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.05  E-value=6.3e-09  Score=109.99  Aligned_cols=225  Identities=12%  Similarity=0.109  Sum_probs=135.1

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHh-cCCCCceEEEEeCCCCCCHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE-AGLQQPEVFSINCTSLTNTS  199 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~-~~~~~~~~v~vn~~~~~s~~  199 (517)
                      +..+.++|....++++...+.....  ...+++|+|++||||+++|+.+-..+...... .....-.|+.|||..+..  
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~--s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e--  291 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYAR--SSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAE--  291 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhC--CCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCCh--
Confidence            4456799999999999999887654  56789999999999999999987652110000 000123699999998753  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCC
Q 010136          200 EIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFS  271 (517)
Q Consensus       200 ~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~  271 (517)
                      ..   +-..|.+...+.........-.-+|.      ....-.||||||+.|....|..|..+++....        ...
T Consensus       292 ~l---leseLFG~~~gaftga~~~~~~Gl~e------~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~  362 (538)
T PRK15424        292 SL---LEAELFGYEEGAFTGSRRGGRAGLFE------IAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPV  362 (538)
T ss_pred             hh---HHHHhcCCccccccCccccccCCchh------ccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceecc
Confidence            21   22333333221111100000001222      12234799999999988878777777754211        123


Q ss_pred             cEEEEEEECCCCcchh-----hcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh---ccCCCChhHHHHHHHHH-
Q 010136          272 RFILIGIANAIDLADR-----FLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL---SYIVFQPQALELCARKV-  340 (517)
Q Consensus       272 ~v~lI~ian~~~~~~~-----l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~---~~~~~~~~ai~~ia~~~-  340 (517)
                      .+-+|+++|. ++...     +...+.-| +....|.+||+..  +++..++...+...   ....++++++....+.. 
T Consensus       363 dvRiIaat~~-~L~~~v~~g~Fr~dL~yr-L~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~a~~  440 (538)
T PRK15424        363 DVRVISATHC-DLEEDVRQGRFRRDLFYR-LSILRLQLPPLRERVADILPLAESFLKQSLAALSAPFSAALRQGLQQCET  440 (538)
T ss_pred             ceEEEEecCC-CHHHHHhcccchHHHHHH-hcCCeecCCChhhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHhhHHHHH
Confidence            5677876653 22221     22334444 4556899999964  67777777666532   12247777764332211 


Q ss_pred             ----HHHhCCHHHHHHHHHHHHHH
Q 010136          341 ----AAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       341 ----~~~~Gd~R~al~ll~~A~~~  360 (517)
                          ....|++|..-+++++++.+
T Consensus       441 ~L~~y~WPGNvREL~nvier~~i~  464 (538)
T PRK15424        441 LLLHYDWPGNVRELRNLMERLALF  464 (538)
T ss_pred             HHHhCCCCchHHHHHHHHHHHHHh
Confidence                13679999999999888764

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.03  E-value=7.1e-09  Score=103.26  Aligned_cols=242  Identities=20%  Similarity=0.191  Sum_probs=146.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC---HHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN---TSE  200 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s---~~~  200 (517)
                      ..++|.+.    +...|--..-...-++++|.|+.||||||++|+++.-|..+         .++. .|.-.-+   +..
T Consensus        17 ~aivGqd~----lk~aL~l~av~P~iggvLI~G~kGtaKSt~~Rala~LLp~~---------~~V~-gc~f~cdP~~P~~   82 (423)
T COG1239          17 TAIVGQDP----LKLALGLNAVDPQIGGALIAGEKGTAKSTLARALADLLPEI---------EVVI-GCPFNCDPDDPEE   82 (423)
T ss_pred             hhhcCchH----HHHHHhhhhcccccceeEEecCCCccHHHHHHHHHHhCCcc---------ceec-CCCCCCCCCChhh
Confidence            45677766    33333222334567899999999999999999999988753         2222 4432222   222


Q ss_pred             HHHHHHHHhCCCCC------------CC---------CCCCHHHHHH---HHHHhhhccCCCceEEEEEeCcchhcccCc
Q 010136          201 IFSKILLKLQPRKK------------LN---------GSTSPLQYLQ---NLYSQKLHSSVMKMMLIIADELDYLITRDR  256 (517)
Q Consensus       201 i~~~i~~~l~~~~~------------~~---------~~~~~~~~l~---~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~  256 (517)
                      ....+...+.....            .+         .+....+.++   +.|....+. ..+.-|+.|||+..|...-+
T Consensus        83 ~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa-~AnRGIlYvDEvnlL~d~lv  161 (423)
T COG1239          83 MCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLA-RANRGILYVDEVNLLDDHLV  161 (423)
T ss_pred             hhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchh-hccCCEEEEeccccccHHHH
Confidence            22222222100000            00         0111122222   122212221 23346999999999987777


Q ss_pred             hHHHHHhccC----------CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh--hh-
Q 010136          257 AVLHDLFMLT----------TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM--EL-  323 (517)
Q Consensus       257 ~~L~~l~~~~----------~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~--~~-  323 (517)
                      ++|.+.+...          .....++++||+.|..  ...|-|.|+.| |+.+.=.-.|.+.++..+|+..++.  .. 
T Consensus       162 d~LLd~aaeG~n~vereGisi~hpa~fvligTmNPE--eGeLrpqLlDR-fg~~v~~~~~~~~~~rv~Ii~r~~~f~~~P  238 (423)
T COG1239         162 DALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPE--EGELRPQLLDR-FGLEVDTHYPLDLEERVEIIRRRLAFEAVP  238 (423)
T ss_pred             HHHHHHHHhCCceeeeCceeeccCccEEEEeecCcc--ccccchhhHhh-hcceeeccCCCCHHHHHHHHHHHHHhhcCc
Confidence            7777766541          1234789999999965  34578999999 8776666677788888888887664  10 


Q ss_pred             -------------------------ccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccc
Q 010136          324 -------------------------SYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASA  377 (517)
Q Consensus       324 -------------------------~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~  377 (517)
                                               ....+++++..+|+..+....- ..|..+.+.+.|..+|...++.          
T Consensus       239 e~f~~~~~~~~~~lR~~ii~ar~~l~~V~l~~~~~~~ia~~~~~~~v~g~radi~~~r~a~a~aa~~Gr~----------  308 (423)
T COG1239         239 EAFLEKYADAQRALRARIIAARSLLSEVELDDDAETKIAELCARLAVDGHRADIVVVRAAKALAALRGRT----------  308 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHhcCce----------
Confidence                                     1244556666666665544332 2566667777777777777766          


Q ss_pred             cccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          378 EQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       378 ~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                                        .|+.+++.+|..-...
T Consensus       309 ------------------~v~~~Di~~a~~l~l~  324 (423)
T COG1239         309 ------------------EVEEEDIREAAELALL  324 (423)
T ss_pred             ------------------eeehhhHHHHHhhhhh
Confidence                              7899999999876644

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.03  E-value=2.3e-08  Score=98.94  Aligned_cols=185  Identities=14%  Similarity=0.162  Sum_probs=112.8

Q ss_pred             HHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC--
Q 010136          137 LEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK--  213 (517)
Q Consensus       137 ~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~--  213 (517)
                      ...|...+..++ +..++|+||.|+||+++++.+++.+...... +        -.|....+-..    +...-....  
T Consensus        12 ~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~-~--------~~Cg~C~sC~~----~~~g~HPD~~~   78 (319)
T PRK06090         12 WQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQ-S--------EACGFCHSCEL----MQSGNHPDLHV   78 (319)
T ss_pred             HHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCC-C--------CCCCCCHHHHH----HHcCCCCCEEE
Confidence            334444454444 4568899999999999999999988753210 0        01211111111    000000000  


Q ss_pred             --CC-CCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhc
Q 010136          214 --KL-NGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFL  289 (517)
Q Consensus       214 --~~-~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~  289 (517)
                        +. ....-..+.++.+.... .....++..|++||++|.|.....+.|...++.+   ..+..+|.+++.   ++++.
T Consensus        79 i~p~~~~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEP---p~~t~fiL~t~~---~~~lL  152 (319)
T PRK06090         79 IKPEKEGKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEP---APNCLFLLVTHN---QKRLL  152 (319)
T ss_pred             EecCcCCCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCC---CCCeEEEEEECC---hhhCh
Confidence              00 00011134444433221 1223456689999999999887788888888774   456777777874   78899


Q ss_pred             ccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          290 PRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       290 ~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                      |.++|| |  +.+.|++++.+++.+.|...  +     ++  ....+++   ...|.+..|+.++.
T Consensus       153 pTI~SR-C--q~~~~~~~~~~~~~~~L~~~--~-----~~--~~~~~l~---l~~G~p~~A~~~~~  203 (319)
T PRK06090        153 PTIVSR-C--QQWVVTPPSTAQAMQWLKGQ--G-----IT--VPAYALK---LNMGSPLKTLAMMK  203 (319)
T ss_pred             HHHHhc-c--eeEeCCCCCHHHHHHHHHHc--C-----Cc--hHHHHHH---HcCCCHHHHHHHhC
Confidence            999999 8  79999999999999988743  1     12  1122322   46788888888764

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

Probab=99.01  E-value=2.4e-08  Score=100.06  Aligned_cols=155  Identities=14%  Similarity=0.238  Sum_probs=105.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCC---------CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEK---------AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~---------~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +.++--.+..++|.+-|..++++..         .++-|||||||||||+++.++|+.|.          +.+.-++...
T Consensus       201 ~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~----------ydIydLeLt~  270 (457)
T KOG0743|consen  201 ETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLN----------YDIYDLELTE  270 (457)
T ss_pred             cccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcC----------CceEEeeecc
Confidence            3455545555566666666555332         34799999999999999999999875          4566666555


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc---Cc---------------
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR---DR---------------  256 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~---~~---------------  256 (517)
                      ..+..+                        |++++.     ......||+|.+||.-..-   .+               
T Consensus       271 v~~n~d------------------------Lr~LL~-----~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTl  321 (457)
T KOG0743|consen  271 VKLDSD------------------------LRHLLL-----ATPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTL  321 (457)
T ss_pred             ccCcHH------------------------HHHHHH-----hCCCCcEEEEeecccccccccccccccccccCCcceeeh
Confidence            433222                        666665     2344579999999976431   11               


Q ss_pred             hHHHHHhcc--CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh
Q 010136          257 AVLHDLFML--TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       257 ~~L~~l~~~--~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                      .-|.++++.  .... .-=++|++||   ..++|||+|.+++.-...|++.-.+.++...+....+.
T Consensus       322 SGLLNfiDGlwSscg-~ERIivFTTN---h~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~  384 (457)
T KOG0743|consen  322 SGLLNFLDGLWSSCG-DERIIVFTTN---HKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLG  384 (457)
T ss_pred             HHhhhhhccccccCC-CceEEEEecC---ChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcC
Confidence            125555554  2222 2445666788   78999999999755567999999999999888887775

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.98  E-value=2.8e-09  Score=116.96  Aligned_cols=212  Identities=14%  Similarity=0.203  Sum_probs=137.5

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      +..+.++|....+..+.+.+.....  ...+++|+|++||||+++|+++-+....       ..-.|+.|||..+.. ..
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~--~~~pvli~Ge~GtGK~~~A~~ih~~s~r-------~~~pfv~vnc~~~~~-~~  391 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAK--SSFPVLLCGEEGVGKALLAQAIHNESER-------AAGPYIAVNCQLYPD-EA  391 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhC--cCCCEEEECCCCcCHHHHHHHHHHhCCc-------cCCCeEEEECCCCCh-HH
Confidence            3456799999999999999888765  4567999999999999999998665321       113699999998753 22


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCC--------CCc
Q 010136          201 IFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFP--------FSR  272 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~--------~~~  272 (517)
                      +    ..++.+.........    ....|.      ....-+||||||+.|....|..|..+++.....        ...
T Consensus       392 ~----~~elfg~~~~~~~~~----~~g~~~------~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~  457 (638)
T PRK11388        392 L----AEEFLGSDRTDSENG----RLSKFE------LAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVD  457 (638)
T ss_pred             H----HHHhcCCCCcCccCC----CCCcee------ECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEee
Confidence            2    222322211000000    000121      122357999999999988888888877653211        125


Q ss_pred             EEEEEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhhc-----cCCCChhHHHHHHHHH
Q 010136          273 FILIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMELS-----YIVFQPQALELCARKV  340 (517)
Q Consensus       273 v~lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~~-----~~~~~~~ai~~ia~~~  340 (517)
                      +-+|++++. ++.+     .+.+.+.-+ +....|.+||+..  +++..++...+..+.     ...+++++++.+.++ 
T Consensus       458 ~riI~~t~~-~l~~~~~~~~f~~dL~~~-l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~y-  534 (638)
T PRK11388        458 VRVIATTTA-DLAMLVEQNRFSRQLYYA-LHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLVSY-  534 (638)
T ss_pred             EEEEEeccC-CHHHHHhcCCChHHHhhh-hceeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHHHcC-
Confidence            667876663 2222     223334444 4556899999964  567777666654321     236899999998773 


Q ss_pred             HHHhCCHHHHHHHHHHHHHH
Q 010136          341 AAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~~~  360 (517)
                       ...|++|...++++.|+..
T Consensus       535 -~WPGNvreL~~~l~~~~~~  553 (638)
T PRK11388        535 -RWPGNDFELRSVIENLALS  553 (638)
T ss_pred             -CCCChHHHHHHHHHHHHHh
Confidence             4579999999999988754

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=98.98  E-value=1.4e-08  Score=109.16  Aligned_cols=138  Identities=20%  Similarity=0.214  Sum_probs=96.1

Q ss_pred             eEEEEEeCcchhcccCchHHHHHhccCC------------------CCCCcEEEEEEECCCCcchhhcccccccCCCc--
Q 010136          240 MMLIIADELDYLITRDRAVLHDLFMLTT------------------FPFSRFILIGIANAIDLADRFLPRLQSMNCKP--  299 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~~~~L~~l~~~~~------------------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~--  299 (517)
                      .-+|||||++.|....|..|..+++...                  .-...+.+|+++|. ++...++|.+.+| |..  
T Consensus       227 GGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~-~ll~~~dpdL~~r-fk~~~  304 (637)
T PRK13765        227 KGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNL-DALENMHPALRSR-IKGYG  304 (637)
T ss_pred             CcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCc-CHHHhhhHHHHHH-hccCe
Confidence            3589999999997666777776664311                  01246778887776 4556678888887 531  


Q ss_pred             eEEEeCCC---CHHHHHHHHHHHHhhh----ccCCCChhHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHHHH
Q 010136          300 LVVTFRAY---SKDQIIRILQERLMEL----SYIVFQPQALELCARKVAAASGD-------MRKALSVCRSAIEILEAEM  365 (517)
Q Consensus       300 ~~i~f~p~---~~~e~~~IL~~rl~~~----~~~~~~~~ai~~ia~~~~~~~Gd-------~R~al~ll~~A~~~a~~~~  365 (517)
                      ..+.|..-   +.+.+..+++...+..    ....|+++++..+.+.+.+..|+       .|...++++.|..+|..++
T Consensus       305 v~v~f~~~~~d~~e~~~~~~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~  384 (637)
T PRK13765        305 YEVYMRDTMEDTPENRRKLVRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEG  384 (637)
T ss_pred             EEEEcccccCCCHHHHHHHHHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhc
Confidence            45667643   4555555554322221    12478999999999888777776       7888899999999998887


Q ss_pred             HhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHH
Q 010136          366 RESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS  407 (517)
Q Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~  407 (517)
                      ..                            .|+.+||.+|+.
T Consensus       385 ~~----------------------------~i~~~~v~~a~~  398 (637)
T PRK13765        385 AE----------------------------LTTAEHVLEAKK  398 (637)
T ss_pred             cc----------------------------eecHHHHHHHHH
Confidence            66                            788888888764

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

Probab=98.98  E-value=5.6e-09  Score=109.81  Aligned_cols=176  Identities=20%  Similarity=0.261  Sum_probs=118.6

Q ss_pred             CCCcHHHHHHHHHHHHHhhccC-----CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEE-----KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~-----~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      ..+++..+..+..++..-..-.     ....++++|+||||||+++++++.+++          .+++.++|.++.+...
T Consensus       403 ~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg----------~h~~evdc~el~~~s~  472 (953)
T KOG0736|consen  403 PPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELG----------LHLLEVDCYELVAESA  472 (953)
T ss_pred             CccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhC----------CceEeccHHHHhhccc
Confidence            4566666655555555433322     245799999999999999999999986          4799999977532211


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHHhc--cCCCCC
Q 010136          201 IFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDLFM--LTTFPF  270 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l~~--~~~~~~  270 (517)
                                        ......+...|.   .++...|.||||-.+|-|.....        ..+..++.  ....+.
T Consensus       473 ------------------~~~etkl~~~f~---~a~~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~  531 (953)
T KOG0736|consen  473 ------------------SHTETKLQAIFS---RARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSC  531 (953)
T ss_pred             ------------------chhHHHHHHHHH---HHhhcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCC
Confidence                              112445666665   34567899999999999875421        23444443  233456


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhH-HHHHHHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQA-LELCARKV  340 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~a-i~~ia~~~  340 (517)
                      ..++|||++++   .+.+.+.+++- | .+.|.++.++.+|..+||+-.+...   .++.+. .+.+++++
T Consensus       532 ~~~ivv~t~~s---~~~lp~~i~~~-f-~~ei~~~~lse~qRl~iLq~y~~~~---~~n~~v~~k~~a~~t  594 (953)
T KOG0736|consen  532 PPVIVVATTSS---IEDLPADIQSL-F-LHEIEVPALSEEQRLEILQWYLNHL---PLNQDVNLKQLARKT  594 (953)
T ss_pred             CceEEEEeccc---cccCCHHHHHh-h-hhhccCCCCCHHHHHHHHHHHHhcc---ccchHHHHHHHHHhc
Confidence            78999998885   45566677775 3 4699999999999999999887654   344333 34455443

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.98  E-value=4.6e-09  Score=111.95  Aligned_cols=218  Identities=17%  Similarity=0.179  Sum_probs=137.6

Q ss_pred             cCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Q 010136          119 VSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT  198 (517)
Q Consensus       119 ~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~  198 (517)
                      ..+..+.++|....+.++...+.....  ....++|+|++||||+++|+++-.....       ..-.|+.+||..+.. 
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A~--~~~pvlI~GE~GtGK~~lA~aiH~~s~r-------~~~pfv~inca~~~~-  268 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLAM--LDAPLLITGDTGTGKDLLAYACHLRSPR-------GKKPFLALNCASIPD-  268 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHhC--CCCCEEEECCCCccHHHHHHHHHHhCCC-------CCCCeEEeccccCCH-
Confidence            445667899999999999988887654  4667999999999999999996433211       112689999998753 


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CC
Q 010136          199 SEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PF  270 (517)
Q Consensus       199 ~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~  270 (517)
                      ..+    -..|.+......... .+.-..+|.      ....-.|||||||.|....|..|..+++....        ..
T Consensus       269 ~~~----e~elFG~~~~~~~~~-~~~~~g~~e------~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~  337 (520)
T PRK10820        269 DVV----ESELFGHAPGAYPNA-LEGKKGFFE------QANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVH  337 (520)
T ss_pred             HHH----HHHhcCCCCCCcCCc-ccCCCChhh------hcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCccee
Confidence            222    222322221110000 000011232      11234789999999988888777777754211        12


Q ss_pred             CcEEEEEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHH
Q 010136          271 SRFILIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCA  337 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia  337 (517)
                      ..+-+|++++. ++.+     .+.+.+..| +....|.+||+..  +++..++...+..+      ....+++++++.+.
T Consensus       338 ~~vRiI~st~~-~l~~l~~~g~f~~dL~~r-L~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~  415 (520)
T PRK10820        338 VDVRVICATQK-NLVELVQKGEFREDLYYR-LNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLT  415 (520)
T ss_pred             eeeEEEEecCC-CHHHHHHcCCccHHHHhh-cCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHh
Confidence            35667775543 2222     133445555 5557899999964  46666555444321      23468999999987


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~a  361 (517)
                      .+  ...|++|..-+++.+|+..+
T Consensus       416 ~y--~WPGNvreL~nvl~~a~~~~  437 (520)
T PRK10820        416 RY--GWPGNVRQLKNAIYRALTQL  437 (520)
T ss_pred             cC--CCCCHHHHHHHHHHHHHHhC
Confidence            63  47899999999998888654

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.95  E-value=9e-09  Score=103.53  Aligned_cols=220  Identities=17%  Similarity=0.158  Sum_probs=139.9

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.++|-....+++.+.++..  .....+++|.|++||||+.+|+.+-..-...   .+   -.||.+||..+..--...
T Consensus        77 ~~~LIG~~~~~~~~~eqik~~--ap~~~~vLi~GetGtGKel~A~~iH~~s~r~---~~---~PFI~~NCa~~~en~~~~  148 (403)
T COG1221          77 LDDLIGESPSLQELREQIKAY--APSGLPVLIIGETGTGKELFARLIHALSARR---AE---APFIAFNCAAYSENLQEA  148 (403)
T ss_pred             hhhhhccCHHHHHHHHHHHhh--CCCCCcEEEecCCCccHHHHHHHHHHhhhcc---cC---CCEEEEEHHHhCcCHHHH
Confidence            357899999999999998873  3456789999999999999999987322211   11   369999999886543321


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFI  274 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~  274 (517)
                      .     |.|..++...+. ...=.-+|.      .-..-.||+|||..|....|..|..+++...        .....|-
T Consensus       149 e-----LFG~~kGaftGa-~~~k~Glfe------~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVR  216 (403)
T COG1221         149 E-----LFGHEKGAFTGA-QGGKAGLFE------QANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVR  216 (403)
T ss_pred             H-----Hhccccceeecc-cCCcCchhe------ecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCce
Confidence            1     222222111000 000011233      1223489999999999988888888777621        2346788


Q ss_pred             EEEEECCCCcchhhcc--cccccCCCceEEEeCCCCH--HHHHHHHHHHHh------hhccCCCChhHHHHHHHHHHHHh
Q 010136          275 LIGIANAIDLADRFLP--RLQSMNCKPLVVTFRAYSK--DQIIRILQERLM------ELSYIVFQPQALELCARKVAAAS  344 (517)
Q Consensus       275 lI~ian~~~~~~~l~~--~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~------~~~~~~~~~~ai~~ia~~~~~~~  344 (517)
                      +|++|| .++.+.+..  .+..| +.+..|.+||+..  .|+...+.+-+.      +.....+.++++..+-.+  ...
T Consensus       217 li~AT~-~~l~~~~~~g~dl~~r-l~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y--~~p  292 (403)
T COG1221         217 LICATT-EDLEEAVLAGADLTRR-LNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAY--DWP  292 (403)
T ss_pred             eeeccc-cCHHHHHHhhcchhhh-hcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhC--CCC
Confidence            888555 556666666  66665 4567999999865  444444444332      122234445666665442  368


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHH
Q 010136          345 GDMRKALSVCRSAIEILEAEMR  366 (517)
Q Consensus       345 Gd~R~al~ll~~A~~~a~~~~~  366 (517)
                      |++|...+++++++..+..+..
T Consensus       293 GNirELkN~Ve~~~~~~~~~~~  314 (403)
T COG1221         293 GNIRELKNLVERAVAQASGEGQ  314 (403)
T ss_pred             CcHHHHHHHHHHHHHHhccccC
Confidence            9999999999999876654433

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.88  E-value=2.5e-08  Score=110.27  Aligned_cols=214  Identities=15%  Similarity=0.192  Sum_probs=136.6

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      ..+.++|+...++.+.+.+.....  ...+++|+|++|||||++|+++......       ....++.+||..... ..+
T Consensus       374 ~~~~liG~S~~~~~~~~~~~~~a~--~~~pVLI~GE~GTGK~~lA~~ih~~s~r-------~~~~~v~i~c~~~~~-~~~  443 (686)
T PRK15429        374 EFGEIIGRSEAMYSVLKQVEMVAQ--SDSTVLILGETGTGKELIARAIHNLSGR-------NNRRMVKMNCAAMPA-GLL  443 (686)
T ss_pred             cccceeecCHHHHHHHHHHHHHhC--CCCCEEEECCCCcCHHHHHHHHHHhcCC-------CCCCeEEEecccCCh-hHh
Confidence            345799999999999888887653  4568999999999999999998654321       113699999998742 222


Q ss_pred             HHHHHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCc
Q 010136          202 FSKILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSR  272 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~  272 (517)
                      -..    +.+..... .+.. ...+ ..|.      ....-+||||||+.|....|..|..+++...        .....
T Consensus       444 ~~~----lfg~~~~~~~g~~-~~~~-g~le------~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~  511 (686)
T PRK15429        444 ESD----LFGHERGAFTGAS-AQRI-GRFE------LADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTD  511 (686)
T ss_pred             hhh----hcCcccccccccc-cchh-hHHH------hcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccce
Confidence            222    22222111 1111 1111 1232      1123589999999998888877777775421        11245


Q ss_pred             EEEEEEECCCCcchh-----hcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHH
Q 010136          273 FILIGIANAIDLADR-----FLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARK  339 (517)
Q Consensus       273 v~lI~ian~~~~~~~-----l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~  339 (517)
                      +-+|++++. ++...     +...+..+ +....|.+||+..  +++-.++...+..+      ....|++++++.+..+
T Consensus       512 ~RiI~~t~~-~l~~~~~~~~f~~~L~~~-l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y  589 (686)
T PRK15429        512 VRLIAATNR-DLKKMVADREFRSDLYYR-LNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNM  589 (686)
T ss_pred             EEEEEeCCC-CHHHHHHcCcccHHHHhc-cCeeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhC
Confidence            677876653 22221     22233334 4556899999964  66766666555422      1235899999998774


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHH
Q 010136          340 VAAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a  361 (517)
                        ...|++|..-+++++|+..+
T Consensus       590 --~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        590 --EWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             --CCCCcHHHHHHHHHHHHHhC
Confidence              57899999999999888543

>PRK15115 response regulator GlrR; Provisional

Probab=98.86  E-value=2.6e-08  Score=104.81  Aligned_cols=211  Identities=16%  Similarity=0.186  Sum_probs=127.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .++|....+..+.+.+....  .....++|+|++|||||++++.+......       ....++.+||..+.. ..+   
T Consensus       135 ~lig~s~~~~~~~~~~~~~a--~~~~~vli~Ge~GtGk~~lA~~ih~~s~r-------~~~~f~~i~c~~~~~-~~~---  201 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVA--QSDVSVLINGQSGTGKEILAQAIHNASPR-------ASKPFIAINCGALPE-QLL---  201 (444)
T ss_pred             cccccCHHHHHHHHHHHhhc--cCCCeEEEEcCCcchHHHHHHHHHHhcCC-------CCCCeEEEeCCCCCH-HHH---
Confidence            46777777666666555443  24567999999999999999998664321       113699999998733 222   


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEEEE
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFILI  276 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~lI  276 (517)
                       ...+.+......... ...-...+.      .....+|||||||.|....|..|..+++....        ....+-+|
T Consensus       202 -~~~lfg~~~~~~~~~-~~~~~g~~~------~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii  273 (444)
T PRK15115        202 -ESELFGHARGAFTGA-VSNREGLFQ------AAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRII  273 (444)
T ss_pred             -HHHhcCCCcCCCCCC-ccCCCCcEE------ECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEE
Confidence             222222221111000 000000121      12234899999999998888888777754221        12356777


Q ss_pred             EEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHHH
Q 010136          277 GIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       277 ~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~~  343 (517)
                      ++++. ++..     .+.+.+..+ +....|.+||+..  +++..++...+..+      ....+++++++.+..+  ..
T Consensus       274 ~~~~~-~l~~~~~~~~f~~~l~~~-l~~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--~W  349 (444)
T PRK15115        274 SATHR-DLPKAMARGEFREDLYYR-LNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTA--SW  349 (444)
T ss_pred             EeCCC-CHHHHHHcCCccHHHHHh-hceeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhC--CC
Confidence            76653 3222     222334444 4556888888854  56666655555422      1135899999999874  46


Q ss_pred             hCCHHHHHHHHHHHHHH
Q 010136          344 SGDMRKALSVCRSAIEI  360 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~  360 (517)
                      .|++|...+++++|+..
T Consensus       350 pgNvreL~~~i~~~~~~  366 (444)
T PRK15115        350 PGNVRQLVNVIEQCVAL  366 (444)
T ss_pred             CChHHHHHHHHHHHHHh
Confidence            89999999999998754

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=98.86  E-value=1.8e-08  Score=103.15  Aligned_cols=217  Identities=16%  Similarity=0.157  Sum_probs=140.7

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      ....++|+...++++...+.....  ..-+++|+|++||||-.+|+++-+.-.+    .+   -+||.|||..+.  ..+
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~--s~a~VLI~GESGtGKElvAr~IH~~S~R----~~---~PFVavNcaAip--~~l  207 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAP--SDASVLITGESGTGKELVARAIHQASPR----AK---GPFIAVNCAAIP--ENL  207 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHhC--CCCCEEEECCCCCcHHHHHHHHHhhCcc----cC---CCceeeecccCC--HHH
Confidence            345799999999999999988654  5678999999999999999997544322    22   269999999873  332


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcE
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRF  273 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v  273 (517)
                         +-++|.++.++...+.... -.-.|+      ....-.||||||..|...-|.-|...++...        .-...|
T Consensus       208 ---~ESELFGhekGAFTGA~~~-r~G~fE------~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdv  277 (464)
T COG2204         208 ---LESELFGHEKGAFTGAITR-RIGRFE------QANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDV  277 (464)
T ss_pred             ---HHHHhhcccccCcCCcccc-cCccee------EcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceee
Confidence               2334555444322221000 011232      1223589999999998777765555554421        123567


Q ss_pred             EEEEEECCCCcchh-----hcccccccCCCceEEEeCCCC--HHHHHHHHHHHHh------hhccCCCChhHHHHHHHHH
Q 010136          274 ILIGIANAIDLADR-----FLPRLQSMNCKPLVVTFRAYS--KDQIIRILQERLM------ELSYIVFQPQALELCARKV  340 (517)
Q Consensus       274 ~lI~ian~~~~~~~-----l~~~l~sr~~~~~~i~f~p~~--~~e~~~IL~~rl~------~~~~~~~~~~ai~~ia~~~  340 (517)
                      -||++||. |+.+.     +..-|.-| +..-.|.+||+-  .+++--++.+-+.      +.....|++++++.+..+ 
T Consensus       278 RiIaaT~~-dL~~~v~~G~FReDLyyR-LnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y-  354 (464)
T COG2204         278 RIIAATNR-DLEEEVAAGRFREDLYYR-LNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAY-  354 (464)
T ss_pred             EEEeecCc-CHHHHHHcCCcHHHHHhh-hccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhC-
Confidence            78887763 33322     22333334 444578888884  4666555555443      234578899999988763 


Q ss_pred             HHHhCCHHHHHHHHHHHHHHHHH
Q 010136          341 AAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                       ...|++|..-+++.+++-++..
T Consensus       355 -~WPGNVREL~N~ver~~il~~~  376 (464)
T COG2204         355 -DWPGNVRELENVVERAVILSEG  376 (464)
T ss_pred             -CCChHHHHHHHHHHHHHhcCCc
Confidence             5789999999999998866554

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.84  E-value=1.5e-07  Score=92.47  Aligned_cols=175  Identities=9%  Similarity=0.068  Sum_probs=113.8

Q ss_pred             HHHHHHHhhccCCCCeEE-EEcCCCCcHHHHHHHHHHHHHHHHH---hcCCCCceEEEEe--CCCCCCHHHHHHHHHHHh
Q 010136          136 VLEFCKKNLEEEKAGSLY-VCGCPGTGKSLSMEKVQHYLVDWAK---EAGLQQPEVFSIN--CTSLTNTSEIFSKILLKL  209 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~ll-i~G~pGtGKT~l~~~v~~~l~~~~~---~~~~~~~~~v~vn--~~~~~s~~~i~~~i~~~l  209 (517)
                      +...+...+..+...++| |+|+.|.||+.+++.+++.+.+...   ..+.....+.+++  +.. .+            
T Consensus         4 ~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~-i~------------   70 (299)
T PRK07132          4 WIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKD-LS------------   70 (299)
T ss_pred             HHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCc-CC------------
Confidence            556677777766666666 9999999999999999998854221   0011111334443  211 11            


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHhh-hcc-CCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchh
Q 010136          210 QPRKKLNGSTSPLQYLQNLYSQK-LHS-SVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADR  287 (517)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~~~~~~-~~~-~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~  287 (517)
                                  .+.++.+.... ... ..+...|++||++|.+....++.|...++.   +...+++|.+++.   ++.
T Consensus        71 ------------vd~Ir~l~~~~~~~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEE---Pp~~t~~il~~~~---~~k  132 (299)
T PRK07132         71 ------------KSEFLSAINKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEE---PPKDTYFLLTTKN---INK  132 (299)
T ss_pred             ------------HHHHHHHHHHhccCCcccCCceEEEEecccccCHHHHHHHHHHhhC---CCCCeEEEEEeCC---hHh
Confidence                        22233332221 111 124678999999999977667777777766   3456677776763   478


Q ss_pred             hcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          288 FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       288 l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                      +.+.++|| |  +.+.|.|++.+++.+.|..+  +     ++++....+|    ..+|++.+|+.++.
T Consensus       133 ll~TI~SR-c--~~~~f~~l~~~~l~~~l~~~--~-----~~~~~a~~~a----~~~~~~~~a~~~~~  186 (299)
T PRK07132        133 VLPTIVSR-C--QVFNVKEPDQQKILAKLLSK--N-----KEKEYNWFYA----YIFSNFEQAEKYIN  186 (299)
T ss_pred             ChHHHHhC-e--EEEECCCCCHHHHHHHHHHc--C-----CChhHHHHHH----HHcCCHHHHHHHHh
Confidence            88999999 7  79999999999999888754  1     3444444444    35667888887753

>PHA02244 ATPase-like protein

Probab=98.84  E-value=4.9e-08  Score=97.04  Aligned_cols=150  Identities=14%  Similarity=0.123  Sum_probs=93.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      ..++....+......+..++.  ...+++|+||||||||+++++++..++          ..++.+|+..  +...    
T Consensus        97 ~~ig~sp~~~~~~~ri~r~l~--~~~PVLL~GppGtGKTtLA~aLA~~lg----------~pfv~In~l~--d~~~----  158 (383)
T PHA02244         97 TKIASNPTFHYETADIAKIVN--ANIPVFLKGGAGSGKNHIAEQIAEALD----------LDFYFMNAIM--DEFE----  158 (383)
T ss_pred             cccCCCHHHHHHHHHHHHHHh--cCCCEEEECCCCCCHHHHHHHHHHHhC----------CCEEEEecCh--HHHh----
Confidence            466777777666666666665  456899999999999999999998753          3578887431  1111    


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC--------CCCCCcEEEE
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT--------TFPFSRFILI  276 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~--------~~~~~~v~lI  276 (517)
                          +.+.... .+......+...+        ....+|+|||++.+....+..|..+++..        .....++.+|
T Consensus       159 ----L~G~i~~-~g~~~dgpLl~A~--------~~GgvLiLDEId~a~p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlI  225 (383)
T PHA02244        159 ----LKGFIDA-NGKFHETPFYEAF--------KKGGLFFIDEIDASIPEALIIINSAIANKFFDFADERVTAHEDFRVI  225 (383)
T ss_pred             ----hcccccc-cccccchHHHHHh--------hcCCEEEEeCcCcCCHHHHHHHHHHhccCeEEecCcEEecCCCEEEE
Confidence                1111100 0110001122222        23469999999999877677777776521        1123578999


Q ss_pred             EEECCCC------c--chhhcccccccCCCceEEEeCCCC
Q 010136          277 GIANAID------L--ADRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       277 ~ian~~~------~--~~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                      +++|...      +  ...+.+.+.+| |  ..|.|.-++
T Consensus       226 ATsN~~~~G~~~~y~G~k~L~~AllDR-F--v~I~~dyp~  262 (383)
T PHA02244        226 SAGNTLGKGADHIYVARNKIDGATLDR-F--APIEFDYDE  262 (383)
T ss_pred             EeeCCCccCcccccCCCcccCHHHHhh-c--EEeeCCCCc
Confidence            9999742      1  24567888888 6  467776655

>PF05729 NACHT: NACHT domain

Probab=98.83  E-value=4.6e-08  Score=87.92  Aligned_cols=152  Identities=22%  Similarity=0.351  Sum_probs=87.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH---HHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS---EIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~---~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .++|+|+||+|||++++.++..+......... ...++++++.......   .+...|...+....     ......+..
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~~~~~~~~~   75 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSK-FPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-----APIEELLQE   75 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCccccc-ceEEEEEeehhhhhccccchHHHHHHHhhccch-----hhhHHHHHH
Confidence            57899999999999999999888754321110 1235566666554432   34444444442211     111112222


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccCch--------HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCc
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRDRA--------VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKP  299 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~--------~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~  299 (517)
                      +..      ....++|+||-+|.+....+.        .|..++.....++.++++.  ++.....+ +...+.    ..
T Consensus        76 ~~~------~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit--~r~~~~~~-~~~~~~----~~  142 (166)
T PF05729_consen   76 LLE------KNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIIT--SRPRAFPD-LRRRLK----QA  142 (166)
T ss_pred             HHH------cCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEE--EcCChHHH-HHHhcC----CC
Confidence            332      456789999999999875332        3444443322344444443  44332222 222222    22


Q ss_pred             eEEEeCCCCHHHHHHHHHHHHh
Q 010136          300 LVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       300 ~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                      ..+.+.+++.+++.++++..+.
T Consensus       143 ~~~~l~~~~~~~~~~~~~~~f~  164 (166)
T PF05729_consen  143 QILELEPFSEEDIKQYLRKYFS  164 (166)
T ss_pred             cEEEECCCCHHHHHHHHHHHhh
Confidence            5899999999999999987764

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.82  E-value=4.1e-07  Score=87.65  Aligned_cols=117  Identities=22%  Similarity=0.305  Sum_probs=77.7

Q ss_pred             ceEEEEEeCcchhcccC------------chHHHHHhccCC-------CCCCcEEEEEEECCCC--cchhhcccccccCC
Q 010136          239 KMMLIIADELDYLITRD------------RAVLHDLFMLTT-------FPFSRFILIGIANAID--LADRFLPRLQSMNC  297 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~------------~~~L~~l~~~~~-------~~~~~v~lI~ian~~~--~~~~l~~~l~sr~~  297 (517)
                      ..-||||||||.++.+.            |..|.-|++-.+       ....++.+|+ +....  -|..|.|.|+.| |
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIa-sGAFh~sKPSDLiPELQGR-f  327 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIA-SGAFHVAKPSDLIPELQGR-F  327 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEe-cCceecCChhhcChhhcCC-C
Confidence            34699999999998653            223444444322       1234677776 44432  466788999999 5


Q ss_pred             CceEEEeCCCCHHHHHHHHHHHH-------hhh-----ccCCCChhHHHHHHHHHHHHhC-----CHHHHHHHHHHHH
Q 010136          298 KPLVVTFRAYSKDQIIRILQERL-------MEL-----SYIVFQPQALELCARKVAAASG-----DMRKALSVCRSAI  358 (517)
Q Consensus       298 ~~~~i~f~p~~~~e~~~IL~~rl-------~~~-----~~~~~~~~ai~~ia~~~~~~~G-----d~R~al~ll~~A~  358 (517)
                       |-++.+.+++.++...||..--       ..+     -.-.|++++|+.+|+.......     .+|+...++.+..
T Consensus       328 -PIRVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlL  404 (444)
T COG1220         328 -PIRVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLL  404 (444)
T ss_pred             -ceEEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHH
Confidence             6699999999999999986411       111     0247899999999987655443     3666666655544

>PF13173 AAA_14: AAA domain

Probab=98.82  E-value=1.9e-08  Score=86.70  Aligned_cols=126  Identities=17%  Similarity=0.191  Sum_probs=76.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+.++|+||+|+|||++++.+++.+..        .-.++|+|+..........                   .+ +.+.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~--------~~~~~yi~~~~~~~~~~~~-------------------~~-~~~~   53 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLP--------PENILYINFDDPRDRRLAD-------------------PD-LLEY   53 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcc--------cccceeeccCCHHHHHHhh-------------------hh-hHHH
Confidence            357899999999999999999988761        0258999987743211100                   00 1222


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                      +.+.   ...+..+||||||+.+.. -...+..+.+..  ++.++++.| ++...+.......+..| .  ..+.+.|++
T Consensus        54 ~~~~---~~~~~~~i~iDEiq~~~~-~~~~lk~l~d~~--~~~~ii~tg-S~~~~l~~~~~~~l~gr-~--~~~~l~Pls  123 (128)
T PF13173_consen   54 FLEL---IKPGKKYIFIDEIQYLPD-WEDALKFLVDNG--PNIKIILTG-SSSSLLSKDIAESLAGR-V--IEIELYPLS  123 (128)
T ss_pred             HHHh---hccCCcEEEEehhhhhcc-HHHHHHHHHHhc--cCceEEEEc-cchHHHhhcccccCCCe-E--EEEEECCCC
Confidence            2211   012567899999999842 345566666532  344565555 33333333344555555 4  578999999


Q ss_pred             HHHH
Q 010136          309 KDQI  312 (517)
Q Consensus       309 ~~e~  312 (517)
                      ..|.
T Consensus       124 f~E~  127 (128)
T PF13173_consen  124 FREF  127 (128)
T ss_pred             HHHh
Confidence            8875

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.81  E-value=2e-08  Score=102.90  Aligned_cols=223  Identities=18%  Similarity=0.184  Sum_probs=137.6

Q ss_pred             cCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          117 LHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       117 l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +...|..++++|...++.++.........  ...+++|.|.+||||-.+|+++-+.-.+.       .-+|+.|||..+ 
T Consensus       238 ~~a~y~f~~Iig~S~~m~~~~~~akr~A~--tdstVLi~GESGTGKElfA~~IH~~S~R~-------~~PFIaiNCaAi-  307 (560)
T COG3829         238 LKAKYTFDDIIGESPAMLRVLELAKRIAK--TDSTVLILGESGTGKELFARAIHNLSPRA-------NGPFIAINCAAI-  307 (560)
T ss_pred             cccccchhhhccCCHHHHHHHHHHHhhcC--CCCcEEEecCCCccHHHHHHHHHhcCccc-------CCCeEEEecccC-
Confidence            44567788999999999998888777543  56789999999999999999986543332       136999999987 


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhcc--------CCC
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFML--------TTF  268 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~--------~~~  268 (517)
                       |..++   -++|.+...+...+....-=.-+|+      ....--||||||..|...=|.-|...++.        ...
T Consensus       308 -Pe~Ll---ESELFGye~GAFTGA~~~GK~GlfE------~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~  377 (560)
T COG3829         308 -PETLL---ESELFGYEKGAFTGASKGGKPGLFE------LANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKP  377 (560)
T ss_pred             -CHHHH---HHHHhCcCCccccccccCCCCccee------eccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCc
Confidence             44442   3344444333221110000001232      11224789999999976656555554443        122


Q ss_pred             CCCcEEEEEEECCCCcchhh-ccccccc---CCCceEEEeCCCC--HHHHHHHHHHHHhhh------ccCCCChhHHHHH
Q 010136          269 PFSRFILIGIANAIDLADRF-LPRLQSM---NCKPLVVTFRAYS--KDQIIRILQERLMEL------SYIVFQPQALELC  336 (517)
Q Consensus       269 ~~~~v~lI~ian~~~~~~~l-~~~l~sr---~~~~~~i~f~p~~--~~e~~~IL~~rl~~~------~~~~~~~~ai~~i  336 (517)
                      ....|-+|++||.. +.+-+ ..+++.-   ++..-.|.+||+-  .+++..+..+-+..+      ....++++++..+
T Consensus       378 ~~vDVRIIAATN~n-L~~~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L  456 (560)
T COG3829         378 IPVDVRIIAATNRN-LEKMIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALL  456 (560)
T ss_pred             eeeEEEEEeccCcC-HHHHHhcCcchhhheeeeceeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHHHH
Confidence            34678899988842 22211 1222221   1333466777773  355555544444321      2245889999988


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHH
Q 010136          337 ARKVAAASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       337 a~~~~~~~Gd~R~al~ll~~A~~~a~  362 (517)
                      .++  ...|++|..-+++.+++.++.
T Consensus       457 ~~y--~WPGNVRELeNviER~v~~~~  480 (560)
T COG3829         457 LRY--DWPGNVRELENVIERAVNLVE  480 (560)
T ss_pred             HhC--CCCchHHHHHHHHHHHHhccC
Confidence            774  578999998888888876443

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.81  E-value=5e-08  Score=96.59  Aligned_cols=187  Identities=20%  Similarity=0.283  Sum_probs=117.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      -.++++.||.|+|||.+++.+++-+.          ++|+-++|..++..                ++.|...+..|+++
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ld----------VPfaIcDcTtLTQA----------------GYVGeDVEsvi~KL  279 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLD----------VPFAICDCTTLTQA----------------GYVGEDVESVIQKL  279 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhC----------CCeEEecccchhhc----------------ccccccHHHHHHHH
Confidence            45899999999999999999998874          67999999987532                22245545556666


Q ss_pred             HHhh-hccCCCceEEEEEeCcchhcccC--------------chHHHHHhccC-----CC-------------CCCcEEE
Q 010136          229 YSQK-LHSSVMKMMLIIADELDYLITRD--------------RAVLHDLFMLT-----TF-------------PFSRFIL  275 (517)
Q Consensus       229 ~~~~-~~~~~~~~~vI~iDEiD~L~~~~--------------~~~L~~l~~~~-----~~-------------~~~~v~l  275 (517)
                      +... ..-.....-|+||||+|.+....              |..|..|++-.     ..             ...+|.+
T Consensus       280 l~~A~~nVekAQqGIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILF  359 (564)
T KOG0745|consen  280 LQEAEYNVEKAQQGIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILF  359 (564)
T ss_pred             HHHccCCHHHHhcCeEEEehhhhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEE
Confidence            6531 11112344699999999998431              45677776541     00             1234555


Q ss_pred             EEEEC--CCC-----------------------------------------cch----------hhcccccccCCCceEE
Q 010136          276 IGIAN--AID-----------------------------------------LAD----------RFLPRLQSMNCKPLVV  302 (517)
Q Consensus       276 I~ian--~~~-----------------------------------------~~~----------~l~~~l~sr~~~~~~i  302 (517)
                      |+-.-  .+|                                         +.+          -+.|.+.-| | |..+
T Consensus       360 iasGAF~~Ldk~I~rR~~d~slGFg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGR-f-PVlV  437 (564)
T KOG0745|consen  360 IASGAFVGLDKIISRRLDDKSLGFGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGR-F-PVLV  437 (564)
T ss_pred             EecccccchHHHHHHhhcchhcccCCCCCccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcc-c-ceEe
Confidence            54111  000                                         000          012455555 4 6688


Q ss_pred             EeCCCCHHHHHHHHHHHH-------hhh-c----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Q 010136          303 TFRAYSKDQIIRILQERL-------MEL-S----YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       303 ~f~p~~~~e~~~IL~~rl-------~~~-~----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                      .|.+++.+++..||..=-       +.+ .    .-.|+++|++.||+..-...-.+|-.-.++..++.-|+-
T Consensus       438 plh~L~~~~Lv~VLtEPknaL~~Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~Lleamf  510 (564)
T KOG0745|consen  438 PLHSLDEDQLVRVLTEPKNALGKQYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEAMF  510 (564)
T ss_pred             eccccCHHHHHHHHhcchhhHHHHHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHHhhhcc
Confidence            899999999999987421       111 0    236789999999997655555677655666666655443

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.80  E-value=1.1e-07  Score=92.57  Aligned_cols=189  Identities=16%  Similarity=0.152  Sum_probs=112.8

Q ss_pred             HHHHHHHHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhC
Q 010136          132 EQKKVLEFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQ  210 (517)
Q Consensus       132 e~~~l~~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~  210 (517)
                      ....+...|...+..++.. ..+|+|+  +||+++++.+++.+.+.....+.        .|....+...+    ...-.
T Consensus         6 ~q~~~~~~L~~~~~~~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~--------~Cg~C~~C~~i----~~~~H   71 (290)
T PRK07276          6 KQPKVFQRFQTILEQDRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVL--------PCGHCRSCRLI----EQGEF   71 (290)
T ss_pred             HHHHHHHHHHHHHHcCCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCC--------CCCCCHHHHHH----hcCCC
Confidence            3445666677777666644 5678895  78999999999888653211000        11111111111    00000


Q ss_pred             CCC---CCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcch
Q 010136          211 PRK---KLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLAD  286 (517)
Q Consensus       211 ~~~---~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~  286 (517)
                      ...   .+....-..+.++.+.... .....+...|+|||++|.|.....+.|...++.+   ..+.++|.+++.   ++
T Consensus        72 PD~~~i~p~~~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEP---p~~t~~iL~t~~---~~  145 (290)
T PRK07276         72 SDVTVIEPQGQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEP---QSEIYIFLLTND---EN  145 (290)
T ss_pred             CCeeeecCCCCcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhcCHHHHHHHHHHhcCC---CCCeEEEEEECC---hh
Confidence            000   0000111144455444321 1223455679999999999887788888888764   456777777874   77


Q ss_pred             hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          287 RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       287 ~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                      .+.|.++|| |  +.|.|++ +.+++.++|...       .++.+..+.+    +...|++..|+.++.
T Consensus       146 ~lLpTI~SR-c--q~i~f~~-~~~~~~~~L~~~-------g~~~~~a~~l----a~~~~s~~~A~~l~~  199 (290)
T PRK07276        146 KVLPTIKSR-T--QIFHFPK-NEAYLIQLLEQK-------GLLKTQAELL----AKLAQSTSEAEKLAQ  199 (290)
T ss_pred             hCchHHHHc-c--eeeeCCC-cHHHHHHHHHHc-------CCChHHHHHH----HHHCCCHHHHHHHhC
Confidence            889999999 7  7999977 788888777632       2333333333    346778988888874

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=98.80  E-value=4.1e-08  Score=99.32  Aligned_cols=216  Identities=15%  Similarity=0.169  Sum_probs=134.3

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      -...++|+...+.++.+.+.-...  ....++|.|..||||-.+|++|-+.-.+    .+   -.+|++||..+  +..+
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~--Sd~tVLi~GETGtGKElvAraIH~~S~R----~~---kPfV~~NCAAl--PesL  289 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAK--SDSTVLIRGETGTGKELVARAIHQLSPR----RD---KPFVKLNCAAL--PESL  289 (550)
T ss_pred             ccccceecCHHHHHHHHHHHHHhc--CCCeEEEecCCCccHHHHHHHHHhhCcc----cC---CCceeeecccc--chHH
Confidence            345899999999999999887654  5678999999999999999997544322    11   26999999987  3333


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC--------CCCCCcE
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT--------TFPFSRF  273 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~--------~~~~~~v  273 (517)
                         +-++|.++.++...+. ...=.-.|+   + ..  .--||||||-.|.-.-|.-|...+...        ..-...|
T Consensus       290 ---lESELFGHeKGAFTGA-~~~r~GrFE---l-Ad--GGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDV  359 (550)
T COG3604         290 ---LESELFGHEKGAFTGA-INTRRGRFE---L-AD--GGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDV  359 (550)
T ss_pred             ---HHHHHhcccccccccc-hhccCccee---e-cC--CCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEE
Confidence               2344555544432222 000011122   1 12  246899999999776665444444331        1123568


Q ss_pred             EEEEEECCCCcchhh-cccccccC---CCceEEEeCCCCH--HH---HHHHHHHHHh---hhccCCCChhHHHHHHHHHH
Q 010136          274 ILIGIANAIDLADRF-LPRLQSMN---CKPLVVTFRAYSK--DQ---IIRILQERLM---ELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       274 ~lI~ian~~~~~~~l-~~~l~sr~---~~~~~i~f~p~~~--~e---~~~IL~~rl~---~~~~~~~~~~ai~~ia~~~~  341 (517)
                      -||++||. |+.+.. +.+++.-+   +..-.|.+||+-.  ++   +...+..+..   +.....+++++++.+..+  
T Consensus       360 RiIAATNR-DL~~~V~~G~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y--  436 (550)
T COG3604         360 RVIAATNR-DLEEMVRDGEFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSY--  436 (550)
T ss_pred             EEEeccch-hHHHHHHcCcchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHcC--
Confidence            89998884 222221 22222221   2233566777632  33   3333333332   233468899999998774  


Q ss_pred             HHhCCHHHHHHHHHHHHHHH
Q 010136          342 AASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a  361 (517)
                      ...|++|..-+++.+|+-+|
T Consensus       437 ~wPGNVRELen~veRavlla  456 (550)
T COG3604         437 EWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             CCCCcHHHHHHHHHHHHHHh
Confidence            47899999999999999877

>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=98.79  E-value=8.9e-09  Score=92.81  Aligned_cols=135  Identities=17%  Similarity=0.161  Sum_probs=81.6

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      ++|.+..+.++.+.++....  .+.+++|+|++||||+.+|+++-+....       ..-+|+.|||..+. ...+-..+
T Consensus         1 liG~s~~m~~~~~~~~~~a~--~~~pVlI~GE~GtGK~~lA~~IH~~s~r-------~~~pfi~vnc~~~~-~~~~e~~L   70 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAAS--SDLPVLITGETGTGKELLARAIHNNSPR-------KNGPFISVNCAALP-EELLESEL   70 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTT--STS-EEEECSTTSSHHHHHHHHHHCSTT-------TTS-EEEEETTTS--HHHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHHhC--CCCCEEEEcCCCCcHHHHHHHHHHhhhc-------ccCCeEEEehhhhh-cchhhhhh
Confidence            57888888999999888764  4589999999999999999998653221       12369999999873 33333333


Q ss_pred             HHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEEEEE
Q 010136          206 LLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFILIG  277 (517)
Q Consensus       206 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~lI~  277 (517)
                      +..-.+.........     .-+|.+      ...-+||||||+.|....|..|..+++...        ....++-+|+
T Consensus        71 FG~~~~~~~~~~~~~-----~G~l~~------A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~  139 (168)
T PF00158_consen   71 FGHEKGAFTGARSDK-----KGLLEQ------ANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIA  139 (168)
T ss_dssp             HEBCSSSSTTTSSEB-----EHHHHH------TTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEE
T ss_pred             hcccccccccccccc-----CCceee------ccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEe
Confidence            322211111100000     123331      122489999999999988988888887421        1124788888


Q ss_pred             EECC
Q 010136          278 IANA  281 (517)
Q Consensus       278 ian~  281 (517)
                      +|+.
T Consensus       140 st~~  143 (168)
T PF00158_consen  140 STSK  143 (168)
T ss_dssp             EESS
T ss_pred             ecCc
Confidence            7773

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 ....

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.79  E-value=3.8e-08  Score=102.99  Aligned_cols=140  Identities=14%  Similarity=0.161  Sum_probs=90.7

Q ss_pred             eEEEEEeCcchhcccCchHHHHHhccCCC----------CCCcEEEEEEECCCC---cc---------------hhhccc
Q 010136          240 MMLIIADELDYLITRDRAVLHDLFMLTTF----------PFSRFILIGIANAID---LA---------------DRFLPR  291 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~~~~L~~l~~~~~~----------~~~~v~lI~ian~~~---~~---------------~~l~~~  291 (517)
                      .-+|||||++.+....++.|.+.++....          ...++.+|+++|...   +.               .++.+.
T Consensus       295 gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~p  374 (506)
T PRK09862        295 NGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGP  374 (506)
T ss_pred             CCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHh
Confidence            35999999999987778888887754221          235789999999753   11               246667


Q ss_pred             ccccCCCceEEEeCCCCHHHHHH---------HHHHHHh----------h-hc----------cCCCChhHHHHHHHHHH
Q 010136          292 LQSMNCKPLVVTFRAYSKDQIIR---------ILQERLM----------E-LS----------YIVFQPQALELCARKVA  341 (517)
Q Consensus       292 l~sr~~~~~~i~f~p~~~~e~~~---------IL~~rl~----------~-~~----------~~~~~~~ai~~ia~~~~  341 (517)
                      +.+| |.. .+.+++.+.+++..         -+..++.          + +.          ...+++++.+++...+.
T Consensus       375 lLDR-fdL-~v~v~~~~~~~l~~~~~~~ess~~i~~rV~~ar~~q~~r~~~~n~~l~~~~l~~~~~l~~~~~~~l~~~~~  452 (506)
T PRK09862        375 FLDR-FDL-SLEIPLPPPGILSKTVVPGESSATVKQRVMAARERQFKRQNKLNAWLDSPEIRQFCKLESEDARWLEETLI  452 (506)
T ss_pred             HHhh-ccE-EEEeCCCCHHHHhcccCCCCChHHHHHHHhhHHHHHHHHHHHHhcccCHHHHHHHhCCCHHHHHHHHHHHH
Confidence            8888 644 66777664332211         1111110          0 00          12344445454444333


Q ss_pred             HHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHh
Q 010136          342 AASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~  409 (517)
                      ...-..|....+++-|..+|..++++                            .|+.+||.+|+.--
T Consensus       453 ~~~lS~Ra~~rlLrvARTiADL~g~~----------------------------~V~~~hv~eAl~yR  492 (506)
T PRK09862        453 HLGLSIRAWQRLLKVARTIADIDQSD----------------------------IITRQHLQEAVSYR  492 (506)
T ss_pred             HcCCCHHHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHhh
Confidence            33447899999999999999998887                            89999999999743

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.79  E-value=9.5e-08  Score=102.09  Aligned_cols=224  Identities=13%  Similarity=0.071  Sum_probs=141.8

Q ss_pred             HHHHHHHHhhccC-CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH--HHHhCC
Q 010136          135 KVLEFCKKNLEEE-KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI--LLKLQP  211 (517)
Q Consensus       135 ~l~~~L~~~l~~~-~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i--~~~l~~  211 (517)
                      .+...|.-+.-+. ..++++|.|++||||+++++.+...+...        ..|  ++-....+...++..+  ...|..
T Consensus        10 ~~~~Al~l~av~p~~~gGv~i~g~~G~~ks~~~r~l~~llp~~--------~p~--r~~p~~~t~~~L~Gg~Dl~~~l~~   79 (584)
T PRK13406         10 DAALAAALLAVDPAGLGGVVLRARAGPVRDRWLAALRALLPAG--------TPL--RRLPPGIADDRLLGGLDLAATLRA   79 (584)
T ss_pred             HHHHHHHHhCcCccccceEEEEcCCCcHHHHHHHHHHHhcCCC--------CCc--ccCCCCCcHHHccCCchHHhHhhc
Confidence            3444433333334 56899999999999999999988776431        122  2222223333332211  111111


Q ss_pred             CCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC----------CCCcEEEEEEECC
Q 010136          212 RKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF----------PFSRFILIGIANA  281 (517)
Q Consensus       212 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~----------~~~~v~lI~ian~  281 (517)
                      ....             +..... ...+.-||||||+..+..+-++.|.+-++....          ...+|+||++.|.
T Consensus        80 g~~~-------------~~pGll-a~Ah~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~  145 (584)
T PRK13406         80 GRPV-------------AQRGLL-AEADGGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEG  145 (584)
T ss_pred             CCcC-------------CCCCce-eeccCCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCC
Confidence            1110             100001 122346999999999988778888777665211          2367899986554


Q ss_pred             CCcchhhcccccccCCCceEEEeCCCCHHHHH-------HHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHH
Q 010136          282 IDLADRFLPRLQSMNCKPLVVTFRAYSKDQII-------RILQERLMELSYIVFQPQALELCARKVAAASG-DMRKALSV  353 (517)
Q Consensus       282 ~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~-------~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~l  353 (517)
                      .++...+.+.+..| |.. .+.+...+..+..       .|+..|- .+....++++.+++++..+....- ..|-.+.+
T Consensus       146 ~~~~~~L~~~lLDR-f~l-~v~v~~~~~~~~~~~~~~~~~I~~AR~-rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~l  222 (584)
T PRK13406        146 AEEDERAPAALADR-LAF-HLDLDGLALRDAREIPIDADDIAAARA-RLPAVGPPPEAIAALCAAAAALGIASLRAPLLA  222 (584)
T ss_pred             hhcccCCCHHhHhh-eEE-EEEcCCCChHHhcccCCCHHHHHHHHH-HHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHH
Confidence            44555677788888 654 7777766655432       3333332 223467899999999887665543 78999999


Q ss_pred             HHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          354 CRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       354 l~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      ++-|..+|..+++.                            .|+.+||.+|+.-+....
T Consensus       223 lraARa~AaL~Gr~----------------------------~V~~~dv~~Aa~lvL~hR  254 (584)
T PRK13406        223 LRAARAAAALAGRT----------------------------AVEEEDLALAARLVLAPR  254 (584)
T ss_pred             HHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHHHHHhh
Confidence            99999999999887                            899999999988776543

>PRK08116 hypothetical protein; Validated

Probab=98.78  E-value=1.9e-08  Score=97.87  Aligned_cols=159  Identities=18%  Similarity=0.133  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCC
Q 010136          133 QKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP  211 (517)
Q Consensus       133 ~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~  211 (517)
                      +.....++..+... ..+.+++|+|++|||||+++.++++.+...    +   ..+++++...      ++..+...+..
T Consensus        97 ~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~----~---~~v~~~~~~~------ll~~i~~~~~~  163 (268)
T PRK08116         97 YKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEK----G---VPVIFVNFPQ------LLNRIKSTYKS  163 (268)
T ss_pred             HHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEEEHHH------HHHHHHHHHhc
Confidence            33444444443322 223469999999999999999999998652    2   3578887433      34444433321


Q ss_pred             CCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcch--hcccCchHHHHHhccCCCCCCcEEEEEEECCC--Ccchh
Q 010136          212 RKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDY--LITRDRAVLHDLFMLTTFPFSRFILIGIANAI--DLADR  287 (517)
Q Consensus       212 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~--L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~--~~~~~  287 (517)
                      ..    ... ...+.+.+.        ..-+|||||+..  .....++.|+.+++.....+.+  +|.+||..  ++...
T Consensus       164 ~~----~~~-~~~~~~~l~--------~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~--~IiTsN~~~~eL~~~  228 (268)
T PRK08116        164 SG----KED-ENEIIRSLV--------NADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLP--TIVTTNLSLEELKNQ  228 (268)
T ss_pred             cc----ccc-HHHHHHHhc--------CCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCC--EEEECCCCHHHHHHH
Confidence            11    111 222222222        235899999954  3333457788888764222222  44457743  23334


Q ss_pred             hcccccccCC-CceEEEeCCCCHHHHHHHHHHHHh
Q 010136          288 FLPRLQSMNC-KPLVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       288 l~~~l~sr~~-~~~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                      ++.++.+|.+ ....|.|...+.  ...+.+.+++
T Consensus       229 ~~~ri~sRl~e~~~~v~~~g~d~--R~~~~~ek~~  261 (268)
T PRK08116        229 YGKRIYDRILEMCTPVENEGKSY--RKEIAKEKLQ  261 (268)
T ss_pred             HhHHHHHHHHHcCEEEEeeCcCh--hHHHHHHHHH
Confidence            5677777721 123567765543  4445554443

>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=98.77  E-value=8.6e-06  Score=82.23  Aligned_cols=174  Identities=13%  Similarity=0.172  Sum_probs=114.2

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHH-HHHHHHHHHHHHhcCCCCceEEEEeCCCCC---CHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSM-EKVQHYLVDWAKEAGLQQPEVFSINCTSLT---NTSEIFSK  204 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~-~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~---s~~~i~~~  204 (517)
                      |.+.+++|..||...    ....++|.||.|+||+.++ ..+++.-           -.+++|+|..+.   +...+...
T Consensus         1 R~e~~~~L~~wL~e~----~~TFIvV~GPrGSGK~elV~d~~L~~r-----------~~vL~IDC~~i~~ar~D~~~I~~   65 (431)
T PF10443_consen    1 RKEAIEQLKSWLNEN----PNTFIVVQGPRGSGKRELVMDHVLKDR-----------KNVLVIDCDQIVKARGDAAFIKN   65 (431)
T ss_pred             CchHHHHHHHHHhcC----CCeEEEEECCCCCCccHHHHHHHHhCC-----------CCEEEEEChHhhhccChHHHHHH
Confidence            455677788886653    4568999999999999999 6654431           258999998754   45667777


Q ss_pred             HHHHhCCC----------------------CCCCCCCCHHHHHHHHHHh-----------hh---------------ccC
Q 010136          205 ILLKLQPR----------------------KKLNGSTSPLQYLQNLYSQ-----------KL---------------HSS  236 (517)
Q Consensus       205 i~~~l~~~----------------------~~~~~~~~~~~~l~~~~~~-----------~~---------------~~~  236 (517)
                      ++.+++-.                      .+...+.+...++.++|.-           ..               ...
T Consensus        66 lA~qvGY~PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~h  145 (431)
T PF10443_consen   66 LASQVGYFPVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAH  145 (431)
T ss_pred             HHHhcCCCcchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhC
Confidence            77777411                      0111123345555555542           00               001


Q ss_pred             CCceEEEEEeCcchhcccCchHHH-HHhccC----CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHH
Q 010136          237 VMKMMLIIADELDYLITRDRAVLH-DLFMLT----TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQ  311 (517)
Q Consensus       237 ~~~~~vI~iDEiD~L~~~~~~~L~-~l~~~~----~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e  311 (517)
                      .....|||||.+.+-... .+.+| .|.+|.    +..-.+|++  +|++..+...|...+-++-|  +.|.+...+.+.
T Consensus       146 Pe~~PVVVIdnF~~k~~~-~~~iy~~laeWAa~Lv~~nIAHVIF--lT~dv~~~k~LskaLPn~vf--~tI~L~Das~~~  220 (431)
T PF10443_consen  146 PERRPVVVIDNFLHKAEE-NDFIYDKLAEWAASLVQNNIAHVIF--LTDDVSYSKPLSKALPNRVF--KTISLSDASPES  220 (431)
T ss_pred             CccCCEEEEcchhccCcc-cchHHHHHHHHHHHHHhcCccEEEE--ECCCCchhhhHHHhCCCCce--eEEeecCCCHHH
Confidence            122468999999876554 44444 577883    223344444  47777777777777777745  799999999999


Q ss_pred             HHHHHHHHHhh
Q 010136          312 IIRILQERLME  322 (517)
Q Consensus       312 ~~~IL~~rl~~  322 (517)
                      -..++..+|..
T Consensus       221 Ak~yV~~~L~~  231 (431)
T PF10443_consen  221 AKQYVLSQLDE  231 (431)
T ss_pred             HHHHHHHHhcc
Confidence            99999999864

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 [].

>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=98.76  E-value=8.3e-09  Score=93.28  Aligned_cols=108  Identities=18%  Similarity=0.202  Sum_probs=70.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      -.++++.||+|||||.+++.+++.+..     + ..-.++.+||..+.........+...++..     ..        .
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~-----~-~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~-----~~--------~   63 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFV-----G-SERPLIRIDMSEYSEGDDVESSVSKLLGSP-----PG--------Y   63 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT------S-SCCEEEEEEGGGHCSHHHCSCHCHHHHHHT-----TC--------H
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhcc-----C-CccchHHHhhhcccccchHHhhhhhhhhcc-----cc--------e
Confidence            358999999999999999999998862     0 113799999999877333111111111000     00        0


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcc-----------cCchHHHHHhccCC--------CCCCcEEEEEEECC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLIT-----------RDRAVLHDLFMLTT--------FPFSRFILIGIANA  281 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~-----------~~~~~L~~l~~~~~--------~~~~~v~lI~ian~  281 (517)
                      ..      .....||+|||||....           .-|+.|+.+++-..        ..-.++++|+++|-
T Consensus        64 v~------~~~~gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~  129 (171)
T PF07724_consen   64 VG------AEEGGVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNF  129 (171)
T ss_dssp             HH------HHHHTEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESS
T ss_pred             ee------ccchhhhhhHHHhhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccc
Confidence            00      01112999999999988           66788888886521        12368999999983

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 ....

>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=98.76  E-value=1.3e-08  Score=99.18  Aligned_cols=164  Identities=15%  Similarity=0.169  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhC
Q 010136          131 DEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQ  210 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~  210 (517)
                      .+..+...++...+.  ...+++|+||+|||||++++.+++.+..       ..+.+..+++...++...+...+-..+.
T Consensus        17 ~dt~r~~~ll~~l~~--~~~pvLl~G~~GtGKT~li~~~l~~l~~-------~~~~~~~~~~s~~Tts~~~q~~ie~~l~   87 (272)
T PF12775_consen   17 VDTVRYSYLLDLLLS--NGRPVLLVGPSGTGKTSLIQNFLSSLDS-------DKYLVITINFSAQTTSNQLQKIIESKLE   87 (272)
T ss_dssp             HHHHHHHHHHHHHHH--CTEEEEEESSTTSSHHHHHHHHHHCSTT-------CCEEEEEEES-TTHHHHHHHHCCCTTEC
T ss_pred             HHHHHHHHHHHHHHH--cCCcEEEECCCCCchhHHHHhhhccCCc-------cccceeEeeccCCCCHHHHHHHHhhcEE
Confidence            334445555666665  4678999999999999999998765432       1123566777766554443211111110


Q ss_pred             CCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC---c---hHHHHHhccC---CCC------CCcEEE
Q 010136          211 PRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD---R---AVLHDLFMLT---TFP------FSRFIL  275 (517)
Q Consensus       211 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~---~---~~L~~l~~~~---~~~------~~~v~l  275 (517)
                          ...+.            .+....++..|+|||+++.-..+.   |   +.|.++++..   ...      -.++.+
T Consensus        88 ----k~~~~------------~~gP~~~k~lv~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~  151 (272)
T PF12775_consen   88 ----KRRGR------------VYGPPGGKKLVLFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQF  151 (272)
T ss_dssp             ----ECTTE------------EEEEESSSEEEEEEETTT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEE
T ss_pred             ----cCCCC------------CCCCCCCcEEEEEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEE
Confidence                00000            112235677899999998765442   2   6788877652   111      136788


Q ss_pred             EEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh
Q 010136          276 IGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME  322 (517)
Q Consensus       276 I~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~  322 (517)
                      |++.+...-...+.+|+.+. |  ..+.+++++.+++..|....+..
T Consensus       152 vaa~~p~~Gr~~is~R~~r~-f--~i~~~~~p~~~sl~~If~~il~~  195 (272)
T PF12775_consen  152 VAAMNPTGGRNPISPRFLRH-F--NILNIPYPSDESLNTIFSSILQS  195 (272)
T ss_dssp             EEEESSTTT--SHHHHHHTT-E--EEEE----TCCHHHHHHHHHHHH
T ss_pred             EEecCCCCCCCCCChHHhhh-e--EEEEecCCChHHHHHHHHHHHhh
Confidence            88877532222477888887 6  78999999999999999988763

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.75  E-value=2e-08  Score=87.09  Aligned_cols=119  Identities=19%  Similarity=0.167  Sum_probs=68.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      +.+++|+||||||||++++.++..+....       ..++++++............ ........   ........+...
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~~~~~~   70 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG-------GGVIYIDGEDILEEVLDQLL-LIIVGGKK---ASGSGELRLRLA   70 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCC-------CCEEEECCEEccccCHHHHH-hhhhhccC---CCCCHHHHHHHH
Confidence            46899999999999999999998876421       14788888765443322111 00000000   112223344444


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCchHHHHH-----hccCCCCCCcEEEEEEECC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDL-----FMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l-----~~~~~~~~~~v~lI~ian~  281 (517)
                      +...   ....+.+|+|||++.+.......+...     ..........+.+|+++|.
T Consensus        71 ~~~~---~~~~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       71 LALA---RKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             HHHH---HhcCCCEEEEECCcccCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence            4311   123368999999999987654433221     0111223456778888884

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.

>PF14629 ORC4_C: Origin recognition complex (ORC) subunit 4 C-terminus

Probab=98.74  E-value=6.7e-07  Score=83.59  Aligned_cols=167  Identities=15%  Similarity=0.132  Sum_probs=126.2

Q ss_pred             HHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhh
Q 010136          309 KDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAAS  388 (517)
Q Consensus       309 ~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  388 (517)
                      ..+..+-....++.+    +.+..+..+-+.....+.+++...+.+-.++.....                         
T Consensus        21 ~~~~~~~WN~~I~~l----~~~~~~~~~L~~~~~~~~~~~~l~~~~~~~v~~l~~-------------------------   71 (203)
T PF14629_consen   21 DPSYVKQWNKSIESL----LKDSNVKRLLRKLYYTSKSIRSLKNSLIPAVSRLSP-------------------------   71 (203)
T ss_pred             chHHHHHHHHHHHHH----HcChHHHHHHHHHHhhcCCHHHHHHHHHHHHHhccc-------------------------
Confidence            345555555566543    233355444454556678998777777665522111                         


Q ss_pred             hhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHHHHHHHHHhcCCC-CccHHHHHHHHHHHHHhcCCC-----
Q 010136          389 AFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKK-DMTVGELNKSYMNICKTSLIP-----  462 (517)
Q Consensus       389 ~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL~al~~l~~~~~~-~~~~~~l~~~y~~~~~~~~~~-----  462 (517)
                          ..+.++..++..+............+.+|+..+..+|.|+.++. .+.. .++|..+|+.|.++++..+..     
T Consensus        72 ----~~~~l~~~~~~~~~~~~~~d~~~~~l~~LS~LEL~LLIa~~rl~-~~~~~~~NF~~vy~EY~~~~~~~~~~~~~~~  146 (203)
T PF14629_consen   72 ----SSPFLTASDFFSANSNQSPDSKLSLLKSLSVLELCLLIAAARLI-KGYEETFNFEMVYDEYKKFAKSYNSSSAIVG  146 (203)
T ss_pred             ----cCCCCCHHHHHHHHHhhCCCchhhHhccCCHHHHHHHHHHHHHH-hccCCCccHHHHHHHHHHHHHhhcccccccc
Confidence                11268888999888888888778889999999999999999999 5444 899999999999999987655     


Q ss_pred             ---CCChHHHHHHHHHHhhcCceee-c------cCCceeEEEeecCHHHHHHHHhCC
Q 010136          463 ---PVGTLEFFSMCRVLHDQGVLKV-G------RDDKLKRVTLKADESDITFALQGV  509 (517)
Q Consensus       463 ---~~~~~~~~~~~~~L~~~glI~~-~------~~~~~~~~~l~~~~~~i~~~l~~~  509 (517)
                         ..+...+...+++|.++|||.- .      -...++.++|.++.++|..+++++
T Consensus       147 ~~~~~~k~v~~~a~E~L~~l~Ll~~~~~~~~~~~~~e~r~~~l~it~~el~~~v~~~  203 (203)
T PF14629_consen  147 TIKVWSKPVALKAWEHLLSLELLKPNYDGSSNNVQKEFRMVQLDITLEELREAVKKH  203 (203)
T ss_pred             ccccCCHHHHHHHHHHHHHCCCceecccCCCCccCccceEEEEeCCHHHHHHHHhcC
Confidence               6678889999999999999987 2      234788999999999999999763

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.74  E-value=1.1e-07  Score=95.05  Aligned_cols=149  Identities=17%  Similarity=0.238  Sum_probs=94.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC---------------CCCceEEEEeCCCCCCHHHHHHHHHHHhCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG---------------LQQPEVFSINCTSLTNTSEIFSKILLKLQPR  212 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~---------------~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~  212 (517)
                      -+..++|+||+|+|||++++.+++.+.+.....+               ..+..+++++......              .
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~--------------~   85 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEP--------------E   85 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccc--------------c
Confidence            4556889999999999999999998864221000               0112344444321000              0


Q ss_pred             CCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhccc
Q 010136          213 KKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPR  291 (517)
Q Consensus       213 ~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~  291 (517)
                      .......-..+.++.+.... ......+..|++||+++.|....++.|..+++.+.   ....+|.+++.   ++.+.+.
T Consensus        86 ~g~~~~~I~id~iR~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~---~~~~~Ilvth~---~~~ll~t  159 (325)
T PRK08699         86 NGRKLLQIKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPP---PQVVFLLVSHA---ADKVLPT  159 (325)
T ss_pred             ccccCCCcCHHHHHHHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCc---CCCEEEEEeCC---hHhChHH
Confidence            00000001145555544431 12223556788999999998888888888887653   23556666774   5567888


Q ss_pred             ccccCCCceEEEeCCCCHHHHHHHHHHH
Q 010136          292 LQSMNCKPLVVTFRAYSKDQIIRILQER  319 (517)
Q Consensus       292 l~sr~~~~~~i~f~p~~~~e~~~IL~~r  319 (517)
                      +.|| |  +.+.|+|++.+++.+.|..+
T Consensus       160 i~SR-c--~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        160 IKSR-C--RKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             HHHH-h--hhhcCCCCCHHHHHHHHHhc
Confidence            9999 7  78999999999999988753

>PRK12377 putative replication protein; Provisional

Probab=98.73  E-value=2.7e-08  Score=95.12  Aligned_cols=143  Identities=15%  Similarity=0.200  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCC
Q 010136          132 EQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP  211 (517)
Q Consensus       132 e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~  211 (517)
                      .+.....+...+..  ...+++|+|+||||||+++.++++.+...    +   ..+++++...      ++..+......
T Consensus        86 a~~~a~~~a~~~~~--~~~~l~l~G~~GtGKThLa~AIa~~l~~~----g---~~v~~i~~~~------l~~~l~~~~~~  150 (248)
T PRK12377         86 ALSQAKSIADELMT--GCTNFVFSGKPGTGKNHLAAAIGNRLLAK----G---RSVIVVTVPD------VMSRLHESYDN  150 (248)
T ss_pred             HHHHHHHHHHHHHh--cCCeEEEECCCCCCHHHHHHHHHHHHHHc----C---CCeEEEEHHH------HHHHHHHHHhc
Confidence            34444445554432  34789999999999999999999998642    2   2466666543      33333333311


Q ss_pred             CCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc--ccCchHHHHHhccCCCCCCcEEEEEEECCC--Ccchh
Q 010136          212 RKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI--TRDRAVLHDLFMLTTFPFSRFILIGIANAI--DLADR  287 (517)
Q Consensus       212 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~--~~~~~~L~~l~~~~~~~~~~v~lI~ian~~--~~~~~  287 (517)
                            +.. ..   ..+.     .-...-||||||+....  ...++.|+.+++........  +|.+||-.  ++.+.
T Consensus       151 ------~~~-~~---~~l~-----~l~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~p--tiitSNl~~~~l~~~  213 (248)
T PRK12377        151 ------GQS-GE---KFLQ-----ELCKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRS--VGMLTNLNHEAMSTL  213 (248)
T ss_pred             ------cch-HH---HHHH-----HhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCC--EEEEcCCCHHHHHHH
Confidence                  111 11   2222     12345699999996553  33567888888774322222  34447742  23334


Q ss_pred             hcccccccCC--CceEEEeCC
Q 010136          288 FLPRLQSMNC--KPLVVTFRA  306 (517)
Q Consensus       288 l~~~l~sr~~--~~~~i~f~p  306 (517)
                      +..++.||..  ....|.|.-
T Consensus       214 ~~~ri~dRl~~~~~~~v~~~g  234 (248)
T PRK12377        214 LGERVMDRMTMNGGRWVNFNW  234 (248)
T ss_pred             hhHHHHHHHhhCCCeEEEeCC
Confidence            4556666632  124566654

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.72  E-value=6.9e-07  Score=86.81  Aligned_cols=138  Identities=10%  Similarity=0.094  Sum_probs=87.5

Q ss_pred             HHHHHhhccCCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHH--------hcCCCCceEEEEeCCCCCCHHHHHHHHHHH
Q 010136          138 EFCKKNLEEEKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAK--------EAGLQQPEVFSINCTSLTNTSEIFSKILLK  208 (517)
Q Consensus       138 ~~L~~~l~~~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~--------~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~  208 (517)
                      ..|...+..++.. ..+|+||.|+||+++|..+++.+.+...        ....|  .+.++......            
T Consensus         7 ~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HP--D~~~i~p~~~~------------   72 (290)
T PRK05917          7 EALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHP--DIHEFSPQGKG------------   72 (290)
T ss_pred             HHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCC--CEEEEecCCCC------------
Confidence            3344445555544 5669999999999999999998864210        01112  22222111000            


Q ss_pred             hCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchh
Q 010136          209 LQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADR  287 (517)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~  287 (517)
                               ..-..+.++.+.... .....+...|++||++|.|....++.|..+++.+   ..++++|.+++.   ++.
T Consensus        73 ---------~~I~idqiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEP---p~~~~fiL~~~~---~~~  137 (290)
T PRK05917         73 ---------RLHSIETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDP---PQHGVIILTSAK---PQR  137 (290)
T ss_pred             ---------CcCcHHHHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcC---CCCeEEEEEeCC---hhh
Confidence                     001133333333321 1223456789999999999988888888888774   456777777773   778


Q ss_pred             hcccccccCCCceEEEeCCC
Q 010136          288 FLPRLQSMNCKPLVVTFRAY  307 (517)
Q Consensus       288 l~~~l~sr~~~~~~i~f~p~  307 (517)
                      +.|.++|| |  +.+.|+|.
T Consensus       138 ll~TI~SR-c--q~~~~~~~  154 (290)
T PRK05917        138 LPPTIRSR-S--LSIHIPME  154 (290)
T ss_pred             CcHHHHhc-c--eEEEccch
Confidence            89999999 7  78999886

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.72  E-value=6.7e-08  Score=101.77  Aligned_cols=213  Identities=15%  Similarity=0.131  Sum_probs=133.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ..++|....++.+...+.....  ...+++|+|++||||+++++.+......       ..-.++.+||..+.. ..   
T Consensus       139 ~~lig~s~~~~~l~~~i~~~a~--~~~~vli~Ge~GtGK~~lA~~ih~~s~~-------~~~~~v~v~c~~~~~-~~---  205 (445)
T TIGR02915       139 RGLITSSPGMQKICRTIEKIAP--SDITVLLLGESGTGKEVLARALHQLSDR-------KDKRFVAINCAAIPE-NL---  205 (445)
T ss_pred             cceeecCHHHHHHHHHHHHHhC--CCCCEEEECCCCcCHHHHHHHHHHhCCc-------CCCCeEEEECCCCCh-HH---
Confidence            4688888888888888776432  4567999999999999999998654321       113689999998743 22   


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFIL  275 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~l  275 (517)
                       +...+.+......... .......+.      ....-+||||||+.|....|..|..+++....        ....+-+
T Consensus       206 -~~~~lfg~~~~~~~~~-~~~~~g~~~------~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~ri  277 (445)
T TIGR02915       206 -LESELFGYEKGAFTGA-VKQTLGKIE------YAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRI  277 (445)
T ss_pred             -HHHHhcCCCCCCcCCC-ccCCCCcee------ECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEE
Confidence             2233333222111110 000000111      12235799999999988888777777654211        1235677


Q ss_pred             EEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHH
Q 010136          276 IGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARKVAA  342 (517)
Q Consensus       276 I~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~  342 (517)
                      |++++. ++.+     .+.+.+..+ +....|.+||+..  +++..++...+..+      ....+++++++.+..+  .
T Consensus       278 i~~~~~-~l~~~~~~~~~~~~L~~~-l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--~  353 (445)
T TIGR02915       278 VCATNQ-DLKRMIAEGTFREDLFYR-IAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAH--A  353 (445)
T ss_pred             EEecCC-CHHHHHHcCCccHHHHHH-hccceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhC--C
Confidence            776653 2221     233445455 5556899999853  56665555554322      1246899999998774  4


Q ss_pred             HhCCHHHHHHHHHHHHHHH
Q 010136          343 ASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a  361 (517)
                      ..|++|..-+++++|+..+
T Consensus       354 wpgNvreL~~~i~~a~~~~  372 (445)
T TIGR02915       354 WPGNVRELENKVKRAVIMA  372 (445)
T ss_pred             CCChHHHHHHHHHHHHHhC
Confidence            5799999999999988543

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).

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.71  E-value=2.1e-07  Score=101.83  Aligned_cols=175  Identities=11%  Similarity=0.126  Sum_probs=124.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccC----CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEE----KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS  199 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~----~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~  199 (517)
                      +.++|+++.+..|.+.+..+..+.    +...++|.||.|+|||-++++++..+....       -.++.|++..+..  
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse-------~~~IriDmse~~e--  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSE-------ENFIRLDMSEFQE--  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCc-------cceEEechhhhhh--
Confidence            357999999999999998887543    244699999999999999999999886422       2588999877543  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCC
Q 010136          200 EIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFS  271 (517)
Q Consensus       200 ~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~  271 (517)
                            ..++.+....+.|......|.+.+.      .+...||+|||||......+..|.++++....        .-.
T Consensus       633 ------vskligsp~gyvG~e~gg~Lteavr------rrP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~k  700 (898)
T KOG1051|consen  633 ------VSKLIGSPPGYVGKEEGGQLTEAVK------RRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFK  700 (898)
T ss_pred             ------hhhccCCCcccccchhHHHHHHHHh------cCCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeecc
Confidence                  3445555555556655667777664      66789999999999988778888888887322        235


Q ss_pred             cEEEEEEECCCC------cc-------------------------------hhhcccccccCCCceEEEeCCCCHHHHHH
Q 010136          272 RFILIGIANAID------LA-------------------------------DRFLPRLQSMNCKPLVVTFRAYSKDQIIR  314 (517)
Q Consensus       272 ~v~lI~ian~~~------~~-------------------------------~~l~~~l~sr~~~~~~i~f~p~~~~e~~~  314 (517)
                      +++||.++|.-.      ..                               ..+.+.+..|  ....+.|.|++.+++.+
T Consensus       701 N~I~IMTsn~~~~~i~~~~~~~~~l~~~~~~~~~~~~~k~~v~~~~~~~~~~~~r~Ef~nr--id~i~lf~~l~~~~~~~  778 (898)
T KOG1051|consen  701 NAIFIMTSNVGSSAIANDASLEEKLLDMDEKRGSYRLKKVQVSDAVRIYNKQFFRKEFLNR--IDELDLNLPLDRDELIE  778 (898)
T ss_pred             ceEEEEecccchHhhhcccccccccccchhhhhhhhhhhhhhhhhhhcccccccChHHhcc--cceeeeecccchhhHhh
Confidence            889999877521      11                               0011112222  13478899999999999


Q ss_pred             HHHHHHh
Q 010136          315 ILQERLM  321 (517)
Q Consensus       315 IL~~rl~  321 (517)
                      |+...+.
T Consensus       779 i~~~~~~  785 (898)
T KOG1051|consen  779 IVNKQLT  785 (898)
T ss_pred             hhhhHHH
Confidence            9887774

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.71  E-value=7e-08  Score=102.15  Aligned_cols=212  Identities=15%  Similarity=0.178  Sum_probs=134.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .++|......++...+....  .....++|.|.+||||+++++.+......       ....++.+||..+.. ..+-. 
T Consensus       135 ~lig~s~~~~~v~~~i~~~a--~~~~~vli~Ge~GtGK~~~A~~ih~~~~~-------~~~~~~~~~c~~~~~-~~~~~-  203 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRLS--RSDITVLINGESGTGKELVARALHRHSPR-------ANGPFIALNMAAIPK-DLIES-  203 (463)
T ss_pred             ceeecCHHHHHHHHHHHHHh--CcCCeEEEECCCCCCHHHHHHHHHHhCCC-------CCCCeEEEeCCCCCH-HHHHH-
Confidence            47788887888887776643  34567999999999999999887654221       113689999998732 22222 


Q ss_pred             HHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEEE
Q 010136          205 ILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFIL  275 (517)
Q Consensus       205 i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~l  275 (517)
                         .+.+..... .+.. .. -...+.      ......||||||+.|....|..|..+++....        ....+-+
T Consensus       204 ---~lfg~~~~~~~~~~-~~-~~g~~~------~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~ri  272 (463)
T TIGR01818       204 ---ELFGHEKGAFTGAN-TR-RQGRFE------QADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRI  272 (463)
T ss_pred             ---HhcCCCCCCCCCcc-cC-CCCcEE------ECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEE
Confidence               222222111 1110 00 001111      12235699999999988888878777754211        1234567


Q ss_pred             EEEECCCCcch-----hhcccccccCCCceEEEeCCCC--HHHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHH
Q 010136          276 IGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYS--KDQIIRILQERLMEL------SYIVFQPQALELCARKVAA  342 (517)
Q Consensus       276 I~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~--~~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~  342 (517)
                      |++++. ++.+     .+.+.+..| +....|.++|+.  .+++..++...+..+      ....|++++++.+.++  .
T Consensus       273 i~~~~~-~l~~~~~~~~f~~~L~~r-l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--~  348 (463)
T TIGR01818       273 VAATHQ-NLEALVRQGKFREDLFHR-LNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQL--R  348 (463)
T ss_pred             EEeCCC-CHHHHHHcCCcHHHHHHH-hCcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhC--C
Confidence            775653 2222     233344455 444589999998  788888887766532      1246899999999875  5


Q ss_pred             HhCCHHHHHHHHHHHHHHHH
Q 010136          343 ASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a~  362 (517)
                      ..|++|..-+++++|+..+.
T Consensus       349 wpgNvreL~~~~~~~~~~~~  368 (463)
T TIGR01818       349 WPGNVRQLENLCRWLTVMAS  368 (463)
T ss_pred             CCChHHHHHHHHHHHHHhCC
Confidence            68999999999999886543

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=98.68  E-value=1.1e-07  Score=100.58  Aligned_cols=211  Identities=18%  Similarity=0.200  Sum_probs=130.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ..+++....+..+...+.....  ....+++.|++||||+++++.+......       ..-.++.++|..+.. ..   
T Consensus       143 ~~ii~~S~~~~~~~~~~~~~a~--~~~~vli~Ge~GtGK~~lA~~ih~~s~~-------~~~~~~~i~c~~~~~-~~---  209 (457)
T PRK11361        143 GHILTNSPAMMDICKDTAKIAL--SQASVLISGESGTGKELIARAIHYNSRR-------AKGPFIKVNCAALPE-SL---  209 (457)
T ss_pred             cceecccHHHhHHHHHHHHHcC--CCcEEEEEcCCCccHHHHHHHHHHhCCC-------CCCCeEEEECCCCCH-HH---
Confidence            3577777777777777666543  4568999999999999999998653221       113689999998743 22   


Q ss_pred             HHHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEE
Q 010136          204 KILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFI  274 (517)
Q Consensus       204 ~i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~  274 (517)
                       +...+.+..... .+.. .. -...+.      ....-+|||||+|.|....|..|..+++....        ....+-
T Consensus       210 -~~~~lfg~~~~~~~~~~-~~-~~g~~~------~a~~gtl~ld~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~r  280 (457)
T PRK11361        210 -LESELFGHEKGAFTGAQ-TL-RQGLFE------RANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIR  280 (457)
T ss_pred             -HHHHhcCCCCCCCCCCC-CC-CCCceE------ECCCCEEEEechhhCCHHHHHHHHHHHhcCcEEeCCCCceeeeceE
Confidence             223333322111 1110 00 001121      12235799999999988888877777654211        113567


Q ss_pred             EEEEECCCCcch-----hhcccccccCCCceEEEeCCCC--HHHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHH
Q 010136          275 LIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYS--KDQIIRILQERLMEL------SYIVFQPQALELCARKVA  341 (517)
Q Consensus       275 lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~--~~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~  341 (517)
                      +|++++. ++..     .+.+.+..+ +....|.++|+.  .+++..++...+..+      ....+++++++.+..+  
T Consensus       281 ii~~t~~-~l~~~~~~g~~~~~l~~~-l~~~~i~~ppLreR~~di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--  356 (457)
T PRK11361        281 IIAATNR-DLQAMVKEGTFREDLFYR-LNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAW--  356 (457)
T ss_pred             EEEeCCC-CHHHHHHcCCchHHHHHH-hccceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHcC--
Confidence            8887763 2211     233444444 445688888886  466666655554422      1246899999998764  


Q ss_pred             HHhCCHHHHHHHHHHHHHH
Q 010136          342 AASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~  360 (517)
                      ...|++|..-+++++|+..
T Consensus       357 ~wpgNv~eL~~~~~~~~~~  375 (457)
T PRK11361        357 SWPGNIRELSNVIERAVVM  375 (457)
T ss_pred             CCCCcHHHHHHHHHHHHHh
Confidence            4689999999999888754

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.68  E-value=9.9e-08  Score=101.17  Aligned_cols=212  Identities=16%  Similarity=0.177  Sum_probs=134.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ..++|+...+..+...+.....  ....++|.|++|||||++++.+......       ..-.|+.+||..+.. ..+  
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~~--~~~~vli~Ge~GtGK~~lA~~ih~~s~~-------~~~~~i~i~c~~~~~-~~~--  205 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLSR--SSISVLINGESGTGKELVAHALHRHSPR-------AKAPFIALNMAAIPK-DLI--  205 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHhc--cCCeEEEEeCCCCcHHHHHHHHHhcCCC-------CCCCeEeeeCCCCCH-HHH--
Confidence            3689999888888888776543  4667999999999999999997654321       123699999988732 222  


Q ss_pred             HHHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEE
Q 010136          204 KILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFI  274 (517)
Q Consensus       204 ~i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~  274 (517)
                        ...+.+..... .+.. . .-...|.      ....-.|||||+|.|....|..|..+++....        ....+-
T Consensus       206 --~~~lfg~~~g~~~~~~-~-~~~g~~~------~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~r  275 (469)
T PRK10923        206 --ESELFGHEKGAFTGAN-T-IRQGRFE------QADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVR  275 (469)
T ss_pred             --HHHhcCCCCCCCCCCC-c-CCCCCee------ECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEE
Confidence              22333322211 1110 0 0000121      11223689999999988888777777654211        123567


Q ss_pred             EEEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHH
Q 010136          275 LIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARKVA  341 (517)
Q Consensus       275 lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~  341 (517)
                      +|++++. ++.+     .+.+.+..+ +....|.+||+..  +++..++...+..+      ....+++++++.+..+  
T Consensus       276 ii~~~~~-~l~~~~~~~~~~~~L~~~-l~~~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--  351 (469)
T PRK10923        276 IIAATHQ-NLEQRVQEGKFREDLFHR-LNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRL--  351 (469)
T ss_pred             EEEeCCC-CHHHHHHcCCchHHHHHH-hcceeecCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhC--
Confidence            7776653 2222     233455555 5556899999853  67776666665422      1235899999998774  


Q ss_pred             HHhCCHHHHHHHHHHHHHHH
Q 010136          342 AASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a  361 (517)
                      ...|++|..-+++++|+..+
T Consensus       352 ~wpgNv~eL~~~i~~~~~~~  371 (469)
T PRK10923        352 AWPGNVRQLENTCRWLTVMA  371 (469)
T ss_pred             CCCChHHHHHHHHHHHHHhC
Confidence            57899999999998887654

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.68  E-value=2.5e-07  Score=88.45  Aligned_cols=180  Identities=19%  Similarity=0.259  Sum_probs=107.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      -.++++.||.|+|||.+|+.+++.|.          ++|.-.+|..++..                ++.|...+..+.++
T Consensus        97 KSNILLiGPTGsGKTlLAqTLAk~Ln----------VPFaiADATtLTEA----------------GYVGEDVENillkL  150 (408)
T COG1219          97 KSNILLIGPTGSGKTLLAQTLAKILN----------VPFAIADATTLTEA----------------GYVGEDVENILLKL  150 (408)
T ss_pred             eccEEEECCCCCcHHHHHHHHHHHhC----------CCeeeccccchhhc----------------cccchhHHHHHHHH
Confidence            45899999999999999999999875          57888888776432                12244434444555


Q ss_pred             HHhh-hccCCCceEEEEEeCcchhcccC--------------chHHHHHhccCC------------------CCCCcEEE
Q 010136          229 YSQK-LHSSVMKMMLIIADELDYLITRD--------------RAVLHDLFMLTT------------------FPFSRFIL  275 (517)
Q Consensus       229 ~~~~-~~~~~~~~~vI~iDEiD~L~~~~--------------~~~L~~l~~~~~------------------~~~~~v~l  275 (517)
                      +... +.-.....-||+|||||.+..+.              |.+|..+++-..                  ...+++.+
T Consensus       151 lqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKHP~Qe~iqvDT~NILF  230 (408)
T COG1219         151 LQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPQQEFIQVDTSNILF  230 (408)
T ss_pred             HHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCCCccceEEEcccceeE
Confidence            4420 00112234699999999998653              566777776411                  02245555


Q ss_pred             EEEECCCC-------------------------------------cchh-----hcccccccCCCceEEEeCCCCHHHHH
Q 010136          276 IGIANAID-------------------------------------LADR-----FLPRLQSMNCKPLVVTFRAYSKDQII  313 (517)
Q Consensus       276 I~ian~~~-------------------------------------~~~~-----l~~~l~sr~~~~~~i~f~p~~~~e~~  313 (517)
                      |+- ...+                                     .++.     +.|.+..| + |..-.+.+++.+++.
T Consensus       231 Icg-GAF~GlekiI~~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGR-l-Pvia~L~~Lde~aLv  307 (408)
T COG1219         231 ICG-GAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGR-L-PVIATLEELDEDALV  307 (408)
T ss_pred             Eec-cccccHHHHHHHhccCCcccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhcc-c-ceeeehhhcCHHHHH
Confidence            541 1100                                     0111     12444555 3 456678889999999


Q ss_pred             HHHHHH-------Hhh---hc--cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 010136          314 RILQER-------LME---LS--YIVFQPQALELCARKVAAASGDMRKALSVCRSA  357 (517)
Q Consensus       314 ~IL~~r-------l~~---~~--~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A  357 (517)
                      +||..=       .+.   +.  .-.|+++|+..+|++.-...-.+|-.-.++...
T Consensus       308 ~ILtePkNAlvKQYq~Lf~~d~V~L~F~~~AL~~IA~~A~~rkTGARGLRsI~E~~  363 (408)
T COG1219         308 QILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIAKKAIERKTGARGLRSIIEEL  363 (408)
T ss_pred             HHHhcccHHHHHHHHHHhcccCceEEEcHHHHHHHHHHHHHhccchhHHHHHHHHH
Confidence            998641       111   11  136789999999987654444455433444443

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.67  E-value=6.7e-07  Score=85.03  Aligned_cols=176  Identities=11%  Similarity=0.007  Sum_probs=102.5

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      ..+..++++|+.|+||..++.++++.+.+....          -.|....+-..+...-.-.+.--.+ ....-..+.++
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~----------~~Cg~C~sC~~i~~~~HPDl~~i~p-~~~~I~id~ir   73 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTKAN----------GFCKTCESCLKILNGKYNDFYLIFD-QKNPIKKEDAL   73 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHcCCCCC----------CCCCCCHHHHHHhcCCCCCEEEecC-CcccCCHHHHH
Confidence            346678999999999999999999887642110          0122211111110000000000000 00001133333


Q ss_pred             HHHHhhhccC--CCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEe
Q 010136          227 NLYSQKLHSS--VMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTF  304 (517)
Q Consensus       227 ~~~~~~~~~~--~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f  304 (517)
                      ++........  .++..|++||++|.|.....+.|..+++.+   ..+.++|.+++.   ++.+.|-++|| |  +.+.|
T Consensus        74 ~l~~~l~~~s~e~~~~KV~II~~ae~m~~~AaNaLLK~LEEP---p~~t~fiLit~~---~~~lLpTI~SR-C--q~~~~  144 (261)
T PRK05818         74 SIINKLNRPSVESNGKKIYIIYGIEKLNKQSANSLLKLIEEP---PKNTYGIFTTRN---ENNILNTILSR-C--VQYVV  144 (261)
T ss_pred             HHHHHHccCchhcCCCEEEEeccHhhhCHHHHHHHHHhhcCC---CCCeEEEEEECC---hHhCchHhhhh-e--eeeec
Confidence            3333211112  235689999999999877777777777664   467777777874   77889999999 7  78899


Q ss_pred             CCC----------CHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          305 RAY----------SKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       305 ~p~----------~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                      +++          +..++.+++..+..      +++ .   ++.   ...|+..+|+.++.
T Consensus       145 ~~~~~~~~~~~~~~~~~i~~~L~~~~~------~d~-~---i~~---~a~g~~~~a~~l~~  192 (261)
T PRK05818        145 LSKEKKVPFKVESNDRYFQYILLSFYS------VDE-Q---LQA---YNNGSFSKLKNIIE  192 (261)
T ss_pred             CChhhhcccccccChHHHHHHHHHccC------ccH-H---HHH---HcCCCHHHHHHHHH
Confidence            887          45555555443321      222 2   222   47899999998887

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.66  E-value=4e-07  Score=97.55  Aligned_cols=305  Identities=15%  Similarity=0.087  Sum_probs=166.2

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCC--------CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKA--------GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~--------~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      -..++|.+...+.|.-.|........+        -|+||.|.||||||.+.+.+.+-+.           .-+|+++..
T Consensus       285 aPsIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aP-----------r~vytsgkg  353 (682)
T COG1241         285 APSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAP-----------RGVYTSGKG  353 (682)
T ss_pred             cccccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCC-----------ceEEEcccc
Confidence            347899998776666665544332111        3899999999999999999987653           467777655


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC-------
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT-------  267 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~-------  267 (517)
                      .+.......-.-...       .|       +..+....+ -....-|.+|||+|.+......+|+..++--+       
T Consensus       354 ss~~GLTAav~rd~~-------tg-------e~~LeaGAL-VlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAG  418 (682)
T COG1241         354 SSAAGLTAAVVRDKV-------TG-------EWVLEAGAL-VLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAG  418 (682)
T ss_pred             ccccCceeEEEEccC-------CC-------eEEEeCCEE-EEecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccc
Confidence            322111000000000       00       000110000 01223588999999998888888888776521       


Q ss_pred             ---CCCCcEEEEEEECCCC--------cchh--hcccccccCCCceEEEeCCCCHHHHHH----HHHHHH----------
Q 010136          268 ---FPFSRFILIGIANAID--------LADR--FLPRLQSMNCKPLVVTFRAYSKDQIIR----ILQERL----------  320 (517)
Q Consensus       268 ---~~~~~v~lI~ian~~~--------~~~~--l~~~l~sr~~~~~~i~f~p~~~~e~~~----IL~~rl----------  320 (517)
                         .-+.++.+++++|...        ..++  +.+.+.|| |..-.+....++.+.-..    |+..+.          
T Consensus       419 I~atLnARcsvLAAaNP~~Gryd~~~~~~enI~l~~~lLSR-FDLifvl~D~~d~~~D~~ia~hil~~h~~~~~~~~~~~  497 (682)
T COG1241         419 ITATLNARCSVLAAANPKFGRYDPKKTVAENINLPAPLLSR-FDLIFVLKDDPDEEKDEEIAEHILDKHRGEEPEETISL  497 (682)
T ss_pred             eeeecchhhhhhhhhCCCCCcCCCCCCHHHhcCCChhHHhh-CCeeEEecCCCCccchHHHHHHHHHHHhcccccccccc
Confidence               1346778888899753        1122  45778898 744333334444432222    222221          


Q ss_pred             ------------------h---hhccCCCChhHHHHHHHHHHHHhC-------------CHHHHHHHHHHHHHHHHHHHH
Q 010136          321 ------------------M---ELSYIVFQPQALELCARKVAAASG-------------DMRKALSVCRSAIEILEAEMR  366 (517)
Q Consensus       321 ------------------~---~~~~~~~~~~ai~~ia~~~~~~~G-------------d~R~al~ll~~A~~~a~~~~~  366 (517)
                                        .   ......+++++.+.+...+.....             .+|+.-.+.|-|-..|..+..
T Consensus       498 ~~~~~~~~~~~~~lrkYI~YAR~~v~P~lt~ea~e~l~~~Yv~~Rk~~~~~~~~~~~piT~RqLEsiiRLaeA~Ak~rLS  577 (682)
T COG1241         498 DGVDEVEERDFELLRKYISYARKNVTPVLTEEAREELEDYYVEMRKKSALVEEKRTIPITARQLESIIRLAEAHAKMRLS  577 (682)
T ss_pred             ccccccccCcHHHHHHHHHHHhccCCcccCHHHHHHHHHHHHHhhhccccccccCcccccHHHHHHHHHHHHHHHhhhcc
Confidence                              1   001146677777777765543322             145555566666655555544


Q ss_pred             hhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhH------------HHhcc-CCHHHHHHHHHHH
Q 010136          367 ESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVV------------DTIKS-LPQHQQILLCSAV  433 (517)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~------------~~i~~-L~~~~k~iL~al~  433 (517)
                      +                            .|+.+|+..|+.-+..+...            +.+.. -+..+.....-+.
T Consensus       578 ~----------------------------~V~~eD~~eAi~lv~~~l~~v~~dp~~g~~d~~~~~~~~~~~~~~~~~~~~  629 (682)
T COG1241         578 D----------------------------VVEEEDVDEAIRLVDFSLKTVAVDPEKGKIDIDIIEPGKSKSKRDKIEKVL  629 (682)
T ss_pred             C----------------------------CCCHHHHHHHHHHHHHHHHHhhcCccCCceehhhhccCCcchhhhhHHHHH
Confidence            4                            79999999998776633211            11111 2322333222222


Q ss_pred             HHHhc--CCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCcee
Q 010136          434 KFFRG--GKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLK  491 (517)
Q Consensus       434 ~l~~~--~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~  491 (517)
                      .....  ....-...++++...         -++..++.++++.|...|.|-....|.+.
T Consensus       630 ~~i~e~~~~~~~~~~~~~~~~~---------g~~~~~~e~~l~~l~~~g~i~~~~~g~~~  680 (682)
T COG1241         630 DIIKELVERSEDPVEEIIEEAE---------GISEKEVEEALEKLKKKGDILEPNPGYYL  680 (682)
T ss_pred             HHHHHHhhcccchHHHHHHHHc---------CCCHHHHHHHHHHHHhcCcEeccCCCeee
Confidence            22211  111113333332211         46778899999999999998766666543

>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=98.65  E-value=3.6e-09  Score=88.83  Aligned_cols=106  Identities=16%  Similarity=0.218  Sum_probs=58.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYS  230 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~  230 (517)
                      +++|.|+||+|||++++++++.++.          .|..|.+.....+.++...-   +-...    .        ..|.
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~----------~f~RIq~tpdllPsDi~G~~---v~~~~----~--------~~f~   55 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGL----------SFKRIQFTPDLLPSDILGFP---VYDQE----T--------GEFE   55 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT------------EEEEE--TT--HHHHHEEE---EEETT----T--------TEEE
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCC----------ceeEEEecCCCCcccceeee---eeccC----C--------CeeE
Confidence            6899999999999999999988763          57788887666666642110   00000    0        0000


Q ss_pred             hhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEEEEEEECCCC
Q 010136          231 QKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFILIGIANAID  283 (517)
Q Consensus       231 ~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~lI~ian~~~  283 (517)
                        .....--.-|+++||+.....+.|.+|++.+...+        .-...+.||++.|..+
T Consensus        56 --~~~GPif~~ill~DEiNrappktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e  114 (131)
T PF07726_consen   56 --FRPGPIFTNILLADEINRAPPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVE  114 (131)
T ss_dssp             --EEE-TT-SSEEEEETGGGS-HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT-
T ss_pred             --eecChhhhceeeecccccCCHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccc
Confidence              00001112389999999999999999999886521        1234688999999765

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.

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=98.64  E-value=1e-07  Score=104.99  Aligned_cols=210  Identities=20%  Similarity=0.230  Sum_probs=137.9

Q ss_pred             hhcCcCCCCC---CCCCcHHHHHHHHHHHHHhhcc-------CC---CC--eEEEEcCCCCcHHHHHHHHHHHHHHHHHh
Q 010136          115 EALHVSTAPS---TIVCREDEQKKVLEFCKKNLEE-------EK---AG--SLYVCGCPGTGKSLSMEKVQHYLVDWAKE  179 (517)
Q Consensus       115 ~~l~~~~~p~---~l~gRe~e~~~l~~~L~~~l~~-------~~---~~--~lli~G~pGtGKT~l~~~v~~~l~~~~~~  179 (517)
                      ..|...|-|.   .+.|-......+..||...-..       ..   ..  .++++|+||+|||+.+..++.+++     
T Consensus       308 ~~~~~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~g-----  382 (871)
T KOG1968|consen  308 AGWTEKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKELG-----  382 (871)
T ss_pred             cccccccccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhcc-----
Confidence            3455555554   3555555555777777765111       00   11  368999999999999999998876     


Q ss_pred             cCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH---HhhhccCCCceEEEEEeCcchhcccCc
Q 010136          180 AGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY---SQKLHSSVMKMMLIIADELDYLITRDR  256 (517)
Q Consensus       180 ~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~~~~vI~iDEiD~L~~~~~  256 (517)
                           +.+++.|+....+...++..+......+.           +...+   .. -........||++||+|-+...+.
T Consensus       383 -----~~v~E~Nas~~RSk~~l~~~~~~~~~s~s-----------i~~~~~~~~~-~~~~~~~~~vil~devD~~~~~dR  445 (871)
T KOG1968|consen  383 -----FKVVEKNASDVRSKKELLNKLGNATSSHS-----------IKGSKKKKGN-RQSLNSDHFLILMDEVDGMFGEDR  445 (871)
T ss_pred             -----cceeecCccccccccHHHhhhhccccccc-----------hhhhhccccc-ccccccceeEEEEeccccccchhh
Confidence                 57999999999998888777766553222           11122   11 011234456999999999987444


Q ss_pred             hHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHH
Q 010136          257 AVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELC  336 (517)
Q Consensus       257 ~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~i  336 (517)
                      ..+-.+.....  .+..=+|++.|+.+++.   .+..++-+  ..++|..++..++..-+...+... ...++++.++.+
T Consensus       446 g~v~~l~~l~~--ks~~Piv~~cndr~~p~---sr~~~~~~--~~l~f~kP~~~~i~~ri~si~~se-~~ki~~~~l~~~  517 (871)
T KOG1968|consen  446 GGVSKLSSLCK--KSSRPLVCTCNDRNLPK---SRALSRAC--SDLRFSKPSSELIRSRIMSICKSE-GIKISDDVLEEI  517 (871)
T ss_pred             hhHHHHHHHHH--hccCCeEEEecCCCCcc---ccchhhhc--ceeeecCCcHHHHHhhhhhhhccc-ceecCcHHHHHH
Confidence            33333333322  23334666789876553   23333313  589999999999998887665432 246888888888


Q ss_pred             HHHHHHHhCCHHHHHHHHHHH
Q 010136          337 ARKVAAASGDMRKALSVCRSA  357 (517)
Q Consensus       337 a~~~~~~~Gd~R~al~ll~~A  357 (517)
                      .+   ...||+|..+..++.-
T Consensus       518 s~---~~~~DiR~~i~~lq~~  535 (871)
T KOG1968|consen  518 SK---LSGGDIRQIIMQLQFW  535 (871)
T ss_pred             HH---hcccCHHHHHHHHhhh
Confidence            76   4799999999888665

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.61  E-value=2.2e-07  Score=88.70  Aligned_cols=129  Identities=20%  Similarity=0.216  Sum_probs=74.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      ..+++|+|+||||||+++.+++..+...    +   ..+++++.      .+++..+...+..     .... .+.+.+.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~----g---~~v~~it~------~~l~~~l~~~~~~-----~~~~-~~~~l~~  159 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLR----G---KSVLIITV------ADIMSAMKDTFSN-----SETS-EEQLLND  159 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhc----C---CeEEEEEH------HHHHHHHHHHHhh-----cccc-HHHHHHH
Confidence            3589999999999999999999998652    2   35677743      4444444433310     0111 2222222


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCC--CcchhhcccccccCC--CceEE
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAI--DLADRFLPRLQSMNC--KPLVV  302 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~--~~~~~l~~~l~sr~~--~~~~i  302 (517)
                      +.        ..-+|||||++......  ...|+.+++.-.....  .+|.+||-.  ++.+.+..++.+|.+  ....|
T Consensus       160 l~--------~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~--~tiitSNl~~~~l~~~~g~ri~sRl~~~~~~~i  229 (244)
T PRK07952        160 LS--------NVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKR--PTGMLTNSNMEEMTKLLGERVMDRMRLGNSLWV  229 (244)
T ss_pred             hc--------cCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCC--CEEEeCCCCHHHHHHHhChHHHHHHHHCCceEE
Confidence            22        34599999998875432  3578888876432222  244447742  233344566666621  23566


Q ss_pred             EeCC
Q 010136          303 TFRA  306 (517)
Q Consensus       303 ~f~p  306 (517)
                      .|.-
T Consensus       230 ~f~~  233 (244)
T PRK07952        230 IFNW  233 (244)
T ss_pred             EeeC
Confidence            7764

>PRK08181 transposase; Validated

Probab=98.60  E-value=3.3e-07  Score=88.79  Aligned_cols=102  Identities=24%  Similarity=0.301  Sum_probs=61.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ...+++|+||||||||+++.+++.++...    |   ..++|++.      ..++..+.....       ... ...+.+
T Consensus       105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~----g---~~v~f~~~------~~L~~~l~~a~~-------~~~-~~~~l~  163 (269)
T PRK08181        105 KGANLLLFGPPGGGKSHLAAAIGLALIEN----G---WRVLFTRT------TDLVQKLQVARR-------ELQ-LESAIA  163 (269)
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHc----C---CceeeeeH------HHHHHHHHHHHh-------CCc-HHHHHH
Confidence            45789999999999999999999887542    2   34677765      334444432221       111 111222


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECC
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      .+        .+.-+|||||++.+....  +..|+++++..... .  .+|.++|.
T Consensus       164 ~l--------~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~-~--s~IiTSN~  208 (269)
T PRK08181        164 KL--------DKFDLLILDDLAYVTKDQAETSVLFELISARYER-R--SILITANQ  208 (269)
T ss_pred             HH--------hcCCEEEEeccccccCCHHHHHHHHHHHHHHHhC-C--CEEEEcCC
Confidence            22        234699999999876543  35788888753322 2  24445674

>PLN03210 Resistant to P

Probab=98.60  E-value=3.3e-06  Score=98.83  Aligned_cols=201  Identities=17%  Similarity=0.133  Sum_probs=115.1

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-----
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-----  196 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-----  196 (517)
                      .++.++|++..++++...|..  .......+.|+|++|+||||+|+++++.+.....       ..++++.....     
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l--~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~-------g~vfv~~~~v~~~~~~  252 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHL--ESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQ-------SSVFIDRAFISKSMEI  252 (1153)
T ss_pred             ccccccchHHHHHHHHHHHcc--ccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCC-------eEEEeeccccccchhh
Confidence            456899999999999888743  3345667889999999999999999887754211       12333321000     


Q ss_pred             ----------CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC
Q 010136          197 ----------NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT  266 (517)
Q Consensus       197 ----------s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~  266 (517)
                                ....+...+..++.......  ......+++.+       ..++.+||||+++...  ..+.|....+|.
T Consensus       253 ~~~~~~~~~~~~~~l~~~~l~~il~~~~~~--~~~~~~~~~~L-------~~krvLLVLDdv~~~~--~l~~L~~~~~~~  321 (1153)
T PLN03210        253 YSSANPDDYNMKLHLQRAFLSEILDKKDIK--IYHLGAMEERL-------KHRKVLIFIDDLDDQD--VLDALAGQTQWF  321 (1153)
T ss_pred             cccccccccchhHHHHHHHHHHHhCCCCcc--cCCHHHHHHHH-------hCCeEEEEEeCCCCHH--HHHHHHhhCccC
Confidence                      00112223333332211110  00122334443       3467899999997542  124444444443


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      . +++.|+|  +|.+....    ..   . ...+.+.+..++.++-.+++..++-+.   ...++.+..+++.+....|.
T Consensus       322 ~-~GsrIIi--TTrd~~vl----~~---~-~~~~~~~v~~l~~~ea~~LF~~~Af~~---~~~~~~~~~l~~~iv~~c~G  387 (1153)
T PLN03210        322 G-SGSRIIV--ITKDKHFL----RA---H-GIDHIYEVCLPSNELALEMFCRSAFKK---NSPPDGFMELASEVALRAGN  387 (1153)
T ss_pred             C-CCcEEEE--EeCcHHHH----Hh---c-CCCeEEEecCCCHHHHHHHHHHHhcCC---CCCcHHHHHHHHHHHHHhCC
Confidence            2 3344333  45532111    11   1 112578888999999999988765421   22344566677777788888


Q ss_pred             HHHHHHHHHH
Q 010136          347 MRKALSVCRS  356 (517)
Q Consensus       347 ~R~al~ll~~  356 (517)
                      ...|+.++-.
T Consensus       388 LPLAl~vlgs  397 (1153)
T PLN03210        388 LPLGLNVLGS  397 (1153)
T ss_pred             CcHHHHHHHH
Confidence            8888876643

syringae 6; Provisional

>PRK06921 hypothetical protein; Provisional

Probab=98.60  E-value=2.4e-07  Score=90.06  Aligned_cols=127  Identities=17%  Similarity=0.217  Sum_probs=70.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ...+++|+|+||+|||+++.++++++....   +   ..++|++..      .++..+...+             ..+..
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~---g---~~v~y~~~~------~l~~~l~~~~-------------~~~~~  170 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKK---G---VPVLYFPFV------EGFGDLKDDF-------------DLLEA  170 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhc---C---ceEEEEEHH------HHHHHHHHHH-------------HHHHH
Confidence            467899999999999999999999886521   2   357888753      2233332221             11122


Q ss_pred             HHHhhhccCCCceEEEEEeCcch-hcc------cCchHHHHHhccCCCCCCcEEEEEEECCC--Ccchhhccccccc---
Q 010136          228 LYSQKLHSSVMKMMLIIADELDY-LIT------RDRAVLHDLFMLTTFPFSRFILIGIANAI--DLADRFLPRLQSM---  295 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~-L~~------~~~~~L~~l~~~~~~~~~~v~lI~ian~~--~~~~~l~~~l~sr---  295 (517)
                      .+.     .-...-||||||++. +..      ..++.|+.+++.....+..  +|.++|..  ++. .+++++.+|   
T Consensus       171 ~~~-----~~~~~dlLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~--tIitsn~~~~el~-~~~~~l~sRi~~  242 (266)
T PRK06921        171 KLN-----RMKKVEVLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKP--ILISSELTIDELL-DIDEALGSRIVE  242 (266)
T ss_pred             HHH-----HhcCCCEEEEeccccccCCCccCCHHHHHHHHHHHHHHHHCCCC--EEEECCCCHHHHh-hhhhHHHHHHHH
Confidence            222     112346999999954 211      1235688888764333333  33346642  121 123444444   


Q ss_pred             CCCceEEEeCCC
Q 010136          296 NCKPLVVTFRAY  307 (517)
Q Consensus       296 ~~~~~~i~f~p~  307 (517)
                      .+....+.|..-
T Consensus       243 r~~~~~i~~~g~  254 (266)
T PRK06921        243 MCKDYLVIIKGD  254 (266)
T ss_pred             hccCeEEEecCc
Confidence            133456777543

>PTZ00202 tuzin; Provisional

Probab=98.60  E-value=2.6e-06  Score=85.86  Aligned_cols=175  Identities=15%  Similarity=0.173  Sum_probs=102.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +..++||+.|...|...|.. .....+..+.|.|++|+|||++++.+...+.          ...+++|..   ++.+++
T Consensus       261 ~~~FVGReaEla~Lr~VL~~-~d~~~privvLtG~~G~GKTTLlR~~~~~l~----------~~qL~vNpr---g~eElL  326 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRR-LDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----------MPAVFVDVR---GTEDTL  326 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhc-cCCCCceEEEEECCCCCCHHHHHHHHHhcCC----------ceEEEECCC---CHHHHH
Confidence            34799999999999888875 3333456888999999999999999986653          235556654   679999


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCce-EEEEEeCcchhcccCchHHHHHhccC-CCCCCcEEEEEEEC
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKM-MLIIADELDYLITRDRAVLHDLFMLT-TFPFSRFILIGIAN  280 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~vI~iDEiD~L~~~~~~~L~~l~~~~-~~~~~~v~lI~ian  280 (517)
                      ..++.+|+..... ......+.|++.+..........+ +||=|-|-+.|..    +..+..-+. ...-+++++=.--.
T Consensus       327 r~LL~ALGV~p~~-~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~r----vyne~v~la~drr~ch~v~evple  401 (550)
T PTZ00202        327 RSVVKALGVPNVE-ACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQR----VYNEVVALACDRRLCHVVIEVPLE  401 (550)
T ss_pred             HHHHHHcCCCCcc-cHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHH----HHHHHHHHHccchhheeeeeehHh
Confidence            9999999863221 111223445544443222212223 3333567666632    222222221 11122333211111


Q ss_pred             CCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh
Q 010136          281 AIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL  323 (517)
Q Consensus       281 ~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~  323 (517)
                      .+....-.+||     +  ....+++++.+|-.+..++.+..+
T Consensus       402 slt~~~~~lpr-----l--df~~vp~fsr~qaf~y~~h~~dal  437 (550)
T PTZ00202        402 SLTIANTLLPR-----L--DFYLVPNFSRSQAFAYTQHAIDAL  437 (550)
T ss_pred             hcchhcccCcc-----c--eeEecCCCCHHHHHHHHhhccchH
Confidence            11122222333     3  456779999999999999888754

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

Probab=98.57  E-value=1e-06  Score=89.53  Aligned_cols=153  Identities=13%  Similarity=0.233  Sum_probs=96.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY  229 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~  229 (517)
                      .++++.||||+|||+||-.++..-       +   |+|+.+-.....-...                 ...-...+.+.|
T Consensus       539 vSvLl~Gp~~sGKTaLAA~iA~~S-------~---FPFvKiiSpe~miG~s-----------------EsaKc~~i~k~F  591 (744)
T KOG0741|consen  539 VSVLLEGPPGSGKTALAAKIALSS-------D---FPFVKIISPEDMIGLS-----------------ESAKCAHIKKIF  591 (744)
T ss_pred             eEEEEecCCCCChHHHHHHHHhhc-------C---CCeEEEeChHHccCcc-----------------HHHHHHHHHHHH
Confidence            379999999999999998887542       2   5677665433210000                 011245677778


Q ss_pred             HhhhccCCCceEEEEEeCcchhcccC-------c---hHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCc
Q 010136          230 SQKLHSSVMKMMLIIADELDYLITRD-------R---AVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKP  299 (517)
Q Consensus       230 ~~~~~~~~~~~~vI~iDEiD~L~~~~-------~---~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~  299 (517)
                      .+.+   +....||++|+++.|..-.       .   ..|.-|+....-.+.++.++|+|...++.+..  .+..  |..
T Consensus       592 ~DAY---kS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m--~i~~--~F~  664 (744)
T KOG0741|consen  592 EDAY---KSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEM--GILD--CFS  664 (744)
T ss_pred             HHhh---cCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHc--CHHH--hhh
Confidence            7543   4556799999999998642       1   22333443333344578888877755444432  2222  234


Q ss_pred             eEEEeCCCCH-HHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          300 LVVTFRAYSK-DQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       300 ~~i~f~p~~~-~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      ..|+++-++. +++.++|...      +.|.++..+.++.....
T Consensus       665 ~~i~Vpnl~~~~~~~~vl~~~------n~fsd~~~~~~~~~~~~  702 (744)
T KOG0741|consen  665 STIHVPNLTTGEQLLEVLEEL------NIFSDDEVRAIAEQLLS  702 (744)
T ss_pred             heeecCccCchHHHHHHHHHc------cCCCcchhHHHHHHHhc
Confidence            5899999876 8888888742      46778888888775543

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.56  E-value=1e-07  Score=95.12  Aligned_cols=141  Identities=18%  Similarity=0.171  Sum_probs=79.3

Q ss_pred             HHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC
Q 010136          137 LEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN  216 (517)
Q Consensus       137 ~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~  216 (517)
                      ..|+..+..  ...+++|+|++|||||+|+.++++++...    |   ..++|+++..+      +..+...-...    
T Consensus       173 ~~f~~~f~~--~~~~Lll~G~~GtGKThLa~aIa~~l~~~----g---~~V~y~t~~~l------~~~l~~~~~~~----  233 (329)
T PRK06835        173 KNFIENFDK--NNENLLFYGNTGTGKTFLSNCIAKELLDR----G---KSVIYRTADEL------IEILREIRFNN----  233 (329)
T ss_pred             HHHHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHHHHC----C---CeEEEEEHHHH------HHHHHHHHhcc----
Confidence            334554432  34889999999999999999999998652    2   46788886443      33332211000    


Q ss_pred             CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCCCCCCcEEEEEEECCC--Ccchhhcccc
Q 010136          217 GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTTFPFSRFILIGIANAI--DLADRFLPRL  292 (517)
Q Consensus       217 ~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~~~~~~v~lI~ian~~--~~~~~l~~~l  292 (517)
                       .......+..+.         ..-+||||++......  .++.|+.+++.....+..  +|.+||..  ++.+.+.+++
T Consensus       234 -~~~~~~~~~~l~---------~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~--tIiTSNl~~~el~~~~~eri  301 (329)
T PRK06835        234 -DKELEEVYDLLI---------NCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKK--MIISTNLSLEELLKTYSERI  301 (329)
T ss_pred             -chhHHHHHHHhc---------cCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCC--EEEECCCCHHHHHHHHhHHH
Confidence             001011122222         2358999999776433  346788888764322222  34446642  2334455677


Q ss_pred             cccCC-CceEEEeCCCC
Q 010136          293 QSMNC-KPLVVTFRAYS  308 (517)
Q Consensus       293 ~sr~~-~~~~i~f~p~~  308 (517)
                      .||.. ....+.|..-+
T Consensus       302 ~SRL~~~~~~i~~~G~d  318 (329)
T PRK06835        302 SSRLLGNFTLLKFYGED  318 (329)
T ss_pred             HHHHHcCCEEEEecCcC
Confidence            77721 23466665433

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.53  E-value=2.8e-08  Score=86.84  Aligned_cols=133  Identities=23%  Similarity=0.325  Sum_probs=80.4

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL  206 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~  206 (517)
                      +|....++++...+.....  ....++|+|++||||+++|+++...-..       ..-.++.++|....          
T Consensus         1 vG~S~~~~~l~~~l~~~a~--~~~pvli~GE~GtGK~~~A~~lh~~~~~-------~~~~~~~~~~~~~~----------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAK--SSSPVLITGEPGTGKSLLARALHRYSGR-------ANGPFIVIDCASLP----------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHC--SSS-EEEECCTTSSHHHHHHCCHHTTTT-------CCS-CCCCCHHCTC----------
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCCcEEEEcCCCCCHHHHHHHHHhhcCc-------cCCCeEEechhhCc----------
Confidence            4666778888888888653  5678999999999999999997654221       11134455555432          


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcch
Q 010136          207 LKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLAD  286 (517)
Q Consensus       207 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~  286 (517)
                                         .+.+..      .....|+|+|+|.|....|..|..++......  ++-+|+++.. ++.+
T Consensus        62 -------------------~~~l~~------a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~--~~RlI~ss~~-~l~~  113 (138)
T PF14532_consen   62 -------------------AELLEQ------AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERS--NVRLIASSSQ-DLEE  113 (138)
T ss_dssp             -------------------HHHHHH------CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTT--TSEEEEEECC--CCC
T ss_pred             -------------------HHHHHH------cCCCEEEECChHHCCHHHHHHHHHHHHhcCCC--CeEEEEEeCC-CHHH
Confidence                               112221      12347899999999988888888777654323  3445544432 2222


Q ss_pred             -----hhcccccccCCCceEEEeCCC
Q 010136          287 -----RFLPRLQSMNCKPLVVTFRAY  307 (517)
Q Consensus       287 -----~l~~~l~sr~~~~~~i~f~p~  307 (517)
                           .+.+.+..+ +....|.+||+
T Consensus       114 l~~~~~~~~~L~~~-l~~~~i~lPpL  138 (138)
T PF14532_consen  114 LVEEGRFSPDLYYR-LSQLEIHLPPL  138 (138)
T ss_dssp             HHHHSTHHHHHHHH-CSTCEEEE---
T ss_pred             HhhccchhHHHHHH-hCCCEEeCCCC
Confidence                 356677776 66678888874

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.49  E-value=5.7e-06  Score=82.47  Aligned_cols=53  Identities=23%  Similarity=0.366  Sum_probs=46.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWA  177 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~  177 (517)
                      +++|.++.++++..++.....+  .....++|.||||+|||++++++++.+....
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys  106 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYS  106 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhc
Confidence            6899999999999999988763  2346789999999999999999999998743

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

>PRK14700 recombination factor protein RarA; Provisional

Probab=98.48  E-value=1.3e-06  Score=84.10  Aligned_cols=87  Identities=17%  Similarity=0.202  Sum_probs=70.3

Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh---hc--cCCCChhHHHHHHHHHH
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME---LS--YIVFQPQALELCARKVA  341 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~---~~--~~~~~~~ai~~ia~~~~  341 (517)
                      ...++.+++||+|+ .+-.-.+.+.+.|| +  +++.|.|++.+++..+|+..+..   +.  ...+++++++.|++   
T Consensus         3 ~vE~G~i~LIGATT-ENP~f~vn~ALlSR-~--~v~~l~~L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~---   75 (300)
T PRK14700          3 YVESGKIILIGATT-ENPTYYLNDALVSR-L--FILRLKRLSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHN---   75 (300)
T ss_pred             CccCCcEEEEeecC-CCccceecHhhhhh-h--heeeecCCCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHH---
Confidence            34567899999654 44344578999999 7  79999999999999999988753   11  24689999999988   


Q ss_pred             HHhCCHHHHHHHHHHHHHH
Q 010136          342 AASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~  360 (517)
                      .+.||+|.|+++|..|+..
T Consensus        76 ~a~GDaR~aLN~LE~a~~~   94 (300)
T PRK14700         76 YNEGDCRKILNLLERMFLI   94 (300)
T ss_pred             hcCCHHHHHHHHHHHHHhh
Confidence            5899999999999998743

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=98.48  E-value=6.1e-06  Score=83.47  Aligned_cols=296  Identities=15%  Similarity=0.141  Sum_probs=169.9

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCC--------CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEK--------AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~--------~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      -.+++|.++..+.|.-.|-.......        .-++++.|.||+.|+-|++++.+--.           .-+|..+..
T Consensus       341 APEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlap-----------RgvYTTGrG  409 (721)
T KOG0482|consen  341 APEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAP-----------RGVYTTGRG  409 (721)
T ss_pred             chhhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCc-----------ccceecCCC
Confidence            34799999988877777655443222        12799999999999999999866432           335555443


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC--------
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT--------  266 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~--------  266 (517)
                      .....-.-.-+-..+.++-....|.            .++   ...-|-+|||+|.+...+..++++.++--        
T Consensus       410 SSGVGLTAAVmkDpvTgEM~LEGGA------------LVL---AD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAG  474 (721)
T KOG0482|consen  410 SSGVGLTAAVMKDPVTGEMVLEGGA------------LVL---ADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAG  474 (721)
T ss_pred             CCccccchhhhcCCCCCeeEeccce------------EEE---ccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhc
Confidence            2221110000111111100000000            011   11247789999999888777777776541        


Q ss_pred             --CCCCCcEEEEEEECCCC--------cch--hhcccccccCCCce-----------------------------EEEeC
Q 010136          267 --TFPFSRFILIGIANAID--------LAD--RFLPRLQSMNCKPL-----------------------------VVTFR  305 (517)
Q Consensus       267 --~~~~~~v~lI~ian~~~--------~~~--~l~~~l~sr~~~~~-----------------------------~i~f~  305 (517)
                        +.-+.++.+++++|..-        ..+  .|..+|.|| |..-                             ...|.
T Consensus       475 I~TtLNAR~sILaAANPayGRYnprrs~e~NI~LPaALLSR-FDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fe  553 (721)
T KOG0482|consen  475 INTTLNARTSILAAANPAYGRYNPRRSPEQNINLPAALLSR-FDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFE  553 (721)
T ss_pred             cccchhhhHHhhhhcCccccccCcccChhHhcCCcHHHHHh-hhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCC
Confidence              22356788889898641        001  122445555 3211                             24466


Q ss_pred             CCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH------HHh-----CCHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q 010136          306 AYSKDQIIRILQERLMELSYIVFQPQALELCARKVA------AAS-----GDMRKALSVCRSAIEILEAEMRESVSKMNS  374 (517)
Q Consensus       306 p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~------~~~-----Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~  374 (517)
                      |++.+-++.++...-.  ....++++.-+++...+-      +++     -.+|..+.++|-+..+|......       
T Consensus       554 pl~~~~mR~yI~~ak~--~~P~vp~~l~dyi~~AYv~~Rrea~~~~~~t~ttpRtLL~IlRls~AlarLRls~-------  624 (721)
T KOG0482|consen  554 PLDPNLMRRYISLAKR--KNPVVPEALADYITGAYVELRREARSSKDFTYTTPRTLLGILRLSTALARLRLSD-------  624 (721)
T ss_pred             CCCHHHHHHHHHHHhh--cCCCCCHHHHHHHHHHHHHHHHHhhccCCCcccCHHHHHHHHHHHHHHHHhhhcc-------
Confidence            6666666665553222  124566666666654331      112     34788999999998888877665       


Q ss_pred             ccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhH---H--HhccCCHHHHHHHHHHHH-HHh-cCCCCccHHH
Q 010136          375 ASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVV---D--TIKSLPQHQQILLCSAVK-FFR-GGKKDMTVGE  447 (517)
Q Consensus       375 ~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~---~--~i~~L~~~~k~iL~al~~-l~~-~~~~~~~~~~  447 (517)
                                           .|..+||.+|+.-+.-+...   +  .....+..  -...++++ +.. +++..+.+.+
T Consensus       625 ---------------------~V~~~DV~EALRLme~sK~sL~~~~~~~~~~~~~--~~if~iirel~~e~g~~~v~~s~  681 (721)
T KOG0482|consen  625 ---------------------SVEEDDVNEALRLMEMSKDSLYQDDGQKEDTSAT--DAIFAIIRELAGEGGKRCVKLSN  681 (721)
T ss_pred             ---------------------ccchhhHHHHHHHHHhhhcccccccccccccchH--HHHHHHHHHHHhhcCCceeeHHH
Confidence                                 79999999999877654311   1  22334442  22334443 333 3555678877


Q ss_pred             HHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceee
Q 010136          448 LNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKV  484 (517)
Q Consensus       448 l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~  484 (517)
                      +.+    -|..-++   +..++.+.+++-.++|+--.
T Consensus       682 ~~~----r~~~kGf---s~~ql~~~i~ey~~lnVw~~  711 (721)
T KOG0482|consen  682 AEQ----RCVRKGF---SEAQLKKCIDEYAELNVWQV  711 (721)
T ss_pred             HHH----HHHHcCC---CHHHHHHHHHHHHhcCeEEE
Confidence            754    3555443   55678888888888886543

>PRK06526 transposase; Provisional

Probab=98.42  E-value=7.7e-08  Score=92.65  Aligned_cols=102  Identities=20%  Similarity=0.190  Sum_probs=60.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ...+++|+||||||||+++.+++.++..    .|.   .+.++++      ..++..+.....       .......+..
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a~~----~g~---~v~f~t~------~~l~~~l~~~~~-------~~~~~~~l~~  156 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRACQ----AGH---RVLFATA------AQWVARLAAAHH-------AGRLQAELVK  156 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHHHH----CCC---chhhhhH------HHHHHHHHHHHh-------cCcHHHHHHH
Confidence            4678999999999999999999887653    232   3344332      334444432221       1111222222


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      +         .++.+|||||++.+...  .++.|+.+++......   .+|.++|.
T Consensus       157 l---------~~~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~---s~IitSn~  200 (254)
T PRK06526        157 L---------GRYPLLIVDEVGYIPFEPEAANLFFQLVSSRYERA---SLIVTSNK  200 (254)
T ss_pred             h---------ccCCEEEEcccccCCCCHHHHHHHHHHHHHHHhcC---CEEEEcCC
Confidence            1         23569999999988543  3467888886533222   25555775

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.40  E-value=1.8e-06  Score=85.57  Aligned_cols=122  Identities=18%  Similarity=0.197  Sum_probs=70.7

Q ss_pred             CcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHH
Q 010136          128 CREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILL  207 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~  207 (517)
                      ++...+.....|+.....+....++||+|++|||||+++.++++++...    |   ..+.++...      .++..+..
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~----g---~~v~~~~~~------~l~~~lk~  201 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKK----G---VSSTLLHFP------EFIRELKN  201 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHc----C---CCEEEEEHH------HHHHHHHH
Confidence            3444455556666655444456799999999999999999999998742    3   346666553      34455544


Q ss_pred             HhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc---hHHHHHhccCCCCCCcEEEEEEEC
Q 010136          208 KLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR---AVLHDLFMLTTFPFSRFILIGIAN  280 (517)
Q Consensus       208 ~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~---~~L~~l~~~~~~~~~~v~lI~ian  280 (517)
                      .+..       ..    +...+.     .-...-||||||+..-.....   ++|..+++.-...  +...|.+||
T Consensus       202 ~~~~-------~~----~~~~l~-----~l~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~--~~~ti~TSN  259 (306)
T PRK08939        202 SISD-------GS----VKEKID-----AVKEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQE--ELPTFFTSN  259 (306)
T ss_pred             HHhc-------Cc----HHHHHH-----HhcCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHC--CCeEEEECC
Confidence            4421       11    122222     112456999999976543322   4555565542111  223444567

>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=98.38  E-value=2.4e-05  Score=78.70  Aligned_cols=170  Identities=16%  Similarity=0.133  Sum_probs=96.7

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH----HHHHHHHHHhCCCCCCC------
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS----EIFSKILLKLQPRKKLN------  216 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~----~i~~~i~~~l~~~~~~~------  216 (517)
                      ..+..+.|+|+-|+|||++++.+.+.+...    ....+.++++|+..+....    .++..|..++.......      
T Consensus        18 ~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~----~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~   93 (325)
T PF07693_consen   18 DDPFVIGLYGEWGSGKSSFLNMLKEELKED----NKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLEKHFGSKKIKLYA   93 (325)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcc----cccceeeEEEccccCCCcchHHHHHHHHHHHHHHHhcCccchhHHH
Confidence            356688999999999999999998888754    1122578999999887643    34555555543211100      


Q ss_pred             ------------------CCCC------------------------------------HHHHHHHHHHh--hhccCCCce
Q 010136          217 ------------------GSTS------------------------------------PLQYLQNLYSQ--KLHSSVMKM  240 (517)
Q Consensus       217 ------------------~~~~------------------------------------~~~~l~~~~~~--~~~~~~~~~  240 (517)
                                        ....                                    ....+.+++.+  ........+
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  173 (325)
T PF07693_consen   94 KKKLKSLKIKFKIKINLSKAIPLALIGLPALILAVAIAKLKAELKNAFKSLEEKFLKKLKKEVEELISKIKKKLKESKKR  173 (325)
T ss_pred             hhhhhhhhceeeeeeecceeehHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhhhhHHHHHHHHHHHHhhhcCCce
Confidence                              0000                                    00011111111  122235678


Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcc------------cccccCCCceEEEeCCCC
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLP------------RLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~------------~l~sr~~~~~~i~f~p~~  308 (517)
                      .||||||+|++.......+..++...- ...++++|.+.+..-+...+..            ..... +....+.+|+++
T Consensus       174 iViiIDdLDR~~~~~i~~~l~~ik~~~-~~~~i~~Il~~D~~~l~~ai~~~~~~~~~~~~~~~yLeK-iiq~~~~lP~~~  251 (325)
T PF07693_consen  174 IVIIIDDLDRCSPEEIVELLEAIKLLL-DFPNIIFILAFDPEILEKAIEKNYGEGFDEIDGREYLEK-IIQVPFSLPPPS  251 (325)
T ss_pred             EEEEEcchhcCCcHHHHHHHHHHHHhc-CCCCeEEEEEecHHHHHHHHHhhcCcccccccHHHHHHh-hcCeEEEeCCCC
Confidence            999999999996654333333333211 1246666665553211111111            11122 334578999999


Q ss_pred             HHHHHHHHHHHHhh
Q 010136          309 KDQIIRILQERLME  322 (517)
Q Consensus       309 ~~e~~~IL~~rl~~  322 (517)
                      ..++..++...+..
T Consensus       252 ~~~~~~~~~~~~~~  265 (325)
T PF07693_consen  252 PSDLERYLNELLES  265 (325)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999888653

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 [].

>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=98.37  E-value=9e-08  Score=87.76  Aligned_cols=46  Identities=26%  Similarity=0.380  Sum_probs=31.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+++|++.....+.-.    ..+  ..+++|+||||||||++++.+...|..
T Consensus         3 ~dI~GQe~aKrAL~iA----AaG--~h~lLl~GppGtGKTmlA~~l~~lLP~   48 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIA----AAG--GHHLLLIGPPGTGKTMLARRLPSLLPP   48 (206)
T ss_dssp             CCSSSTHHHHHHHHHH----HHC--C--EEEES-CCCTHHHHHHHHHHCS--
T ss_pred             hhhcCcHHHHHHHHHH----HcC--CCCeEEECCCCCCHHHHHHHHHHhCCC
Confidence            4678888755444433    332  579999999999999999999877764

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.

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

Probab=98.32  E-value=3.9e-06  Score=80.91  Aligned_cols=106  Identities=19%  Similarity=0.237  Sum_probs=66.9

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLK  208 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~  208 (517)
                      +.+.+..+..+....-   ...+++|+|+||||||+++-++++++...    |   +.+.+++..+      ++..|...
T Consensus        88 ~~~~l~~~~~~~~~~~---~~~nl~l~G~~G~GKThLa~Ai~~~l~~~----g---~sv~f~~~~e------l~~~Lk~~  151 (254)
T COG1484          88 DKKALEDLASLVEFFE---RGENLVLLGPPGVGKTHLAIAIGNELLKA----G---ISVLFITAPD------LLSKLKAA  151 (254)
T ss_pred             hHHHHHHHHHHHHHhc---cCCcEEEECCCCCcHHHHHHHHHHHHHHc----C---CeEEEEEHHH------HHHHHHHH
Confidence            4455555555544432   67899999999999999999999998732    2   4677777644      44555544


Q ss_pred             hCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhcc
Q 010136          209 LQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFML  265 (517)
Q Consensus       209 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~  265 (517)
                      ...       ......|.+.+.        ..-||||||+-......  .+.+.+++..
T Consensus       152 ~~~-------~~~~~~l~~~l~--------~~dlLIiDDlG~~~~~~~~~~~~~q~I~~  195 (254)
T COG1484         152 FDE-------GRLEEKLLRELK--------KVDLLIIDDIGYEPFSQEEADLLFQLISR  195 (254)
T ss_pred             Hhc-------CchHHHHHHHhh--------cCCEEEEecccCccCCHHHHHHHHHHHHH
Confidence            422       111333444333        34699999998875442  3555555443

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.31  E-value=5.6e-06  Score=86.00  Aligned_cols=235  Identities=16%  Similarity=0.138  Sum_probs=130.5

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccC--------CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEE--------KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~--------~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +.+.++|.+....-|.-.|.......        .--+++|+|.|||||+-++++++.-+.           +-+|+++.
T Consensus       343 l~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsP-----------R~vYtsGk  411 (764)
T KOG0480|consen  343 LFPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSP-----------RSVYTSGK  411 (764)
T ss_pred             hCccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCC-----------cceEecCc
Confidence            44578898887666655554332211        123899999999999999999876543           46787775


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh-hhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC----
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF----  268 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~----  268 (517)
                      .-+...-     -..+...  ...+.       -.++. ..+  -...-|-.|||+|.+..++|-+|.+.++--+.    
T Consensus       412 aSSaAGL-----TaaVvkD--~esgd-------f~iEAGALm--LADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaK  475 (764)
T KOG0480|consen  412 ASSAAGL-----TAAVVKD--EESGD-------FTIEAGALM--LADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAK  475 (764)
T ss_pred             ccccccc-----eEEEEec--CCCCc-------eeeecCcEE--EccCceEEechhcccChHhHHHHHHHHHhheehhee
Confidence            5322110     0000000  00000       00110 001  11234789999999998888888888765221    


Q ss_pred             ------CCCcEEEEEEECCCC--------cchh--hcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-----------
Q 010136          269 ------PFSRFILIGIANAID--------LADR--FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-----------  321 (517)
Q Consensus       269 ------~~~~v~lI~ian~~~--------~~~~--l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-----------  321 (517)
                            -+.+-.+|+++|++.        +.+.  +.+.+.|| |..--|.+...++..=..|-.+.+.           
T Consensus       476 AGv~aTLnARtSIlAAANPv~GhYdR~ktl~eNi~msApimSR-FDL~FiLlD~~nE~~D~~ia~hIld~h~~i~~~~~~  554 (764)
T KOG0480|consen  476 AGVVATLNARTSILAAANPVGGHYDRKKTLRENINMSAPIMSR-FDLFFILLDDCNEVVDYAIARHILDLHRGIDDATER  554 (764)
T ss_pred             cceEEeecchhhhhhhcCCcCCccccccchhhhcCCCchhhhh-hcEEEEEecCCchHHHHHHHHHHHHHhccccccccc
Confidence                  124556778888763        2222  35778888 6444444444443333333333221           


Q ss_pred             -----------------hhccCCCChhHHHHHHHHHHHHh-----C--------CHHHHHHHHHHHHHHHHHHHHhhhhc
Q 010136          322 -----------------ELSYIVFQPQALELCARKVAAAS-----G--------DMRKALSVCRSAIEILEAEMRESVSK  371 (517)
Q Consensus       322 -----------------~~~~~~~~~~ai~~ia~~~~~~~-----G--------d~R~al~ll~~A~~~a~~~~~~~~~~  371 (517)
                                       .+. ..++.++-+.+.+++-...     |        ..|..-.+.|.+-.+|..+-.+    
T Consensus       555 ~~~~~~e~vrkYi~yAR~~~-P~ls~ea~~~lve~Y~~lR~~~~~~~~~~s~~ITvRqLESlIRLsEA~Ar~~~~d----  629 (764)
T KOG0480|consen  555 VCVYTLEQVRKYIRYARNFK-PKLSKEASEMLVEKYKGLRQRDAQGNNRSSYRITVRQLESLIRLSEARARVECRD----  629 (764)
T ss_pred             cccccHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHHHHHhhccccCcccccccHHHHHHHHHHHHHHHhhhhhh----
Confidence                             111 3455555555555443211     1        2455445555555555555554    


Q ss_pred             cccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          372 MNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                                              .||.+|+.+|+.-+..+.
T Consensus       630 ------------------------evt~~~v~ea~eLlk~Si  647 (764)
T KOG0480|consen  630 ------------------------EVTKEDVEEAVELLKKSI  647 (764)
T ss_pred             ------------------------hccHHHHHHHHHHHHhhh
Confidence                                    799999999998777664

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.31  E-value=1.5e-06  Score=88.26  Aligned_cols=44  Identities=20%  Similarity=0.331  Sum_probs=32.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++.|++.....+.-.    ..  .+.+++++||||||||++++.+-.-|.
T Consensus       180 DV~GQ~~AKrAleiA----AA--GgHnLl~~GpPGtGKTmla~Rl~~lLP  223 (490)
T COG0606         180 DVKGQEQAKRALEIA----AA--GGHNLLLVGPPGTGKTMLASRLPGLLP  223 (490)
T ss_pred             hhcCcHHHHHHHHHH----Hh--cCCcEEEecCCCCchHHhhhhhcccCC
Confidence            678877755444333    22  467999999999999999999865543

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.30  E-value=2.1e-06  Score=90.33  Aligned_cols=211  Identities=16%  Similarity=0.178  Sum_probs=125.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .++|....+..+...+....  .....++|+|.+||||+++++.+-.....       ..-.|+.+||..... ..+   
T Consensus       140 ~lig~s~~~~~~~~~i~~~~--~~~~~vli~ge~g~gk~~~a~~ih~~s~~-------~~~~~i~~~c~~~~~-~~~---  206 (441)
T PRK10365        140 GMVGKSPAMQHLLSEIALVA--PSEATVLIHGDSGTGKELVARAIHASSAR-------SEKPLVTLNCAALNE-SLL---  206 (441)
T ss_pred             ceEecCHHHHHHHHHHhhcc--CCCCeEEEEecCCCCHHHHHHHHHHcCCC-------CCCCeeeeeCCCCCH-HHH---
Confidence            35666666666655554332  34578999999999999999997543221       113699999998642 222   


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEEEE
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFILI  276 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~lI  276 (517)
                       ...+.+............ -...+.      .....+||||||+.|....|..|..+++....        ....+-+|
T Consensus       207 -~~~lfg~~~~~~~~~~~~-~~g~~~------~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii  278 (441)
T PRK10365        207 -ESELFGHEKGAFTGADKR-REGRFV------EADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLI  278 (441)
T ss_pred             -HHHhcCCCCCCcCCCCcC-CCCcee------ECCCCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEE
Confidence             223322221110000000 000111      12345799999999988888777777654221        11345677


Q ss_pred             EEECCCCcchh-----hcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHHH
Q 010136          277 GIANAIDLADR-----FLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       277 ~ian~~~~~~~-----l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~~  343 (517)
                      ++++. ++...     +.+.+..+ +....|.++|+..  +++..++...+..+      ....+++++++.+...  ..
T Consensus       279 ~~t~~-~~~~~~~~~~~~~~l~~~-l~~~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--~w  354 (441)
T PRK10365        279 AATHR-DLAAEVNAGRFRQDLYYR-LNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHY--DW  354 (441)
T ss_pred             EeCCC-CHHHHHHcCCchHHHHHH-hccceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhC--CC
Confidence            76653 32222     23333334 4456888888853  46666665555422      1134899999998763  35


Q ss_pred             hCCHHHHHHHHHHHHHH
Q 010136          344 SGDMRKALSVCRSAIEI  360 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~  360 (517)
                      .|++|...+++++|+..
T Consensus       355 pgN~reL~~~~~~~~~~  371 (441)
T PRK10365        355 PGNIRELENAVERAVVL  371 (441)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            89999999999998754

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=98.29  E-value=0.00029  Score=71.93  Aligned_cols=80  Identities=14%  Similarity=0.257  Sum_probs=61.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC---C----C
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL---T----N  197 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~---~----s  197 (517)
                      -.+||+.+++.|...|.. +..+.+..-+|.|.-|+|||++++.+.....+    .+   +-+.+++.+..   .    .
T Consensus        26 ~~VGr~~e~~~l~~~l~~-v~~G~s~~kfi~G~YGsGKTf~l~~i~~~A~~----~~---fvvs~v~ls~e~~lh~~~g~   97 (416)
T PF10923_consen   26 IAVGREREIEALDRDLDR-VADGGSSFKFIRGEYGSGKTFFLRLIRERALE----KG---FVVSEVDLSPERPLHGTGGQ   97 (416)
T ss_pred             eeechHHHHHHHHHHHHH-HhCCCCeEEEEEeCCCCcHHHHHHHHHHHHHH----cC---CEEEEEecCCCccccccccc
Confidence            479999999999999876 55677778999999999999999998765443    33   45677766652   2    3


Q ss_pred             HHHHHHHHHHHhCCC
Q 010136          198 TSEIFSKILLKLQPR  212 (517)
Q Consensus       198 ~~~i~~~i~~~l~~~  212 (517)
                      ...+|+.|...|...
T Consensus        98 ~~~~Yr~l~~nL~t~  112 (416)
T PF10923_consen   98 LEALYRELMRNLSTK  112 (416)
T ss_pred             HHHHHHHHHHhcCCC
Confidence            445888888888643

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.28  E-value=4.3e-05  Score=87.91  Aligned_cols=200  Identities=13%  Similarity=0.142  Sum_probs=114.7

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC-CCCCHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT-SLTNTS  199 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~-~~~s~~  199 (517)
                      ..+..++.|..-.+.+    ..   ....+.++|+||+|.|||+++..++...       +    .+++++.. ...++.
T Consensus        11 ~~~~~~~~R~rl~~~l----~~---~~~~~~~~v~apaG~GKTtl~~~~~~~~-------~----~~~w~~l~~~d~~~~   72 (903)
T PRK04841         11 VRLHNTVVRERLLAKL----SG---ANNYRLVLVTSPAGYGKTTLISQWAAGK-------N----NLGWYSLDESDNQPE   72 (903)
T ss_pred             CCccccCcchHHHHHH----hc---ccCCCeEEEECCCCCCHHHHHHHHHHhC-------C----CeEEEecCcccCCHH
Confidence            3456788888755444    32   1346789999999999999999987432       1    36677765 335667


Q ss_pred             HHHHHHHHHhCCCCCCC----------CC-CCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhccCC
Q 010136          200 EIFSKILLKLQPRKKLN----------GS-TSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFMLTT  267 (517)
Q Consensus       200 ~i~~~i~~~l~~~~~~~----------~~-~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~~  267 (517)
                      .++..++..+.......          .+ ......+..++..  ......+++||||+++.+.... .+.|..|++.. 
T Consensus        73 ~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~-  149 (903)
T PRK04841         73 RFASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIE--LADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQ-  149 (903)
T ss_pred             HHHHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHH--HhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhC-
Confidence            78888888884221110          01 1112233334431  1234678999999999985433 24566666542 


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeC--CCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFR--AYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG  345 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~--p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G  345 (517)
                       + ..+.+|.++.... +-. ..++.-+ -...+|...  +++.+|..+.+..++..    .++++.++.+.+   .+.|
T Consensus       150 -~-~~~~lv~~sR~~~-~~~-~~~l~~~-~~~~~l~~~~l~f~~~e~~~ll~~~~~~----~~~~~~~~~l~~---~t~G  217 (903)
T PRK04841        150 -P-ENLTLVVLSRNLP-PLG-IANLRVR-DQLLEIGSQQLAFDHQEAQQFFDQRLSS----PIEAAESSRLCD---DVEG  217 (903)
T ss_pred             -C-CCeEEEEEeCCCC-CCc-hHhHHhc-CcceecCHHhCCCCHHHHHHHHHhccCC----CCCHHHHHHHHH---HhCC
Confidence             2 3444444565421 111 1222222 111234444  89999999999866542    467777776655   4556


Q ss_pred             CHHHHHHHH
Q 010136          346 DMRKALSVC  354 (517)
Q Consensus       346 d~R~al~ll  354 (517)
                      .+ .++.++
T Consensus       218 wp-~~l~l~  225 (903)
T PRK04841        218 WA-TALQLI  225 (903)
T ss_pred             hH-HHHHHH
Confidence            65 444443

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=98.25  E-value=0.00022  Score=73.83  Aligned_cols=131  Identities=18%  Similarity=0.192  Sum_probs=81.1

Q ss_pred             HHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc--------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC
Q 010136          111 SAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE--------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL  182 (517)
Q Consensus       111 ~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~--------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~  182 (517)
                      ...++.+...++|..+..++..++.+.+.|...+..        ..+..++|+|++|+||||++..++..+..    .+ 
T Consensus        49 ~~v~~~~~~~~~~~~~~~~~~~~~~v~~~L~~~l~~~~~~~~~~~~p~vI~lvG~~GsGKTTtaakLA~~L~~----~g-  123 (437)
T PRK00771         49 KSIKERALEEEPPKGLTPREHVIKIVYEELVKLLGEETEPLVLPLKPQTIMLVGLQGSGKTTTAAKLARYFKK----KG-  123 (437)
T ss_pred             HHHHHHHhcccccccCCcHHHHHHHHHHHHHHHhCCCccccccCCCCeEEEEECCCCCcHHHHHHHHHHHHHH----cC-
Confidence            444444445566777777777777777777665543        23567999999999999999999987764    23 


Q ss_pred             CCceEEEEeCCCCCC-HHHHHHHHHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          183 QQPEVFSINCTSLTN-TSEIFSKILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       183 ~~~~~v~vn~~~~~s-~~~i~~~i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                        ..+..++|..+.. ..+-+..++..++...... ....+...+...+...    . ..-+|+||.+-.+..
T Consensus       124 --~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~----~-~~DvVIIDTAGr~~~  189 (437)
T PRK00771        124 --LKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF----K-KADVIIVDTAGRHAL  189 (437)
T ss_pred             --CeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh----h-cCCEEEEECCCcccc
Confidence              2466666655432 2344555666665432221 1233445555555421    1 126899999977643

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.22  E-value=2.1e-05  Score=82.47  Aligned_cols=166  Identities=19%  Similarity=0.180  Sum_probs=94.2

Q ss_pred             CCCCcHHHHHHHHHHHHHhhcc--CCC------CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLEE--EKA------GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~--~~~------~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      .+++.|+..+-+.-.|...-..  ..+      -+||++|.||||||.+++++.+-+.           .-+|.++..-.
T Consensus       430 sIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~p-----------Rg~yTSGkGsS  498 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLP-----------RGVYTSGKGSS  498 (804)
T ss_pred             hhhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCC-----------cceeecCCccc
Confidence            5677777665555444332111  111      3899999999999999999987654           34666664421


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC---------
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT---------  267 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~---------  267 (517)
                      ....       .........++    +.   ++....+ --...-|-+|||||.|....+.+|++.++--+         
T Consensus       499 avGL-------TayVtrd~dtk----ql---VLesGAL-VLSD~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII  563 (804)
T KOG0478|consen  499 AVGL-------TAYVTKDPDTR----QL---VLESGAL-VLSDNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGII  563 (804)
T ss_pred             hhcc-------eeeEEecCccc----ee---eeecCcE-EEcCCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhccee
Confidence            1100       00000000000    00   0000000 01123477899999998888889988876522         


Q ss_pred             -CCCCcEEEEEEECCCC--------cchh--hcccccccCCCceEEEeCCCCHHHHHHHHH
Q 010136          268 -FPFSRFILIGIANAID--------LADR--FLPRLQSMNCKPLVVTFRAYSKDQIIRILQ  317 (517)
Q Consensus       268 -~~~~~v~lI~ian~~~--------~~~~--l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~  317 (517)
                       .-+.+..|++++|..+        ..+.  +.|.|.|| |...-+.|.+.+...=+.+..
T Consensus       564 ~sLNAR~SVLAaANP~~skynp~k~i~eNI~LpptLLSR-FDLIylllD~~DE~~Dr~La~  623 (804)
T KOG0478|consen  564 ASLNARCSVLAAANPIRSKYNPNKSIIENINLPPTLLSR-FDLIFLLLDKPDERSDRRLAD  623 (804)
T ss_pred             eeccccceeeeeeccccccCCCCCchhhccCCChhhhhh-hcEEEEEecCcchhHHHHHHH
Confidence             2356788999999654        2232  35888898 866666677776553344433

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.21  E-value=7.5e-06  Score=75.98  Aligned_cols=106  Identities=19%  Similarity=0.211  Sum_probs=59.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ..+..+|.|+||||||++++.+...+...    +   ..++.+.. .    ......+.+..+..         ...+..
T Consensus        17 ~~~~~~l~G~aGtGKT~~l~~~~~~~~~~----g---~~v~~~ap-T----~~Aa~~L~~~~~~~---------a~Ti~~   75 (196)
T PF13604_consen   17 GDRVSVLQGPAGTGKTTLLKALAEALEAA----G---KRVIGLAP-T----NKAAKELREKTGIE---------AQTIHS   75 (196)
T ss_dssp             TCSEEEEEESTTSTHHHHHHHHHHHHHHT----T-----EEEEES-S----HHHHHHHHHHHTS----------EEEHHH
T ss_pred             CCeEEEEEECCCCCHHHHHHHHHHHHHhC----C---CeEEEECC-c----HHHHHHHHHhhCcc---------hhhHHH
Confidence            44678899999999999999988777652    2   23444433 2    22223344444211         112333


Q ss_pred             HHHhhhcc------CCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          228 LYSQKLHS------SVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       228 ~~~~~~~~------~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      ++......      ......+|||||+..+..   ..+..+++.....+.+++++|
T Consensus        76 ~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~---~~~~~ll~~~~~~~~klilvG  128 (196)
T PF13604_consen   76 FLYRIPNGDDEGRPELPKKDVLIVDEASMVDS---RQLARLLRLAKKSGAKLILVG  128 (196)
T ss_dssp             HTTEECCEECCSSCC-TSTSEEEESSGGG-BH---HHHHHHHHHS-T-T-EEEEEE
T ss_pred             HHhcCCcccccccccCCcccEEEEecccccCH---HHHHHHHHHHHhcCCEEEEEC
Confidence            33321000      012335999999998853   556777777655667888887

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.20  E-value=0.00019  Score=80.78  Aligned_cols=303  Identities=14%  Similarity=0.125  Sum_probs=166.1

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC--CCHH----
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL--TNTS----  199 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~--~s~~----  199 (517)
                      ++||+.|++.|...+.+... +....+++.|.+|.|||.+++.|.+.+.+..       -.++.--|..+  ..+.    
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~-g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~-------~~~i~~~f~q~~~~ipl~~lv   73 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSK-GRGEVVLVAGESGIGKSALVNEVHKPITQQR-------GYFIKGKFDQFERNIPLSPLV   73 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhC-CCeEEEEEeecCCCcHHHHHHHHHHHHhccc-------eeeeHhhcccccCCCchHHHH
Confidence            78999999999999998664 4555899999999999999999998876531       12333333322  1222    


Q ss_pred             HHHHHHHHHhCCCCCC--------------C---------------CC----------CCHHH----HHHHHHHhhhccC
Q 010136          200 EIFSKILLKLQPRKKL--------------N---------------GS----------TSPLQ----YLQNLYSQKLHSS  236 (517)
Q Consensus       200 ~i~~~i~~~l~~~~~~--------------~---------------~~----------~~~~~----~l~~~~~~~~~~~  236 (517)
                      +.++.+..++......              .               .|          .....    .+...+.  ....
T Consensus        74 q~~r~l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~--~~~~  151 (849)
T COG3899          74 QAFRDLMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQ--VFTA  151 (849)
T ss_pred             HHHHHHHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHH--HHHh
Confidence            2344444443111100              0               00          00000    1111111  2224


Q ss_pred             CCceEEEEEeCcchhcccCchHHHHHhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHH
Q 010136          237 VMKMMLIIADELDYLITRDRAVLHDLFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIR  314 (517)
Q Consensus       237 ~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~  314 (517)
                      ..+|.|+|+|++++.....-+.|..+++...  ....+-+....++    ...+.+-.++. -....|.+.|++..+...
T Consensus       152 ~~~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~----~~~~~~~~~~~-~~i~~I~L~PL~~~d~~~  226 (849)
T COG3899         152 EEHPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPL----RPTLGEILKSA-TNITTITLAPLSRADTNQ  226 (849)
T ss_pred             ccCCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCc----cchhhHHhhcC-CceeEEecCcCchhhHHH
Confidence            6679999999999997777677777765542  0000011111111    11122222232 455899999999999999


Q ss_pred             HHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--HHHHHHhhhhccccccccccchhhhhhhhhhc
Q 010136          315 ILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI--LEAEMRESVSKMNSASAEQGLFDQQAASAFEF  392 (517)
Q Consensus       315 IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~--a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  392 (517)
                      ++...+...  .....+..+.+.+   ...|.+=.+-.+++...+.  ...+...-         ....+..        
T Consensus       227 lV~~~l~~~--~~~~~p~~~~i~~---kt~GnPfFi~e~lk~l~~~~~i~f~~~~~---------~w~~~~~--------  284 (849)
T COG3899         227 LVAATLGCT--KLLPAPLLELIFE---KTKGNPFFIEEFLKALYEEGLLVFNFDTG---------AWQCSIA--------  284 (849)
T ss_pred             HHHHHhCCc--ccccchHHHHHHH---HhcCCCccHHHHHHHHHhCCeeEecCCCc---------ceeccHH--------
Confidence            999988642  2344555666655   4566655555555554421  00010000         0000000        


Q ss_pred             cCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHH
Q 010136          393 FNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSM  472 (517)
Q Consensus       393 ~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~  472 (517)
                         .|..-....++.    ..+...++.||...+.||..+.-+   | ..++.+.|-    .+++.     ....+...+
T Consensus       285 ---~i~~~~~~~~vv----~~l~~rl~kL~~~t~~Vl~~AA~i---G-~~F~l~~La----~l~~~-----~~~~~a~~l  344 (849)
T COG3899         285 ---SLGILATTDAVV----EFLAARLQKLPGTTREVLKAAACI---G-NRFDLDTLA----ALAED-----SPALEAAAL  344 (849)
T ss_pred             ---hcCCchhhHHHH----HHHHHHHhcCCHHHHHHHHHHHHh---C-ccCCHHHHH----HHHhh-----chHHHHHHH
Confidence               111111111110    113456889999999999866543   2 456666553    33432     455677788


Q ss_pred             HHHHhhcCceeec
Q 010136          473 CRVLHDQGVLKVG  485 (517)
Q Consensus       473 ~~~L~~~glI~~~  485 (517)
                      +..|...+++...
T Consensus       345 ~~al~e~lI~~~~  357 (849)
T COG3899         345 LDALQEGLILPLS  357 (849)
T ss_pred             HHHhHhhceeccc
Confidence            8888888888643

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.19  E-value=1.8e-05  Score=80.62  Aligned_cols=180  Identities=12%  Similarity=0.118  Sum_probs=92.1

Q ss_pred             CcHHHHHHHHHHHHHhhcc-------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          128 CREDEQKKVLEFCKKNLEE-------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~-------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      ..+...+.+...|...+..       ..+..++++||+|+||||++..++..+.......+. .+.++.+++......++
T Consensus       146 ~~~~v~~~l~~~l~~~i~~~~~~~~~~~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~-~V~lit~Dt~R~aa~eQ  224 (388)
T PRK12723        146 DYDKVRDSVIIYIAKTIKCSGSIIDNLKKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSL-NIKIITIDNYRIGAKKQ  224 (388)
T ss_pred             CHHHHHHHHHHHHHHHhhccCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCC-eEEEEeccCccHHHHHH
Confidence            3444444455555443321       235689999999999999999999877643322232 24455555544333333


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--hHHHHHhccCCCCCCcEEEEEE
Q 010136          201 IFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--AVLHDLFMLTTFPFSRFILIGI  278 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--~~L~~l~~~~~~~~~~v~lI~i  278 (517)
                       +...++.++.+..  ... ....+...+..     ....-+|+||++..+.....  ..|..+++... +...+.++.-
T Consensus       225 -L~~~a~~lgvpv~--~~~-~~~~l~~~L~~-----~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~-~~~e~~LVls  294 (388)
T PRK12723        225 -IQTYGDIMGIPVK--AIE-SFKDLKEEITQ-----SKDFDLVLVDTIGKSPKDFMKLAEMKELLNACG-RDAEFHLAVS  294 (388)
T ss_pred             -HHHHhhcCCcceE--eeC-cHHHHHHHHHH-----hCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcC-CCCeEEEEEc
Confidence             3444444433221  112 24455555541     23457999999998854321  22333433222 2223333333


Q ss_pred             ECC-CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHH
Q 010136          279 ANA-IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERL  320 (517)
Q Consensus       279 an~-~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl  320 (517)
                      ++. .+-...+..+...  ++...+.|.-+|.....-.+-..+
T Consensus       295 at~~~~~~~~~~~~~~~--~~~~~~I~TKlDet~~~G~~l~~~  335 (388)
T PRK12723        295 STTKTSDVKEIFHQFSP--FSYKTVIFTKLDETTCVGNLISLI  335 (388)
T ss_pred             CCCCHHHHHHHHHHhcC--CCCCEEEEEeccCCCcchHHHHHH
Confidence            332 1111122222221  445788888888766554444333

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.18  E-value=7.5e-05  Score=83.95  Aligned_cols=205  Identities=15%  Similarity=0.109  Sum_probs=130.5

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL  206 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~  206 (517)
                      +|.+.-++.+...|..    ...+.+-|+|..|+||||+++.+.+.....  ..++.  .+++|..+..-+...+...|+
T Consensus       161 VG~e~~~~kl~~~L~~----d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v--~~~Fd--~~iWV~VSk~f~~~~iq~~Il  232 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLME----DDVGIVGIYGMGGVGKTTLARQIFNKFDEV--GNHFD--GVIWVVVSKEFTTRKIQQTIL  232 (889)
T ss_pred             ccHHHHHHHHHHHhcc----CCCCEEEEECCCcccHHHHHHHHhcccchh--cccCc--eEEEEEEcccccHHhHHHHHH
Confidence            9999988877777554    344789999999999999999998876531  12222  467777777778899999999


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCC-CcEEEEEEECCCCcc
Q 010136          207 LKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF-SRFILIGIANAIDLA  285 (517)
Q Consensus       207 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~-~~v~lI~ian~~~~~  285 (517)
                      ..++.....+..... ..+...+.+ .+  ..+..+|++|+|-.=      .....+..+.... ...-++.+|...+  
T Consensus       233 ~~l~~~~~~~~~~~~-~~~~~~i~~-~L--~~krfllvLDDIW~~------~dw~~I~~~~p~~~~g~KvvlTTRs~~--  300 (889)
T KOG4658|consen  233 ERLGLLDEEWEDKEE-DELASKLLN-LL--EGKRFLLVLDDIWEE------VDWDKIGVPFPSRENGSKVVLTTRSEE--  300 (889)
T ss_pred             HHhccCCcccchhhH-HHHHHHHHH-Hh--ccCceEEEEeccccc------ccHHhcCCCCCCccCCeEEEEEeccHh--
Confidence            999765544433221 222222221 11  356789999998532      1133333332121 2244555566422  


Q ss_pred             hhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          286 DRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       286 ~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                        +-.+.... .  ..+...-++.++.-+.++..+-...  .-+...++.+|+.++...|++..|+.++-.+.
T Consensus       301 --V~~~~m~~-~--~~~~v~~L~~~eaW~LF~~~v~~~~--~~~~~~i~~lak~v~~kC~GLPLAl~viG~~m  366 (889)
T KOG4658|consen  301 --VCGRAMGV-D--YPIEVECLTPEEAWDLFQKKVGPNT--LGSHPDIEELAKEVAEKCGGLPLALNVLGGLL  366 (889)
T ss_pred             --hhhccccC-C--ccccccccCccccHHHHHHhhcccc--ccccccHHHHHHHHHHHhCChHHHHHHHHHHh
Confidence              22221111 1  3566777888998888887764221  11112389999999999999999999886655

>PHA00729 NTP-binding motif containing protein

Probab=98.17  E-value=9.8e-06  Score=75.76  Aligned_cols=30  Identities=23%  Similarity=0.231  Sum_probs=25.8

Q ss_pred             ccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          145 EEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       145 ~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+...+++|+|+||||||+++.+++..+.
T Consensus        13 ~~~~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         13 NNNGFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             hcCCeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            344556899999999999999999999875

>PRK09183 transposase/IS protein; Provisional

Probab=98.17  E-value=2.6e-06  Score=82.55  Aligned_cols=103  Identities=17%  Similarity=0.185  Sum_probs=59.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+.+++|+||||||||+++.+++..+..    .|   ..+.++++..      +...+......       ..    +..
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~----~G---~~v~~~~~~~------l~~~l~~a~~~-------~~----~~~  156 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEAVR----AG---IKVRFTTAAD------LLLQLSTAQRQ-------GR----YKT  156 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHH----cC---CeEEEEeHHH------HHHHHHHHHHC-------Cc----HHH
Confidence            4678999999999999999999876543    23   2466666432      22222221100       01    222


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECC
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      .+..    ....+.+++|||++.+....  .+.|+.+++...... .  +|.++|.
T Consensus       157 ~~~~----~~~~~dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~-s--~iiTsn~  205 (259)
T PRK09183        157 TLQR----GVMAPRLLIIDEIGYLPFSQEEANLFFQVIAKRYEKG-S--MILTSNL  205 (259)
T ss_pred             HHHH----HhcCCCEEEEcccccCCCChHHHHHHHHHHHHHHhcC-c--EEEecCC
Confidence            2221    01234699999998865443  346888876643222 2  4555774

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.17  E-value=7.4e-06  Score=89.99  Aligned_cols=168  Identities=17%  Similarity=0.230  Sum_probs=98.2

Q ss_pred             CCCCc-HHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          125 TIVCR-EDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       125 ~l~gR-e~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      .++|| ++++..+.+.|...    ..+|-+|.|.||+|||.++..+++.+....-........++.++-..+..      
T Consensus       187 Pvigr~deeirRvi~iL~Rr----tk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~a------  256 (898)
T KOG1051|consen  187 PVIGRHDEEIRRVIEILSRK----TKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVA------  256 (898)
T ss_pred             CccCCchHHHHHHHHHHhcc----CCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhccc------
Confidence            46788 99998888887653    33789999999999999999999887642111101112344444322110      


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCch--HH--HHHhccCCCCCCcEEEEEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRA--VL--HDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~--~L--~~l~~~~~~~~~~v~lI~ia  279 (517)
                             +.  .. .......+..+.....  ..+..+||||||++.+......  .+  -+++. +......+-+||+|
T Consensus       257 -------Ga--~~-rge~E~rlk~l~k~v~--~~~~gvILfigelh~lvg~g~~~~~~d~~nlLk-p~L~rg~l~~IGat  323 (898)
T KOG1051|consen  257 -------GA--KR-RGEFEERLKELLKEVE--SGGGGVILFLGELHWLVGSGSNYGAIDAANLLK-PLLARGGLWCIGAT  323 (898)
T ss_pred             -------Cc--cc-chHHHHHHHHHHHHHh--cCCCcEEEEecceeeeecCCCcchHHHHHHhhH-HHHhcCCeEEEecc
Confidence                   00  00 1112444555554211  2557799999999999876533  11  11221 11233448999977


Q ss_pred             CCCCcchhh--cccccccCCCceEEEeCCCCHHHHHHHHHH
Q 010136          280 NAIDLADRF--LPRLQSMNCKPLVVTFRAYSKDQIIRILQE  318 (517)
Q Consensus       280 n~~~~~~~l--~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~  318 (517)
                      +...+...+  +|.+.+| |  +.+.++-++.++...||..
T Consensus       324 T~e~Y~k~iekdPalErr-w--~l~~v~~pS~~~~~~iL~~  361 (898)
T KOG1051|consen  324 TLETYRKCIEKDPALERR-W--QLVLVPIPSVENLSLILPG  361 (898)
T ss_pred             cHHHHHHHHhhCcchhhC-c--ceeEeccCcccchhhhhhh
Confidence            733333322  6888888 7  4556666666666666653

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

Probab=98.16  E-value=3.4e-06  Score=76.86  Aligned_cols=102  Identities=22%  Similarity=0.259  Sum_probs=57.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ...+++|+|+||||||+++.++++++...    |   ..+.|++.      .+++..+....    .   .....+.+..
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~----g---~~v~f~~~------~~L~~~l~~~~----~---~~~~~~~~~~  105 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRK----G---YSVLFITA------SDLLDELKQSR----S---DGSYEELLKR  105 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHT----T-----EEEEEH------HHHHHHHHCCH----C---CTTHCHHHHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccC----C---cceeEeec------Cceeccccccc----c---ccchhhhcCc
Confidence            46789999999999999999999887652    2   35777774      33333333211    1   1221233333


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      +.         ..-+|||||+......  ..+.|+++++.-.. + + ..|.+||-
T Consensus       106 l~---------~~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~-~-~-~tIiTSN~  149 (178)
T PF01695_consen  106 LK---------RVDLLILDDLGYEPLSEWEAELLFEIIDERYE-R-K-PTIITSNL  149 (178)
T ss_dssp             HH---------TSSCEEEETCTSS---HHHHHCTHHHHHHHHH-T---EEEEEESS
T ss_pred             cc---------cccEecccccceeeecccccccchhhhhHhhc-c-c-CeEeeCCC
Confidence            32         2358999999765432  23456677665322 2 2 24446774

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.

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=98.14  E-value=6.4e-05  Score=73.32  Aligned_cols=211  Identities=18%  Similarity=0.194  Sum_probs=125.7

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.+++....++.+...-+....  -...++|.|..||||-.+|+++-..-.+.       .-+|+.+||..+.....  
T Consensus       203 F~~~v~~S~~mk~~v~qA~k~Am--lDAPLLI~GeTGTGKdLlAkaCH~~S~R~-------~~pFlalNCA~lPe~~a--  271 (511)
T COG3283         203 FEQIVAVSPKMKHVVEQAQKLAM--LDAPLLITGETGTGKDLLAKACHLASPRH-------SKPFLALNCASLPEDAA--  271 (511)
T ss_pred             hHHHhhccHHHHHHHHHHHHhhc--cCCCeEEecCCCchHHHHHHHHhhcCccc-------CCCeeEeecCCCchhHh--
Confidence            35677777777766665444322  24579999999999999999864332211       13699999999854322  


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFI  274 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~  274 (517)
                         -.++.+...+..+.      .-+|+.      ...-.+++|||-.+...-|.-|..+++-.+        .....|-
T Consensus       272 ---EsElFG~apg~~gk------~GffE~------AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVR  336 (511)
T COG3283         272 ---ESELFGHAPGDEGK------KGFFEQ------ANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVR  336 (511)
T ss_pred             ---HHHHhcCCCCCCCc------cchhhh------ccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEE
Confidence               23343433322221      123431      122367999999998876755555554421        1234688


Q ss_pred             EEEEECCCCcchhhc-----ccccccCCCceEEEeCCCCH-----HHHHHHHHHHHh---hhccCCCChhHHHHHHHHHH
Q 010136          275 LIGIANAIDLADRFL-----PRLQSMNCKPLVVTFRAYSK-----DQIIRILQERLM---ELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       275 lI~ian~~~~~~~l~-----~~l~sr~~~~~~i~f~p~~~-----~e~~~IL~~rl~---~~~~~~~~~~ai~~ia~~~~  341 (517)
                      ||++|. .++.+...     ..+.-| +..-.+.++|+-.     .-+.+.+..+..   +.+...++++.+.++.++  
T Consensus       337 VIcatq-~nL~~lv~~g~fReDLfyR-LNVLtl~~PpLRer~~di~pL~e~Fv~q~s~elg~p~pkl~~~~~~~L~~y--  412 (511)
T COG3283         337 VICATQ-VNLVELVQKGKFREDLFYR-LNVLTLNLPPLRERPQDIMPLAELFVQQFSDELGVPRPKLAADLLTVLTRY--  412 (511)
T ss_pred             EEeccc-ccHHHHHhcCchHHHHHHH-hheeeecCCccccCcccchHHHHHHHHHHHHHhCCCCCccCHHHHHHHHHc--
Confidence            888554 33332221     111112 3223556666632     333343333443   345578999999998774  


Q ss_pred             HHhCCHHHHHHHHHHHHHHHHH
Q 010136          342 AASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                      ...|++|..-+.+.+|+.+.+.
T Consensus       413 ~WpGNVRqL~N~iyRA~s~~Eg  434 (511)
T COG3283         413 AWPGNVRQLKNAIYRALTLLEG  434 (511)
T ss_pred             CCCccHHHHHHHHHHHHHHhcc
Confidence            5789999999999999876653

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.11  E-value=0.00024  Score=76.92  Aligned_cols=292  Identities=16%  Similarity=0.194  Sum_probs=165.7

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC-CCCHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS-LTNTS  199 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~-~~s~~  199 (517)
                      ..|...+-|..-+.    .|..   +....-++|+-|.|.||||++-..+.....     +   ..+.++++.+ ..++.
T Consensus        16 ~~~~~~v~R~rL~~----~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~~~-----~---~~v~Wlslde~dndp~   80 (894)
T COG2909          16 VRPDNYVVRPRLLD----RLRR---ANDYRLILISAPAGFGKTTLLAQWRELAAD-----G---AAVAWLSLDESDNDPA   80 (894)
T ss_pred             CCcccccccHHHHH----HHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhcCc-----c---cceeEeecCCccCCHH
Confidence            34566777777443    3333   235678999999999999999988763221     1   3578888765 46789


Q ss_pred             HHHHHHHHHhCCCCCCCCC-----------CCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhccCC
Q 010136          200 EIFSKILLKLQPRKKLNGS-----------TSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFMLTT  267 (517)
Q Consensus       200 ~i~~~i~~~l~~~~~~~~~-----------~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~~  267 (517)
                      .|++.+...++...+....           .+....+..+|.+  +....+|+.+|||+.+.+.... ...|..|++-  
T Consensus        81 rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~E--la~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~--  156 (894)
T COG2909          81 RFLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNE--LASYEGPLYLVLDDYHLISDPALHEALRFLLKH--  156 (894)
T ss_pred             HHHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHH--HHhhcCceEEEeccccccCcccHHHHHHHHHHh--
Confidence            9999999998643332111           1112244445542  3456778999999999886543 3566666654  


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEe----CCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTF----RAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f----~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                       ...++.+|.+|...  +.-...+++-+   ...+.+    -.++.+|..+.+..+..    ..++...++.+..   .+
T Consensus       157 -~P~~l~lvv~SR~r--P~l~la~lRlr---~~llEi~~~~Lrf~~eE~~~fl~~~~~----l~Ld~~~~~~L~~---~t  223 (894)
T COG2909         157 -APENLTLVVTSRSR--PQLGLARLRLR---DELLEIGSEELRFDTEEAAAFLNDRGS----LPLDAADLKALYD---RT  223 (894)
T ss_pred             -CCCCeEEEEEeccC--CCCcccceeeh---hhHHhcChHhhcCChHHHHHHHHHcCC----CCCChHHHHHHHh---hc
Confidence             23577888777642  22122222222   112222    24688999999887653    2456666666655   34


Q ss_pred             hCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCH
Q 010136          344 SGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQ  423 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~  423 (517)
                      .|-+ .|+.+.--+.    +.+...         +...               -......+.+....   ..+.+..||.
T Consensus       224 eGW~-~al~L~aLa~----~~~~~~---------~q~~---------------~~LsG~~~~l~dYL---~eeVld~Lp~  271 (894)
T COG2909         224 EGWA-AALQLIALAL----RNNTSA---------EQSL---------------RGLSGAASHLSDYL---VEEVLDRLPP  271 (894)
T ss_pred             ccHH-HHHHHHHHHc----cCCCcH---------HHHh---------------hhccchHHHHHHHH---HHHHHhcCCH
Confidence            5543 2333332222    111100         0000               00111122222222   3577889999


Q ss_pred             HHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec--cCCceeEE
Q 010136          424 HQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG--RDDKLKRV  493 (517)
Q Consensus       424 ~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~--~~~~~~~~  493 (517)
                      ..+.+|.....+..      .-       -.+|...    .+...=..|+++|+.+||--..  ..+.+.+|
T Consensus       272 ~l~~FLl~~svl~~------f~-------~eL~~~L----tg~~ng~amLe~L~~~gLFl~~Ldd~~~Wfry  326 (894)
T COG2909         272 ELRDFLLQTSVLSR------FN-------DELCNAL----TGEENGQAMLEELERRGLFLQRLDDEGQWFRY  326 (894)
T ss_pred             HHHHHHHHHHhHHH------hh-------HHHHHHH----hcCCcHHHHHHHHHhCCCceeeecCCCceeeh
Confidence            99999987665421      11       1445543    1222235789999999987643  44444444

>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=98.09  E-value=6.9e-06  Score=83.07  Aligned_cols=108  Identities=20%  Similarity=0.246  Sum_probs=65.7

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      ..+.++||+|++|+|||+++..+...+....+               .-.--..++..+.+.+.....   +..+...+.
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k---------------~R~HFh~Fm~~vh~~l~~~~~---~~~~l~~va  121 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRK---------------RRVHFHEFMLDVHSRLHQLRG---QDDPLPQVA  121 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCcccc---------------ccccccHHHHHHHHHHHHHhC---CCccHHHHH
Confidence            35789999999999999999998777642110               000113455555555533221   222244444


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      +.+.       ....||+|||++--...+.-.|..||++.-  ...+++|+++|.
T Consensus       122 ~~l~-------~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gvvlVaTSN~  167 (362)
T PF03969_consen  122 DELA-------KESRLLCFDEFQVTDIADAMILKRLFEALF--KRGVVLVATSNR  167 (362)
T ss_pred             HHHH-------hcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCCEEEecCCC
Confidence            4443       233599999998654444455666666532  357889999996

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

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.07  E-value=7.6e-05  Score=70.87  Aligned_cols=126  Identities=15%  Similarity=0.191  Sum_probs=77.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ...+.-|...+....+.|+.... .....+++.||.|.||+.+++.+...-...+. ..   -.|++|||..+..... +
T Consensus       183 ksgiatrnp~fnrmieqierva~-rsr~p~ll~gptgagksflarriyelk~arhq-~s---g~fvevncatlrgd~a-m  256 (531)
T COG4650         183 KSGIATRNPHFNRMIEQIERVAI-RSRAPILLNGPTGAGKSFLARRIYELKQARHQ-FS---GAFVEVNCATLRGDTA-M  256 (531)
T ss_pred             HhcccccChHHHHHHHHHHHHHh-hccCCeEeecCCCcchhHHHHHHHHHHHHHHh-cC---CceEEEeeeeecCchH-H
Confidence            33455666666666666655432 23457999999999999999998654322221 11   2699999999876443 3


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhcc
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFML  265 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~  265 (517)
                      +.++..+.+...+.     ...-.-++.      ....-++|+|||..|....|..|...++.
T Consensus       257 salfghvkgaftga-----~~~r~gllr------sadggmlfldeigelgadeqamllkaiee  308 (531)
T COG4650         257 SALFGHVKGAFTGA-----RESREGLLR------SADGGMLFLDEIGELGADEQAMLLKAIEE  308 (531)
T ss_pred             HHHHhhhccccccc-----hhhhhhhhc------cCCCceEehHhhhhcCccHHHHHHHHHHh
Confidence            45555544332211     111222332      22335899999999988888777666554

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

Probab=98.04  E-value=0.00017  Score=74.35  Aligned_cols=124  Identities=15%  Similarity=0.177  Sum_probs=77.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYS  230 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~  230 (517)
                      .++|+||.+|||||+++.+.+.+.+          .++|+|--+......-.                   .+.+..+..
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~----------~~iy~~~~d~~~~~~~l-------------------~d~~~~~~~   89 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLE----------EIIYINFDDLRLDRIEL-------------------LDLLRAYIE   89 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCc----------ceEEEEecchhcchhhH-------------------HHHHHHHHH
Confidence            8999999999999999776665432          15676655543222211                   111222221


Q ss_pred             hhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHH
Q 010136          231 QKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKD  310 (517)
Q Consensus       231 ~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~  310 (517)
                       ..   ..+...||||||+.+-. -+..|..+.+....   ++++.| ++...+.....+.+..| .  ..+.+.|++..
T Consensus        90 -~~---~~~~~yifLDEIq~v~~-W~~~lk~l~d~~~~---~v~itg-sss~ll~~~~~~~L~GR-~--~~~~l~PlSF~  157 (398)
T COG1373          90 -LK---EREKSYIFLDEIQNVPD-WERALKYLYDRGNL---DVLITG-SSSSLLSKEISESLAGR-G--KDLELYPLSFR  157 (398)
T ss_pred             -hh---ccCCceEEEecccCchh-HHHHHHHHHccccc---eEEEEC-CchhhhccchhhhcCCC-c--eeEEECCCCHH
Confidence             01   11457999999998743 34667777766432   666666 44433444455566666 3  68999999999


Q ss_pred             HHHHH
Q 010136          311 QIIRI  315 (517)
Q Consensus       311 e~~~I  315 (517)
                      |....
T Consensus       158 Efl~~  162 (398)
T COG1373         158 EFLKL  162 (398)
T ss_pred             HHHhh
Confidence            99753

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.02  E-value=1e-07  Score=95.76  Aligned_cols=168  Identities=19%  Similarity=0.159  Sum_probs=82.2

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccC--------CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEE--------KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~--------~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      .++|.+.....|.-.|.......        ..-++||.|.||||||.+++++.+-.           ...+|+++...+
T Consensus        25 ~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~-----------pr~v~~~g~~~s   93 (331)
T PF00493_consen   25 SIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLA-----------PRSVYTSGKGSS   93 (331)
T ss_dssp             TTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT------------SSEEEEECCGST
T ss_pred             cCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhC-----------CceEEECCCCcc
Confidence            57787765444433332222211        12389999999999999999875432           357888876643


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH-HHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC----C---
Q 010136          197 NTSEIFSKILLKLQPRKKLNGSTSPLQYLQN-LYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT----F---  268 (517)
Q Consensus       197 s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~----~---  268 (517)
                      ...-.     ..+...  ...+..   .++. .+   ++ ..  .-|++|||+|.+.......|++.++--.    .   
T Consensus        94 ~~gLt-----a~~~~d--~~~~~~---~leaGal---vl-ad--~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi  157 (331)
T PF00493_consen   94 AAGLT-----ASVSRD--PVTGEW---VLEAGAL---VL-AD--GGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGI  157 (331)
T ss_dssp             CCCCC-----EEECCC--GGTSSE---CEEE-HH---HH-CT--TSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSS
T ss_pred             cCCcc-----ceeccc--ccccee---EEeCCch---hc-cc--CceeeecccccccchHHHHHHHHHHcCeeccchhhh
Confidence            21100     000000  000100   0110 01   11 12  2489999999998777788888887621    1   


Q ss_pred             ---CCCcEEEEEEECCCCc--------ch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHH
Q 010136          269 ---PFSRFILIGIANAIDL--------AD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERL  320 (517)
Q Consensus       269 ---~~~~v~lI~ian~~~~--------~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl  320 (517)
                         -+.++.|++++|...-        .+  .+.+.+.|| |..-.+.+.+.+.+.-..+..+.+
T Consensus       158 ~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLSR-FDLif~l~D~~d~~~D~~la~~il  221 (331)
T PF00493_consen  158 VTTLNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLSR-FDLIFLLRDKPDEEEDERLAEHIL  221 (331)
T ss_dssp             EEEEE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHCC--SEEECC--TTT-HHHHHHHHHHH
T ss_pred             cccccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHhh-cCEEEEeccccccccccccceEEE
Confidence               1357899999997531        11  245788888 754334456777555555555444

; 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.

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

Probab=98.01  E-value=1.4e-05  Score=76.60  Aligned_cols=100  Identities=11%  Similarity=0.108  Sum_probs=59.1

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      +.+..++|.|++|+|||++++.+++.+...    ......++++......+..+++..+...+-....   +.++...+.
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~----~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~---~~~~~~~~~   86 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAITKN----HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTF---DEPPERHVQ   86 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccccc----cCCeEEEEEEccCCCccHHHHHHHhccEEEEecC---CCCHHHHHH
Confidence            457789999999999999999998877542    1111234454555446788888887222211100   112222221


Q ss_pred             ---HHHHh--hhccCCCceEEEEEeCcchhccc
Q 010136          227 ---NLYSQ--KLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       227 ---~~~~~--~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                         ..+..  ... ..++.++|||||+.++...
T Consensus        87 ~~~~~~~~a~~~~-~~G~~vll~iDei~r~a~a  118 (249)
T cd01128          87 VAEMVLEKAKRLV-EHGKDVVILLDSITRLARA  118 (249)
T ss_pred             HHHHHHHHHHHHH-HCCCCEEEEEECHHHhhhh
Confidence               11111  111 3467899999999998643

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.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.00  E-value=4.8e-05  Score=67.80  Aligned_cols=40  Identities=18%  Similarity=0.237  Sum_probs=31.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      .++|+|+||+|||+++..++..+...    +   ..++++++.....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~----~---~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATK----G---GKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhc----C---CEEEEEECCcchH
Confidence            36899999999999999998887541    1   3688888876543

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.

>PRK13695 putative NTPase; Provisional

Probab=97.97  E-value=1.3e-05  Score=72.84  Aligned_cols=76  Identities=14%  Similarity=0.139  Sum_probs=48.3

Q ss_pred             CceEEEEEeCcchhcccC---chHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHH
Q 010136          238 MKMMLIIADELDYLITRD---RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIR  314 (517)
Q Consensus       238 ~~~~vI~iDEiD~L~~~~---~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~  314 (517)
                      ..+-+|+|||+..+....   .+.+..+++.      ...+|++++.. ....+..++..+ .....+.+.+-+.+++..
T Consensus        95 ~~~~~lllDE~~~~e~~~~~~~~~l~~~~~~------~~~~i~v~h~~-~~~~~~~~i~~~-~~~~i~~~~~~~r~~~~~  166 (174)
T PRK13695         95 EEADVIIIDEIGKMELKSPKFVKAVEEVLDS------EKPVIATLHRR-SVHPFVQEIKSR-PGGRVYELTPENRDSLPF  166 (174)
T ss_pred             CCCCEEEEECCCcchhhhHHHHHHHHHHHhC------CCeEEEEECch-hhHHHHHHHhcc-CCcEEEEEcchhhhhHHH
Confidence            356789999975543222   2344444422      23466667753 233455677777 566889999999999888


Q ss_pred             HHHHHHh
Q 010136          315 ILQERLM  321 (517)
Q Consensus       315 IL~~rl~  321 (517)
                      .+..++.
T Consensus       167 ~~~~~~~  173 (174)
T PRK13695        167 EILNRLK  173 (174)
T ss_pred             HHHHHHh
Confidence            7776654

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=97.93  E-value=8.6e-05  Score=70.99  Aligned_cols=135  Identities=20%  Similarity=0.192  Sum_probs=83.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCC---eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAG---SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~---~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      .+.|+.-..+.|...++..+.+..+.   .+-++|.+||||...++.+++.+.........   -..++.-..+..+..+
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~---V~~fvat~hFP~~~~i  159 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPF---VHHFVATLHFPHASKI  159 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchh---HHHhhhhccCCChHHH
Confidence            47888888888888888888765433   56689999999999999999988763221110   0112222222222211


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC----CCCCCcEEEEE
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT----TFPFSRFILIG  277 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~----~~~~~~v~lI~  277 (517)
                                       ....+.|.+.+...+  ...+..|+|+||+|.|...--++|.-+++..    .....+-++|.
T Consensus       160 -----------------e~Yk~eL~~~v~~~v--~~C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIf  220 (344)
T KOG2170|consen  160 -----------------EDYKEELKNRVRGTV--QACQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIF  220 (344)
T ss_pred             -----------------HHHHHHHHHHHHHHH--HhcCCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEE
Confidence                             000223333333222  2456689999999999776667777787741    12334677888


Q ss_pred             EECC
Q 010136          278 IANA  281 (517)
Q Consensus       278 ian~  281 (517)
                      .+|.
T Consensus       221 LSN~  224 (344)
T KOG2170|consen  221 LSNA  224 (344)
T ss_pred             EcCC
Confidence            7875

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=97.86  E-value=0.0018  Score=60.78  Aligned_cols=185  Identities=11%  Similarity=0.059  Sum_probs=112.1

Q ss_pred             HHHhhccCC-CCeEEEEcCCC-CcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCC
Q 010136          140 CKKNLEEEK-AGSLYVCGCPG-TGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNG  217 (517)
Q Consensus       140 L~~~l~~~~-~~~lli~G~pG-tGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~  217 (517)
                      +...++.+. ....+|.|..+ +||..++..++..+.......+. ...+..+.......                 ...
T Consensus         5 L~~~iq~~kLshAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~-HPD~~~I~pe~~~~-----------------~~~   66 (263)
T PRK06581          5 LEFNLKHNKLYNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLEN-NPDYHFIARETSAT-----------------SNA   66 (263)
T ss_pred             HHHHHHcCcchheeeEeCCChhhHHHHHHHHHHHHHhccCcccCC-CCCEEEEecccccc-----------------ccC
Confidence            344444444 44567889997 99999999988877542111111 12334432211000                 000


Q ss_pred             CCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccC
Q 010136          218 STSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMN  296 (517)
Q Consensus       218 ~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~  296 (517)
                      ..-..+.++++.... .....++..|++||++|.|.....+.|..+++.+   ..+..+|.++..   ++++.|-++|| 
T Consensus        67 ~~I~IdqIReL~~~l~~~p~~g~~KViII~~ae~mt~~AANALLKtLEEP---P~~t~fILit~~---~~~LLpTIrSR-  139 (263)
T PRK06581         67 KNISIEQIRKLQDFLSKTSAISGYKVAIIYSAELMNLNAANSCLKILEDA---PKNSYIFLITSR---AASIISTIRSR-  139 (263)
T ss_pred             CcccHHHHHHHHHHHhhCcccCCcEEEEEechHHhCHHHHHHHHHhhcCC---CCCeEEEEEeCC---hhhCchhHhhc-
Confidence            011134444443321 1223567789999999999887778888887764   456666666663   77889999999 


Q ss_pred             CCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          297 CKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       297 ~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      |  +.+.|.........+....-+.    ...+...++++.+.   .+-|....++..+...
T Consensus       140 C--q~i~~~~p~~~~~~e~~~~~~~----p~~~~~~l~~i~~~---~~~d~~~w~~~~~~~~  192 (263)
T PRK06581        140 C--FKINVRSSILHAYNELYSQFIQ----PIADNKTLDFINRF---TTKDRELWLDFIDNLL  192 (263)
T ss_pred             e--EEEeCCCCCHHHHHHHHHHhcc----cccccHHHHHHHHH---hhhhHHHHHHHHHHHH
Confidence            7  7999999988777776654433    34456667887763   4445555555554443

>PRK04296 thymidine kinase; Provisional

Probab=97.84  E-value=3.3e-05  Score=71.32  Aligned_cols=111  Identities=14%  Similarity=0.107  Sum_probs=55.9

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY  229 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~  229 (517)
                      ...+++||+|+|||+++..++..+...    +   ..++.++. .+.+.+ ....+..+++.......-.. ...+...+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~----g---~~v~i~k~-~~d~~~-~~~~i~~~lg~~~~~~~~~~-~~~~~~~~   72 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER----G---MKVLVFKP-AIDDRY-GEGKVVSRIGLSREAIPVSS-DTDIFELI   72 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc----C---CeEEEEec-cccccc-cCCcEecCCCCcccceEeCC-hHHHHHHH
Confidence            357899999999999999988776532    2   24555542 111111 12334444432111100011 22233333


Q ss_pred             HhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          230 SQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       230 ~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      .+    ......+|+|||++.|..   +.+..+++.....+..+++.|
T Consensus        73 ~~----~~~~~dvviIDEaq~l~~---~~v~~l~~~l~~~g~~vi~tg  113 (190)
T PRK04296         73 EE----EGEKIDCVLIDEAQFLDK---EQVVQLAEVLDDLGIPVICYG  113 (190)
T ss_pred             Hh----hCCCCCEEEEEccccCCH---HHHHHHHHHHHHcCCeEEEEe
Confidence            21    234567999999987632   224445554222333444444

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.84  E-value=0.00011  Score=73.84  Aligned_cols=97  Identities=11%  Similarity=0.119  Sum_probs=60.4

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE-EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS-INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYL  225 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~-vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l  225 (517)
                      +.+...+|+|+||||||++++.+++.+...     .+.+.+++ .=+....+..+++..+...+......   ..+...+
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~-----~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~d---e~~~~~~  202 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-----HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFD---RPPDEHI  202 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhc-----CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCC---CCHHHHH
Confidence            567789999999999999999999988652     12233233 22334457788888887766432211   1112211


Q ss_pred             H------HHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 Q------NLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~------~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .      .... .+ ...++.+||++||+..+..
T Consensus       203 ~v~~~~~~~Ae-~f-~~~GkdVVLvlDsltr~A~  234 (380)
T PRK12608        203 RVAELVLERAK-RL-VEQGKDVVILLDSLTRLAR  234 (380)
T ss_pred             HHHHHHHHHHH-HH-HHcCCCEEEEEeCcHHHHH
Confidence            1      1111 11 2357789999999998864

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=97.83  E-value=0.00064  Score=69.32  Aligned_cols=152  Identities=22%  Similarity=0.244  Sum_probs=84.3

Q ss_pred             hhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc--------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCce
Q 010136          115 EALHVSTAPSTIVCREDEQKKVLEFCKKNLEE--------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPE  186 (517)
Q Consensus       115 ~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~--------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~  186 (517)
                      +.+..+ +-..++|.++..+.+...|...-+.        ..--++|+.|.|||.|+-+++.+-+--           +-
T Consensus       323 e~is~s-IAPSIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvs-----------PI  390 (729)
T KOG0481|consen  323 ERISKS-IAPSIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVS-----------PI  390 (729)
T ss_pred             HHHhhc-cCchhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcC-----------ce
Confidence            344444 3347899998777777666442211        012279999999999999999874321           24


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH-Hh--hhccCCCceEEEEEeCcchhcccCchHHHHHh
Q 010136          187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY-SQ--KLHSSVMKMMLIIADELDYLITRDRAVLHDLF  263 (517)
Q Consensus       187 ~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~-~~--~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~  263 (517)
                      -||.++..... ..        |..  .......    -++++ +.  .++   ...-|++|||+|.+...+.-++++.+
T Consensus       391 aVYTSGKGSSA-AG--------LTA--SV~RD~~----tReFylEGGAMVL---ADgGVvCIDEFDKMre~DRVAIHEAM  452 (729)
T KOG0481|consen  391 AVYTSGKGSSA-AG--------LTA--SVIRDPS----TREFYLEGGAMVL---ADGGVVCIDEFDKMREDDRVAIHEAM  452 (729)
T ss_pred             EEEecCCCccc-cc--------cee--eEEecCC----cceEEEecceEEE---ecCCEEEeehhhccCchhhhHHHHHH
Confidence            56666544211 10        000  0000000    00011 00  011   12248899999999877665666655


Q ss_pred             cc----------CCCCCCcEEEEEEECCCC-----cc---h--hhcccccccCC
Q 010136          264 ML----------TTFPFSRFILIGIANAID-----LA---D--RFLPRLQSMNC  297 (517)
Q Consensus       264 ~~----------~~~~~~~v~lI~ian~~~-----~~---~--~l~~~l~sr~~  297 (517)
                      +-          .+.-+++..|++++|.+-     +.   +  .+.+.+.|| |
T Consensus       453 EQQTISIAKAGITT~LNSRtSVLAAANpvfGRyDd~Kt~~dNIDf~~TILSR-F  505 (729)
T KOG0481|consen  453 EQQTISIAKAGITTTLNSRTSVLAAANPVFGRYDDTKTGEDNIDFMPTILSR-F  505 (729)
T ss_pred             HhhhHHHhhhcceeeecchhhhhhhcCCccccccccCCcccccchhhhHhhh-c
Confidence            43          233467888999999762     11   1  245788888 7

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.81  E-value=0.00079  Score=77.00  Aligned_cols=146  Identities=18%  Similarity=0.157  Sum_probs=99.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCC-CC-HHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGS-TS-PLQYL  225 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~-~~-~~~~l  225 (517)
                      ..-.++|-||..+|||+++.+++++.+.          +||.||-..+++..+.       ++.......| .+ -...|
T Consensus       887 ~~fP~LiQGpTSSGKTSMI~yla~~tgh----------kfVRINNHEHTdlqeY-------iGTyvTdd~G~lsFkEGvL  949 (4600)
T COG5271         887 SNFPLLIQGPTSSGKTSMILYLARETGH----------KFVRINNHEHTDLQEY-------IGTYVTDDDGSLSFKEGVL  949 (4600)
T ss_pred             cCCcEEEecCCCCCcchHHHHHHHHhCc----------cEEEecCcccchHHHH-------hhceeecCCCceeeehhHH
Confidence            4557999999999999999999987652          6999999998765543       2211111112 11 02233


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC-----------CCCCcEEEEEEECCCCcc---hhhccc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT-----------FPFSRFILIGIANAIDLA---DRFLPR  291 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~-----------~~~~~v~lI~ian~~~~~---~~l~~~  291 (517)
                      ...+.        +..-|+|||.....+..-++|..|++-..           .+...+.+.++-|.....   ..+..+
T Consensus       950 VeAlR--------~GyWIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrA 1021 (4600)
T COG5271         950 VEALR--------RGYWIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRA 1021 (4600)
T ss_pred             HHHHh--------cCcEEEeeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHH
Confidence            44443        23467899998887777788888887521           255677888877754311   123455


Q ss_pred             ccccCCCceEEEeCCCCHHHHHHHHHHHHh
Q 010136          292 LQSMNCKPLVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       292 l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                      .+.| |  -.++|.....+|+..||..|.+
T Consensus      1022 FRNR-F--lE~hFddipedEle~ILh~rc~ 1048 (4600)
T COG5271        1022 FRNR-F--LEMHFDDIPEDELEEILHGRCE 1048 (4600)
T ss_pred             HHhh-h--HhhhcccCcHHHHHHHHhccCc
Confidence            6666 5  5899999999999999998753

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=97.81  E-value=7.1e-05  Score=78.60  Aligned_cols=212  Identities=14%  Similarity=0.095  Sum_probs=124.4

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL  206 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~  206 (517)
                      ++-+..++.+...+.....  ..-.+++.|.+||||-.+++++-+.-. ..       -.|+.|||.....  ..   |.
T Consensus       316 ~~~d~s~a~l~rk~~rv~~--~~~pvll~GEtGtGKe~laraiH~~s~-~~-------gpfvAvNCaAip~--~l---ie  380 (606)
T COG3284         316 PLLDPSRATLLRKAERVAA--TDLPVLLQGETGTGKEVLARAIHQNSE-AA-------GPFVAVNCAAIPE--AL---IE  380 (606)
T ss_pred             cccCHHHHHHHHHHHHHhh--cCCCeEecCCcchhHHHHHHHHHhccc-cc-------CCeEEEEeccchH--Hh---hh
Confidence            3555666666666666543  456899999999999999999866543 11       2699999988743  22   23


Q ss_pred             HHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC-------CCCCCcEEEEEEE
Q 010136          207 LKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT-------TFPFSRFILIGIA  279 (517)
Q Consensus       207 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~-------~~~~~~v~lI~ia  279 (517)
                      .+|.+...+.......+-..-.+.      ......+|+|||..|.-.-|..|...+...       +.....|-||++|
T Consensus       381 sELFGy~~GafTga~~kG~~g~~~------~A~gGtlFldeIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~at  454 (606)
T COG3284         381 SELFGYVAGAFTGARRKGYKGKLE------QADGGTLFLDEIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAAT  454 (606)
T ss_pred             HHHhccCccccccchhccccccce------ecCCCccHHHHhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEecc
Confidence            333333322211110111111121      122347999999999877777777666541       1134567888866


Q ss_pred             CCCCcchhh-----cccccccCCCceEEEeCCCCH-HHHHHHHHHHHh--hhccCCCChhHHHHHHHHHHHHhCCHHHHH
Q 010136          280 NAIDLADRF-----LPRLQSMNCKPLVVTFRAYSK-DQIIRILQERLM--ELSYIVFQPQALELCARKVAAASGDMRKAL  351 (517)
Q Consensus       280 n~~~~~~~l-----~~~l~sr~~~~~~i~f~p~~~-~e~~~IL~~rl~--~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al  351 (517)
                      +. |+....     ...|.=| +..-+|.+||+.. .+....|.+.+.  .-....+++++...+...  ...|++|...
T Consensus       455 h~-dl~~lv~~g~fredLyyr-L~~~~i~lP~lr~R~d~~~~l~~~~~~~~~~~~~l~~~~~~~l~~~--~WPGNirel~  530 (606)
T COG3284         455 HR-DLAQLVEQGRFREDLYYR-LNAFVITLPPLRERSDRIPLLDRILKRENDWRLQLDDDALARLLAY--RWPGNIRELD  530 (606)
T ss_pred             Cc-CHHHHHHcCCchHHHHHH-hcCeeeccCchhcccccHHHHHHHHHHccCCCccCCHHHHHHHHhC--CCCCcHHHHH
Confidence            53 222211     1222223 4445889999843 233333333332  112347788887766442  5789999999


Q ss_pred             HHHHHHHHHHHH
Q 010136          352 SVCRSAIEILEA  363 (517)
Q Consensus       352 ~ll~~A~~~a~~  363 (517)
                      ++++.+..++..
T Consensus       531 ~v~~~~~~l~~~  542 (606)
T COG3284         531 NVIERLAALSDG  542 (606)
T ss_pred             HHHHHHHHcCCC
Confidence            999998866543

>PRK10536 hypothetical protein; Provisional

Probab=97.80  E-value=0.0005  Score=65.51  Aligned_cols=43  Identities=21%  Similarity=0.292  Sum_probs=34.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..+.++...+..+..+|..      ...+++.|++|||||+++.+++.+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~------~~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES------KQLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc------CCeEEEECCCCCCHHHHHHHHHHH
Confidence            3467777777777776643      358999999999999999999875

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.79  E-value=0.0027  Score=63.19  Aligned_cols=43  Identities=23%  Similarity=0.386  Sum_probs=31.8

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      |+.-+ +|.+.|...........++|+|++|||||+++..+..-
T Consensus         4 R~~t~-el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~   46 (309)
T PF10236_consen    4 RKPTL-ELINKLKEADKSSKNNRYVLTGERGSGKSVLLAQAVHY   46 (309)
T ss_pred             chHHH-HHHHHHHHhcccCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            44433 45666666655566778999999999999998887654

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).

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

Probab=97.75  E-value=8e-05  Score=61.86  Aligned_cols=26  Identities=27%  Similarity=0.526  Sum_probs=23.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVDWA  177 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~~~  177 (517)
                      |+|+|+||+|||++++.+++.+.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~   26 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHI   26 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            58999999999999999999987643

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

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.74  E-value=0.00025  Score=61.82  Aligned_cols=28  Identities=29%  Similarity=0.482  Sum_probs=24.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      .-.++|+|+||+||||++..+++.|.+.
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            3468999999999999999999998864

>TIGR00767 rho transcription termination factor Rho

Probab=97.72  E-value=8e-05  Score=75.23  Aligned_cols=100  Identities=10%  Similarity=0.098  Sum_probs=57.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHH-
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYL-  225 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l-  225 (517)
                      +.+..++|+||||+|||++++.+++.+....    .....++.+....-.+..+++..+...+-....   +.++.... 
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nh----fdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~---d~p~~~~~~  238 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRNH----PEVELIVLLIDERPEEVTDMQRSVKGEVVASTF---DEPASRHVQ  238 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhcccC----CceEEEEEEcCCCCccHHHHHHHhhceEEEecC---CCChHHHHH
Confidence            4577899999999999999999988775421    111124444444445777887777433211111   11222211 


Q ss_pred             --HHHHHh-hhccCCCceEEEEEeCcchhcc
Q 010136          226 --QNLYSQ-KLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 --~~~~~~-~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                        ...+.. ......++.+||||||++.+..
T Consensus       239 va~~v~e~Ae~~~~~GkdVVLlIDEitR~ar  269 (415)
T TIGR00767       239 VAEMVIEKAKRLVEHKKDVVILLDSITRLAR  269 (415)
T ss_pred             HHHHHHHHHHHHHHcCCCeEEEEEChhHHHH
Confidence              111111 0111356779999999999864

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

>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=97.71  E-value=0.00043  Score=65.69  Aligned_cols=139  Identities=15%  Similarity=0.076  Sum_probs=72.1

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL  215 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~  215 (517)
                      ....|..++.  ...+..++||+|||||.+++.+++.++.          .++.+||....+...               
T Consensus        21 ~~~~l~~al~--~~~~~~~~GpagtGKtetik~La~~lG~----------~~~vfnc~~~~~~~~---------------   73 (231)
T PF12774_consen   21 CFLTLTQALS--LNLGGALSGPAGTGKTETIKDLARALGR----------FVVVFNCSEQMDYQS---------------   73 (231)
T ss_dssp             HHHHHHHHHC--TTTEEEEESSTTSSHHHHHHHHHHCTT------------EEEEETTSSS-HHH---------------
T ss_pred             HHHHHHHHhc--cCCCCCCcCCCCCCchhHHHHHHHHhCC----------eEEEecccccccHHH---------------
Confidence            3444444443  2345568999999999999999998875          588899998655333               


Q ss_pred             CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHH----Hhcc---CCC----------CCCcEEEEEE
Q 010136          216 NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHD----LFML---TTF----------PFSRFILIGI  278 (517)
Q Consensus       216 ~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~----l~~~---~~~----------~~~~v~lI~i  278 (517)
                               +.++|.-..   . ...-+++||++.|......++.+    +.+.   ...          -+..+.+..+
T Consensus        74 ---------l~ril~G~~---~-~GaW~cfdefnrl~~~vLS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT  140 (231)
T PF12774_consen   74 ---------LSRILKGLA---Q-SGAWLCFDEFNRLSEEVLSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFIT  140 (231)
T ss_dssp             ---------HHHHHHHHH---H-HT-EEEEETCCCSSHHHHHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEE
T ss_pred             ---------HHHHHHHHh---h-cCchhhhhhhhhhhHHHHHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEe
Confidence                     223332100   1 12578999999996543322221    1111   000          0112333333


Q ss_pred             ECCCC-cchhhcccccccCCCceEEEeCCCCHHHHHHHHH
Q 010136          279 ANAID-LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQ  317 (517)
Q Consensus       279 an~~~-~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~  317 (517)
                      .|.-. -...+.+.++.- |  +.+.+..+|...+.+++.
T Consensus       141 ~np~y~gr~~LP~nLk~l-F--Rpvam~~PD~~~I~ei~L  177 (231)
T PF12774_consen  141 MNPGYAGRSELPENLKAL-F--RPVAMMVPDLSLIAEILL  177 (231)
T ss_dssp             E-B-CCCC--S-HHHCTT-E--EEEE--S--HHHHHHHHH
T ss_pred             eccccCCcccCCHhHHHH-h--heeEEeCCCHHHHHHHHH
Confidence            44211 122344555554 5  788888888888877765

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.71  E-value=0.0001  Score=75.35  Aligned_cols=45  Identities=31%  Similarity=0.580  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          131 DEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .|++.+.+.+...+....+.+++|.|+.|||||++++++...+..
T Consensus         4 ~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    4 EEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            455667777666666678889999999999999999999887754

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK14974 cell division protein FtsY; Provisional

Probab=97.71  E-value=0.0012  Score=66.03  Aligned_cols=96  Identities=17%  Similarity=0.172  Sum_probs=56.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH-HHHHHHHHHHhCCCCC-CCCCCCHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT-SEIFSKILLKLQPRKK-LNGSTSPLQYL  225 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~-~~~~~~~~~~l  225 (517)
                      .+..++|+|++|+||||++..++..+...    +   ..++.+++..++.. ..-+...+..++.... ...+..+...+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~----g---~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~  211 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN----G---FSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVA  211 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc----C---CeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHH
Confidence            35678999999999999999999877542    2   35666776655332 2234445555543221 12233333434


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ...+....   ....-+|+||.+..+..
T Consensus       212 ~~ai~~~~---~~~~DvVLIDTaGr~~~  236 (336)
T PRK14974        212 YDAIEHAK---ARGIDVVLIDTAGRMHT  236 (336)
T ss_pred             HHHHHHHH---hCCCCEEEEECCCccCC
Confidence            34333111   12234999999988753

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=97.68  E-value=0.00023  Score=74.06  Aligned_cols=148  Identities=18%  Similarity=0.150  Sum_probs=78.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCC--------CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEK--------AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~--------~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      ..++|.++....+.-.|........        --++||+|.|||||+-.++++.+--.           +.|+..+..-
T Consensus       449 PsIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~-----------RAV~tTGqGA  517 (854)
T KOG0477|consen  449 PSIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSP-----------RAVFTTGQGA  517 (854)
T ss_pred             chhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCc-----------ceeEeccCCc
Confidence            3688888866666666544332211        12799999999999999999876433           2333333222


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------
Q 010136          196 TNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------  267 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------  267 (517)
                      ++....     ...  .+.+-.+.   ..|+.-  ..+++   ..-|-+|||+|.+...+...+++.++--.        
T Consensus       518 SavGLT-----a~v--~KdPvtrE---WTLEaG--ALVLA---DkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGI  582 (854)
T KOG0477|consen  518 SAVGLT-----AYV--RKDPVTRE---WTLEAG--ALVLA---DKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGI  582 (854)
T ss_pred             ccccee-----EEE--eeCCccce---eeeccC--eEEEc---cCceEEeehhhhhcccccchHHHHHHhcchhhhhhhH
Confidence            111000     000  00000000   000000  00111   12367899999998766666666554311        


Q ss_pred             --CCCCcEEEEEEECCCC--------cch--hhcccccccCCC
Q 010136          268 --FPFSRFILIGIANAID--------LAD--RFLPRLQSMNCK  298 (517)
Q Consensus       268 --~~~~~v~lI~ian~~~--------~~~--~l~~~l~sr~~~  298 (517)
                        .-..++.+|+++|.+.        |.+  .+...+.|| |.
T Consensus       583 VtsLqArctvIAAanPigGRY~~s~tFaqNV~ltePIlSR-FD  624 (854)
T KOG0477|consen  583 VTSLQARCTVIAAANPIGGRYNPSLTFAQNVDLTEPILSR-FD  624 (854)
T ss_pred             HHHHHhhhhhheecCCCCCccCCccchhhccccccchhhh-cc
Confidence              1235788999999842        444  344667777 53

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.68  E-value=9.8e-05  Score=74.26  Aligned_cols=99  Identities=10%  Similarity=0.122  Sum_probs=54.3

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC-CCHHHHHHHHHHHhCCCCCCCCCCCHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL-TNTSEIFSKILLKLQPRKKLNGSTSPLQYL  225 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~-~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l  225 (517)
                      +.+...+|+||||+|||++++.+++.+....     ..+..+.+..... ....+++..+...+   .......++...+
T Consensus       167 GkGQR~lIvgppGvGKTTLaK~Ian~I~~nh-----FDv~~~VvLIgER~~EVtdiqrsIlg~v---v~st~d~~~~~~~  238 (416)
T PRK09376        167 GKGQRGLIVAPPKAGKTVLLQNIANSITTNH-----PEVHLIVLLIDERPEEVTDMQRSVKGEV---VASTFDEPAERHV  238 (416)
T ss_pred             ccCceEEEeCCCCCChhHHHHHHHHHHHhhc-----CCeEEEEEEeCCchhHHHHHHHHhcCcE---EEECCCCCHHHHH
Confidence            4577899999999999999999998876531     1122222222221 23445555443211   0011122223322


Q ss_pred             H---HHHHh--hhccCCCceEEEEEeCcchhccc
Q 010136          226 Q---NLYSQ--KLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       226 ~---~~~~~--~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                      .   ..+..  ... ..++.++|||||++++...
T Consensus       239 ~~a~~~ie~Ae~~~-e~G~dVlL~iDsItR~arA  271 (416)
T PRK09376        239 QVAEMVIEKAKRLV-EHGKDVVILLDSITRLARA  271 (416)
T ss_pred             HHHHHHHHHHHHHH-HcCCCEEEEEEChHHHHHH
Confidence            2   11111  111 3567789999999998753

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

Probab=97.66  E-value=0.00071  Score=72.23  Aligned_cols=178  Identities=19%  Similarity=0.148  Sum_probs=101.9

Q ss_pred             cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHH
Q 010136          146 EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYL  225 (517)
Q Consensus       146 ~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l  225 (517)
                      ...+.+++++||||||||++++.++.. .          ..+..+++....+.+.                 +. ....+
T Consensus        15 ~~~~~~v~~~g~~~~~~t~~~~~~a~~-~----------~~~~~~~~~~~~~~~~-----------------~~-~~~~~   65 (494)
T COG0464          15 IEPPKGVLLHGPPGTGKTLLARALANE-G----------AEFLSINGPEILSKYV-----------------GE-SELRL   65 (494)
T ss_pred             CCCCCCceeeCCCCCchhHHHHHHHhc-c----------CcccccCcchhhhhhh-----------------hH-HHHHH
Confidence            346789999999999999999999887 1          1225555554433222                 12 24555


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcccCch-----------HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITRDRA-----------VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQS  294 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~-----------~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~s  294 (517)
                      ...|...   ....+.++++||+|.+......           .+..+++... ... +++++.+|..+   .+++.+..
T Consensus        66 ~~~~~~a---~~~~~~ii~~d~~~~~~~~~~~~~~~~~~~v~~~l~~~~d~~~-~~~-v~~~~~~~~~~---~~~~a~~~  137 (494)
T COG0464          66 RELFEEA---EKLAPSIIFIDEIDALAPKRSSDQGEVERRVVAQLLALMDGLK-RGQ-VIVIGATNRPD---GLDPAKRR  137 (494)
T ss_pred             HHHHHHH---HHhCCCeEeechhhhcccCccccccchhhHHHHHHHHhccccc-CCc-eEEEeecCCcc---ccChhHhC
Confidence            6666532   2344489999999999876432           2333333333 444 88888777544   34444443


Q ss_pred             cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Q 010136          295 MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAE  364 (517)
Q Consensus       295 r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~  364 (517)
                      .......+.+...+.....+|+.........  -.+.....++....+..  ....-.+++.+...+...
T Consensus       138 ~~~~~~~~~~~~~~~~~~~ei~~~~~~~~~~--~~~~~~~~~a~~~~~~~--~~~~~~l~~~~~~~~~~r  203 (494)
T COG0464         138 PGRFDREIEVNLPDEAGRLEILQIHTRLMFL--GPPGTGKTLAARTVGKS--GADLGALAKEAALRELRR  203 (494)
T ss_pred             ccccceeeecCCCCHHHHHHHHHHHHhcCCC--cccccHHHHHHhcCCcc--HHHHHHHHHHHHHHHHHh
Confidence            3223457777777777667777765543211  11344555555332222  223334566665555444

>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=97.66  E-value=0.00099  Score=64.66  Aligned_cols=176  Identities=15%  Similarity=0.236  Sum_probs=87.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      -+++-.++.++.|....+- +. .+.+++++.|.+|+||+++++..+--..          ..++.+......+..++  
T Consensus         8 m~lVlf~~ai~hi~ri~Rv-L~-~~~Gh~LLvG~~GsGr~sl~rLaa~i~~----------~~~~~i~~~~~y~~~~f--   73 (268)
T PF12780_consen    8 MNLVLFDEAIEHIARISRV-LS-QPRGHALLVGVGGSGRQSLARLAAFICG----------YEVFQIEITKGYSIKDF--   73 (268)
T ss_dssp             ------HHHHHHHHHHHHH-HC-STTEEEEEECTTTSCHHHHHHHHHHHTT----------EEEE-TTTSTTTHHHHH--
T ss_pred             cceeeHHHHHHHHHHHHHH-Hc-CCCCCeEEecCCCccHHHHHHHHHHHhc----------cceEEEEeeCCcCHHHH--
Confidence            3566667777766655433 33 4668999999999999999997654322          46777766554333333  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchh-----------------------------ccc
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYL-----------------------------ITR  254 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L-----------------------------~~~  254 (517)
                                        .+.|+.++...  .-.+++.+++|+|-+-.                             ...
T Consensus        74 ------------------~~dLk~~~~~a--g~~~~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~  133 (268)
T PF12780_consen   74 ------------------KEDLKKALQKA--GIKGKPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISS  133 (268)
T ss_dssp             ------------------HHHHHHHHHHH--HCS-S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHH
T ss_pred             ------------------HHHHHHHHHHH--hccCCCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHH
Confidence                              22333333321  12344556666554322                             110


Q ss_pred             ------------CchHHHHHhccCCCCCCcEEEEEEECCCCcchh--hcccccccCCCceEEEeCCCCHHHHHHHHHHHH
Q 010136          255 ------------DRAVLHDLFMLTTFPFSRFILIGIANAIDLADR--FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERL  320 (517)
Q Consensus       255 ------------~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~--l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl  320 (517)
                                  ..+.++++|-..-..+-+|+++.-.....+..+  -.|.+.+. +  ....|.+++.+.+..+-...+
T Consensus       134 l~~~~~~~~~~~~~~~~~~~F~~rvr~nLHivl~~sp~~~~~r~~~~~fPaL~~~-c--tIdW~~~W~~eaL~~Va~~~l  210 (268)
T PF12780_consen  134 LREEAKAEGISDSRESLYEFFIERVRKNLHIVLCMSPVGPNFRDRCRSFPALVNC-C--TIDWFDPWPEEALLSVANKFL  210 (268)
T ss_dssp             HHHHHHHCT--SSHHHHHHHHHHHHCCCEEEEEEESTTTTCCCHHHHHHCCHHHH-S--EEEEEES--HHHHHHHHHHHC
T ss_pred             hHHHHHHcCCCCchHHHHHHHHHHHHhheeEEEEECCCCchHHHHHHhCcchhcc-c--EEEeCCcCCHHHHHHHHHHHH
Confidence                        001122222111112234444331112223333  35888876 6  689999999999999988877


Q ss_pred             hhhccCCCChhHHHHHHH
Q 010136          321 MELSYIVFQPQALELCAR  338 (517)
Q Consensus       321 ~~~~~~~~~~~ai~~ia~  338 (517)
                      ....  .++++..+.++.
T Consensus       211 ~~~~--~~~~~~~~~l~~  226 (268)
T PF12780_consen  211 SDIE--LLSEELKKSLAE  226 (268)
T ss_dssp             CHHH--TSS--HHHHHHH
T ss_pred             Hhhc--ccchhHHHHHHH
Confidence            6542  234444444443

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.

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=97.66  E-value=0.00038  Score=63.29  Aligned_cols=106  Identities=16%  Similarity=0.161  Sum_probs=77.9

Q ss_pred             EEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCc-----------eEEEeCCCCHHH
Q 010136          243 IIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKP-----------LVVTFRAYSKDQ  311 (517)
Q Consensus       243 I~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~-----------~~i~f~p~~~~e  311 (517)
                      ++||++|.|....+++|...++.   |..++.+|.+|+.   +..+.|.++|| |..           ..+.|.+++.++
T Consensus        58 ~iI~~a~~l~~~A~NaLLK~LEE---Pp~~~~fiL~t~~---~~~llpTI~SR-c~~~~~~~~~~~~~l~l~l~~l~~~~  130 (206)
T PRK08485         58 IIVIAAPSYGIEAQNALLKILEE---PPKNICFIIVAKS---KNLLLPTIRSR-LIIEKRKQKKPVKPLDLDLKKLDLKD  130 (206)
T ss_pred             EEEEchHhhCHHHHHHHHHHhcC---CCCCeEEEEEeCC---hHhCchHHHhh-heeccccccccccccccccCCCCHHH
Confidence            35789999987777888777766   4456777777774   77789999999 621           147899999999


Q ss_pred             HHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          312 IIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       312 ~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +.+.|.. ++.. .....+++.+.+++.   ..|.+|.++.+...+++.
T Consensus       131 i~~~L~~-~~ke-~~~~~~ea~~lIa~l---a~~s~r~~l~l~~q~l~~  174 (206)
T PRK08485        131 IYEFLKE-LEKE-NKLSKEELKELIESL---LKECVKYKIPLNEEELEY  174 (206)
T ss_pred             HHHHHHH-HHHc-ccccHHHHHHHHHHH---HHHHHHHHcCccHHHHHH
Confidence            9999997 4321 235677888888874   566788887766666543

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=97.62  E-value=0.00034  Score=75.60  Aligned_cols=121  Identities=17%  Similarity=0.255  Sum_probs=67.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC----CCCCCHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL----NGSTSPLQY  224 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~----~~~~~~~~~  224 (517)
                      .+..+|+|+||||||++++.++..+......   + ...+.+.++...-...+-..+...+......    ..-......
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~---~-~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~T  242 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLAALIQLADG---E-RCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEAST  242 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCC---C-CcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHH
Confidence            4689999999999999999999887543211   1 1346666666544444433333222110000    000011334


Q ss_pred             HHHHHHhhhc--------cCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          225 LQNLYSQKLH--------SSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       225 l~~~~~~~~~--------~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +.+++.....        ...-..-+|||||+-.+   +...++.|++... ++.+++++|
T Consensus       243 iHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMv---d~~lm~~ll~al~-~~~rlIlvG  299 (615)
T PRK10875        243 LHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMV---DLPMMARLIDALP-PHARVIFLG  299 (615)
T ss_pred             HHHHhCcCCCccchhhccccCCCCCeEEEChHhcc---cHHHHHHHHHhcc-cCCEEEEec
Confidence            5555432100        01112249999999877   3567777777532 567888887

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.58  E-value=0.0029  Score=59.97  Aligned_cols=149  Identities=15%  Similarity=0.171  Sum_probs=79.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHH-hCCCCCCCCCCCHHHH--
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLK-LQPRKKLNGSTSPLQY--  224 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~-l~~~~~~~~~~~~~~~--  224 (517)
                      .+-.+.|.|++|+|||++++.++..+...        +..+++-+....  ...+.-++.. +.....   .......  
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~~~~~~--------f~~I~l~t~~~n--~~~~~~i~p~~i~~~~~---~e~le~~l~   78 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLYYLRHK--------FDHIFLITPEYN--NEYYKYIWPDHIFKVFD---KEELEYILI   78 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhhccc--------CCEEEEEecCCc--hhhhhhcchhhcccccc---HHHHHHHHH
Confidence            34589999999999999999998776542        345555555333  2233333322 111000   0000111  


Q ss_pred             -----HHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCc
Q 010136          225 -----LQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKP  299 (517)
Q Consensus       225 -----l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~  299 (517)
                           +.++.............+||+|++-.- ...+..+..++.-.  ...++.+|.++.+   .-.+.+.+++. .. 
T Consensus        79 ~~k~~I~k~~~k~~~~k~~~~~LiIlDD~~~~-~~k~~~l~~~~~~g--RH~~is~i~l~Q~---~~~lp~~iR~n-~~-  150 (241)
T PF04665_consen   79 RQKEKIEKYIKKSPQKKNNPRFLIILDDLGDK-KLKSKILRQFFNNG--RHYNISIIFLSQS---YFHLPPNIRSN-ID-  150 (241)
T ss_pred             HHHHHHHHHhhhhcccCCCCCeEEEEeCCCCc-hhhhHHHHHHHhcc--cccceEEEEEeee---cccCCHHHhhc-ce-
Confidence                 112221000111234789999997541 12355677777543  3446777766663   33455555554 42 


Q ss_pred             eEEEeCCCCHHHHHHHHHH
Q 010136          300 LVVTFRAYSKDQIIRILQE  318 (517)
Q Consensus       300 ~~i~f~p~~~~e~~~IL~~  318 (517)
                      ..+.| ..+..++..|++.
T Consensus       151 y~i~~-~~s~~dl~~i~~~  168 (241)
T PF04665_consen  151 YFIIF-NNSKRDLENIYRN  168 (241)
T ss_pred             EEEEe-cCcHHHHHHHHHh
Confidence            35556 4678887766664

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

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.57  E-value=0.00041  Score=58.43  Aligned_cols=52  Identities=19%  Similarity=0.187  Sum_probs=43.6

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCC---CeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKA---GSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~---~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      .++|+.-..+.+...|...+....+   -.+-++|+||||||.+++.+++.+...
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~   80 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKS   80 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhc
Confidence            5899999999999999988875432   245589999999999999999998764

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

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=97.57  E-value=0.0003  Score=69.79  Aligned_cols=129  Identities=17%  Similarity=0.224  Sum_probs=74.2

Q ss_pred             HhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH---HHhC--------
Q 010136          142 KNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL---LKLQ--------  210 (517)
Q Consensus       142 ~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~---~~l~--------  210 (517)
                      +++..+.+..++|-|.||||||+++-.+++.+.++        ..+.|++...  ++..+|..-+   ..+.        
T Consensus         3 ~FF~~~~G~TLLIKG~PGTGKTtfaLelL~~l~~~--------~~v~YISTRV--d~d~vy~~y~~~~~~i~~~~vlDat   72 (484)
T PF07088_consen    3 RFFTQEPGQTLLIKGEPGTGKTTFALELLNSLKDH--------GNVMYISTRV--DQDTVYEMYPWIEESIDPTNVLDAT   72 (484)
T ss_pred             hhhcCCCCcEEEEecCCCCCceeeehhhHHHHhcc--------CCeEEEEecc--CHHHHHHhhhhhccccChhhhhhhc
Confidence            45666778899999999999999999999988764        2477888763  3444432221   1111        


Q ss_pred             -C----CC--CCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeC----cchhccc--Cch----HHHHHhccCCCCCCcE
Q 010136          211 -P----RK--KLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADE----LDYLITR--DRA----VLHDLFMLTTFPFSRF  273 (517)
Q Consensus       211 -~----~~--~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDE----iD~L~~~--~~~----~L~~l~~~~~~~~~~v  273 (517)
                       .    ..  ..+......+.+..++++.  ....+..+|+||-    ++.+..+  ..+    +..+|.......+.++
T Consensus        73 Qd~~~~~~~~~vp~~~l~~ds~~~f~~~i--~~~~k~~iI~~DSWdaiieyla~~~~~~ed~e~l~~dLv~lard~g~~L  150 (484)
T PF07088_consen   73 QDPFELPLDKDVPFERLDIDSFRDFVDKI--NEAGKKPIIAFDSWDAIIEYLAEEHDEPEDIETLTNDLVELARDMGINL  150 (484)
T ss_pred             cchhhccccccCcccccCHHHHHHHHHHh--hhcccCcEEEEecHHHHHHHhhhhhcCcHHHHHHHHHHHHHHhhcCceE
Confidence             0    00  0000011134555555521  1235667899999    7777643  222    2334444444456677


Q ss_pred             EEEEEECCC
Q 010136          274 ILIGIANAI  282 (517)
Q Consensus       274 ~lI~ian~~  282 (517)
                      ++|.-+...
T Consensus       151 IlVsEsa~~  159 (484)
T PF07088_consen  151 ILVSESAEN  159 (484)
T ss_pred             EEEEecCCC
Confidence            777655443

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.57  E-value=0.00033  Score=60.17  Aligned_cols=25  Identities=24%  Similarity=0.311  Sum_probs=22.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +++|+|++|+|||+++-.++..+..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            6899999999999999998877664

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.55  E-value=0.00022  Score=72.52  Aligned_cols=89  Identities=19%  Similarity=0.208  Sum_probs=53.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC--CCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN--GSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~--~~~~~~~~l~  226 (517)
                      +..++|+|+||+|||+++..++..+...    +   -.++|++...  +..++. .-+..++-.....  ......+.+.
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~----g---~~VlYvs~EE--s~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~  151 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR----G---GKVLYVSGEE--SPEQIK-LRADRLGISTENLYLLAETNLEDIL  151 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc----C---CeEEEEECCc--CHHHHH-HHHHHcCCCcccEEEEccCcHHHHH
Confidence            4578899999999999999998776542    1   2588998764  333332 2233443211100  0111133344


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      +.+.      ..++.+||||+++.+..
T Consensus       152 ~~i~------~~~~~lVVIDSIq~l~~  172 (372)
T cd01121         152 ASIE------ELKPDLVIIDSIQTVYS  172 (372)
T ss_pred             HHHH------hcCCcEEEEcchHHhhc
Confidence            4443      34678999999998853

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.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=97.55  E-value=0.00048  Score=74.31  Aligned_cols=122  Identities=16%  Similarity=0.262  Sum_probs=63.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC---C-CCCCCCHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK---K-LNGSTSPLQY  224 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~---~-~~~~~~~~~~  224 (517)
                      .+..+|+|+||||||+++..++..+.......+.  . -+.+.+....-...+-..+...+....   . ...-......
T Consensus       160 ~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~--~-~I~l~APTGkAA~rL~e~~~~~~~~l~~~~~~~~~~~~~a~T  236 (586)
T TIGR01447       160 SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGK--L-RIALAAPTGKAAARLAESLRKAVKNLAAAEALIAALPSEAVT  236 (586)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCC--C-cEEEECCcHHHHHHHHHHHHhhhcccccchhhhhccccccch
Confidence            4789999999999999999999887654322110  1 244555443323333333322211000   0 0000000122


Q ss_pred             HHHHHHhh--------hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          225 LQNLYSQK--------LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       225 l~~~~~~~--------~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +.+++...        ........-+|||||+-.+.   ...++.|++... ...+++++|
T Consensus       237 iHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaSMvd---~~l~~~ll~al~-~~~rlIlvG  293 (586)
T TIGR01447       237 IHRLLGIKPDTKRFRHHERNPLPLDVLVVDEASMVD---LPLMAKLLKALP-PNTKLILLG  293 (586)
T ss_pred             hhhhhcccCCcchhhhcccCCCcccEEEEcccccCC---HHHHHHHHHhcC-CCCEEEEEC
Confidence            33333210        00112234599999998874   456777776532 457888877

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PHA02774 E1; Provisional

Probab=97.51  E-value=0.00061  Score=71.72  Aligned_cols=40  Identities=28%  Similarity=0.321  Sum_probs=31.1

Q ss_pred             HHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          135 KVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       135 ~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+...|+.++++.+ .++++|+||||||||+++.++++.+.
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~  459 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK  459 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34555666665433 46899999999999999999998874

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.48  E-value=0.00031  Score=64.45  Aligned_cols=45  Identities=20%  Similarity=0.254  Sum_probs=31.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .++|+|+||||||+++..++.....    .|   -.++|++...  +...+...
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~----~g---~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLA----RG---EPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH----CC---CcEEEEECCC--CHHHHHHH
Confidence            3789999999999999998776542    22   2477887644  34444433

A related protein is found in archaea.

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.47  E-value=0.0004  Score=70.69  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=21.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.|.||||||.++-.++..+
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHh
Confidence            57899999999999999999998

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.47  E-value=0.00019  Score=75.37  Aligned_cols=53  Identities=21%  Similarity=0.327  Sum_probs=45.0

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .++++|.++.+++|..+|.....+  .....++|.||||+|||++++.+++.+..
T Consensus        75 F~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         75 FEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             hhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            346899999999999999776554  34568999999999999999999998875

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=97.46  E-value=0.0023  Score=63.76  Aligned_cols=47  Identities=17%  Similarity=0.190  Sum_probs=34.2

Q ss_pred             cHHHHHHHHHHHHHhhccCC--CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEK--AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~--~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      -++.++.+.+++..++.+..  ...++++|+.|+|||++++.+..-++.
T Consensus        54 d~~~~~~l~~~lg~~L~~~~~~~~~~~l~G~g~nGKStl~~~l~~l~G~  102 (304)
T TIGR01613        54 DNELIEYLQRVIGYSLTGNYTEQKLFFLYGNGGNGKSTFQNLLSNLLGD  102 (304)
T ss_pred             CHHHHHHHHHHHhHHhcCCCCceEEEEEECCCCCcHHHHHHHHHHHhCh
Confidence            34456667777777776532  346889999999999999987666654

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.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.44  E-value=0.00082  Score=62.23  Aligned_cols=41  Identities=29%  Similarity=0.310  Sum_probs=26.8

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..++....+.|.      ....+.+.||+|||||.++-+.+-++-.
T Consensus         5 ~~~~Q~~~~~al~------~~~~v~~~G~AGTGKT~LA~a~Al~~v~   45 (205)
T PF02562_consen    5 KNEEQKFALDALL------NNDLVIVNGPAGTGKTFLALAAALELVK   45 (205)
T ss_dssp             -SHHHHHHHHHHH------H-SEEEEE--TTSSTTHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH------hCCeEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3344445555554      2468999999999999999998876543

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

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.42  E-value=0.0014  Score=72.79  Aligned_cols=106  Identities=15%  Similarity=0.182  Sum_probs=59.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+.++|.|+||||||++++.++..+....   +   ...+.+-++.....    ..|.+..+..         ...+..+
T Consensus       338 ~~~~iitGgpGTGKTt~l~~i~~~~~~~~---~---~~~v~l~ApTg~AA----~~L~e~~g~~---------a~Tih~l  398 (720)
T TIGR01448       338 HKVVILTGGPGTGKTTITRAIIELAEELG---G---LLPVGLAAPTGRAA----KRLGEVTGLT---------ASTIHRL  398 (720)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcC---C---CceEEEEeCchHHH----HHHHHhcCCc---------cccHHHH
Confidence            45899999999999999999988776421   0   12344444432211    1233222111         1112222


Q ss_pred             HHhh-------hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          229 YSQK-------LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       229 ~~~~-------~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +...       .........+|||||+..+.   ...++.|+.... .+.+++++|
T Consensus       399 L~~~~~~~~~~~~~~~~~~~llIvDEaSMvd---~~~~~~Ll~~~~-~~~rlilvG  450 (720)
T TIGR01448       399 LGYGPDTFRHNHLEDPIDCDLLIVDESSMMD---TWLALSLLAALP-DHARLLLVG  450 (720)
T ss_pred             hhccCCccchhhhhccccCCEEEEeccccCC---HHHHHHHHHhCC-CCCEEEEEC
Confidence            2210       00112345699999999884   455667766432 457888877

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.

>TIGR00959 ffh signal recognition particle protein

Probab=97.38  E-value=0.045  Score=56.81  Aligned_cols=95  Identities=17%  Similarity=0.225  Sum_probs=55.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH-HHHHHHHHHHhCCCCCC-CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT-SEIFSKILLKLQPRKKL-NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~~-~~~~~~~~~l~  226 (517)
                      +..++++|++|+||||++..++..+...   .|   ..+..|+|-.+... ..-+......++.+... .....+.+...
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~~---~g---~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~  172 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKKK---QG---KKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIAR  172 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHh---CC---CeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHH
Confidence            4578899999999999999998876421   12   35778888766442 22233334444332211 11233444444


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      ..+...   .....-+||||=.-.+.
T Consensus       173 ~al~~~---~~~~~DvVIIDTaGr~~  195 (428)
T TIGR00959       173 RALEYA---KENGFDVVIVDTAGRLQ  195 (428)
T ss_pred             HHHHHH---HhcCCCEEEEeCCCccc
Confidence            444311   12334589999887664

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK10867 signal recognition particle protein; Provisional

Probab=97.37  E-value=0.046  Score=56.75  Aligned_cols=96  Identities=14%  Similarity=0.181  Sum_probs=56.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH-HHHHHHHHHhCCCCCC-CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS-EIFSKILLKLQPRKKL-NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~~~-~~~~~~~~~l~  226 (517)
                      +..++++|++|+||||++-.++..+...   .|   ..+..|+|-.+.... .-+.......+..... .....+.....
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~---~G---~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~  173 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKK---KK---KKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAK  173 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHh---cC---CcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHH
Confidence            5578899999999999999999877643   12   357778877654422 2233344444432111 12234444444


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ..+..   ......-+||||=.-.+..
T Consensus       174 ~a~~~---a~~~~~DvVIIDTaGrl~~  197 (433)
T PRK10867        174 AALEE---AKENGYDVVIVDTAGRLHI  197 (433)
T ss_pred             HHHHH---HHhcCCCEEEEeCCCCccc
Confidence            44431   1133456899998877653

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=97.35  E-value=0.037  Score=55.97  Aligned_cols=175  Identities=17%  Similarity=0.234  Sum_probs=105.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      -.+..+|+|+-    ..++...++.+.......+...+.+.++++.... ...    +...+..       .       .
T Consensus        16 ~~~~~li~G~d----~~l~~~~~~~i~~~~~~~~~~~~~~~~~d~~~~~-~~~----l~~~~~t-------~-------~   72 (340)
T PRK05574         16 LAPLYLLYGDE----PLLLQEAKDAIRAAARAQGFDERNVFTFDGSETD-WDD----VLEACQS-------L-------P   72 (340)
T ss_pred             CCceEEEEcCc----HHHHHHHHHHHHHHHHcCCCceeeEEEeecCCCC-HHH----HHHHhhc-------c-------C
Confidence            46788899976    3555555555555433334444667777776542 222    2222210       0       0


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhccCC-CCCCcEEEEEEECCCCcchhh---cccccccCCCceEE
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFMLTT-FPFSRFILIGIANAIDLADRF---LPRLQSMNCKPLVV  302 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~~-~~~~~v~lI~ian~~~~~~~l---~~~l~sr~~~~~~i  302 (517)
                      +|        +...+|+|++++.+.... .+.+..+.+... .+...++++..++..+-...+   ...+... +  ..+
T Consensus        73 lF--------~~~klvii~~~~~l~~~~~~~~l~~l~~~l~~~~~~~~~li~~~~~~~~~~k~~k~~k~~~~~-~--~~~  141 (340)
T PRK05574         73 LF--------SDRKLVELRLPEFLTGAKGEKALKRLEAYLNPLPHPDLLLIVRLPKLDKAKKKSAWFKALKKK-A--VVV  141 (340)
T ss_pred             cc--------ccCeEEEEECCCCCCchhHHHHHHHHHHhccCCCCCcEEEEEECCcCCHHHHhhHHHHHHHhC-c--eEE
Confidence            22        234688999999886542 345555655431 122345666555654422222   2334343 3  688


Q ss_pred             EeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          303 TFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       303 ~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      .|.+++..++...+...+.... ..++++++++++.   ...||++.+.+-+.....+
T Consensus       142 ~~~~~~~~~~~~~i~~~~~~~g-~~i~~~a~~~L~~---~~~~d~~~l~~El~KL~l~  195 (340)
T PRK05574        142 EAQPPKEAELPQWIQQRLKQQG-LQIDAAALQLLAE---RVEGNLLALAQELEKLALL  195 (340)
T ss_pred             EcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HhCchHHHHHHHHHHHHhh
Confidence            9999999999999998887432 3789999999987   4678888777666655443

>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=97.34  E-value=0.00022  Score=60.42  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=21.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.|+||+||||+++.+++.++
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            378999999999999999998873

...

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.32  E-value=0.0022  Score=65.30  Aligned_cols=108  Identities=19%  Similarity=0.221  Sum_probs=62.6

Q ss_pred             ChhHHHHHHhhcCc-----------CCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          106 DVEQMSAVREALHV-----------STAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       106 ~~~~~~~~~~~l~~-----------~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      |.+.+.+++..|..           .+-|+.+-.|. .+..|... -+++.  ..-|+++.||+|||||+++.++.....
T Consensus       159 Dl~~~~~~R~~FT~dEWid~LlrSiG~~P~~~~~r~-k~~~L~rl-~~fve--~~~Nli~lGp~GTGKThla~~l~~~~a  234 (449)
T TIGR02688       159 DLDYYKEGRKEFTLEEWIDVLIRSIGYEPEGFEARQ-KLLLLARL-LPLVE--PNYNLIELGPKGTGKSYIYNNLSPYVI  234 (449)
T ss_pred             CHHHHHHHHhhcCHHHHHHHHHHhcCCCcccCChHH-HHHHHHhh-HHHHh--cCCcEEEECCCCCCHHHHHHHHhHHHH
Confidence            55666666655544           34565554333 33333332 12232  567999999999999999998765521


Q ss_pred             HHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          175 DWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       175 ~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                      .              .++ ...+...++..+....                   +.     .-...-+|+|||+..+...
T Consensus       235 ~--------------~sG-~f~T~a~Lf~~L~~~~-------------------lg-----~v~~~DlLI~DEvgylp~~  275 (449)
T TIGR02688       235 L--------------ISG-GTITVAKLFYNISTRQ-------------------IG-----LVGRWDVVAFDEVATLKFA  275 (449)
T ss_pred             H--------------HcC-CcCcHHHHHHHHHHHH-------------------Hh-----hhccCCEEEEEcCCCCcCC
Confidence            1              111 3445555554444311                   11     1234569999999997655


Q ss_pred             Cc
Q 010136          255 DR  256 (517)
Q Consensus       255 ~~  256 (517)
                      ..
T Consensus       276 ~~  277 (449)
T TIGR02688       276 KP  277 (449)
T ss_pred             ch
Confidence            44

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.30  E-value=0.00013  Score=62.54  Aligned_cols=41  Identities=27%  Similarity=0.397  Sum_probs=31.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      ..++|+|+|-||||||+++..++...            .+-|++++.+....+
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~------------~~~~i~isd~vkEn~   46 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKT------------GLEYIEISDLVKENN   46 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHh------------CCceEehhhHHhhhc
Confidence            46899999999999999999998653            366777776644443

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.30  E-value=0.0011  Score=69.30  Aligned_cols=89  Identities=19%  Similarity=0.210  Sum_probs=53.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC--CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL--NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~--~~~~~~~~~l~  226 (517)
                      +..++|+|+||+|||+++..++..+...    +   ..++|++...  +..++... +..++.....  -......+.+.
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~----g---~~vlYvs~Ee--s~~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~  149 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAA----G---GKVLYVSGEE--SASQIKLR-AERLGLPSDNLYLLAETNLEAIL  149 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc----C---CeEEEEEccc--cHHHHHHH-HHHcCCChhcEEEeCCCCHHHHH
Confidence            4478899999999999999998876521    2   3688998754  34444322 3444321110  00111133333


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      +.+.      ..++.+||||++..+..
T Consensus       150 ~~i~------~~~~~lVVIDSIq~l~~  170 (446)
T PRK11823        150 ATIE------EEKPDLVVIDSIQTMYS  170 (446)
T ss_pred             HHHH------hhCCCEEEEechhhhcc
Confidence            3333      34567999999998764

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=97.28  E-value=0.0016  Score=59.09  Aligned_cols=46  Identities=11%  Similarity=0.128  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          130 EDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       130 e~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +.|.+.+...+.........+.++|.+|+|+|||.++-.++.++..
T Consensus         6 ~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~   51 (184)
T PF04851_consen    6 PYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR   51 (184)
T ss_dssp             HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc
Confidence            3444444444333222125789999999999999999988877763

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.26  E-value=0.00062  Score=66.92  Aligned_cols=108  Identities=18%  Similarity=0.234  Sum_probs=62.8

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      ..+.++|++|+-|.|||.|+..+...+.-..               ..-.--..+...+.+.+......   ..+...+.
T Consensus        63 ~~~~GlYl~GgVGrGKT~LMD~Fy~~lp~~~---------------k~R~HFh~FM~~vH~~l~~l~g~---~dpl~~iA  124 (367)
T COG1485          63 GPVRGLYLWGGVGRGKTMLMDLFYESLPGER---------------KRRLHFHRFMARVHQRLHTLQGQ---TDPLPPIA  124 (367)
T ss_pred             CCCceEEEECCCCccHHHHHHHHHhhCCccc---------------cccccHHHHHHHHHHHHHHHcCC---CCccHHHH
Confidence            3567999999999999999999877654211               11111235555666555332211   12233333


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      .-+.       +...||+|||+.--...+.-.|..||+..  -...|++++++|.
T Consensus       125 ~~~~-------~~~~vLCfDEF~VtDI~DAMiL~rL~~~L--f~~GV~lvaTSN~  170 (367)
T COG1485         125 DELA-------AETRVLCFDEFEVTDIADAMILGRLLEAL--FARGVVLVATSNT  170 (367)
T ss_pred             HHHH-------hcCCEEEeeeeeecChHHHHHHHHHHHHH--HHCCcEEEEeCCC
Confidence            3332       23469999999654333333445555432  1247889999997

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.26  E-value=0.0021  Score=58.72  Aligned_cols=23  Identities=17%  Similarity=0.186  Sum_probs=18.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+++|.|++|+|||+++-..+-.
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~   47 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALE   47 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHH
Confidence            78999999999999955544433

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=97.23  E-value=0.0016  Score=62.72  Aligned_cols=198  Identities=15%  Similarity=0.101  Sum_probs=101.1

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL  215 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~  215 (517)
                      +..++...-.  .+....++|.+|.|||..++.+++.-.           ..+.+......+...+...+........  
T Consensus        83 ~~~~~~~A~k--~g~l~~vyg~~g~gKt~a~~~y~~s~p-----------~~~l~~~~p~~~a~~~i~~i~~~~~~~~--  147 (297)
T COG2842          83 IFFRTRPASK--TGSLVVVYGYAGLGKTQAAKNYAPSNP-----------NALLIEADPSYTALVLILIICAAAFGAT--  147 (297)
T ss_pred             Hhhhhhhhhh--cCceEEEeccccchhHHHHHhhcccCc-----------cceeecCChhhHHHHHHHHHHHHHhccc--
Confidence            4444444433  334788999999999999999876532           3555666555454454444444442211  


Q ss_pred             CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC---cchhhcccc
Q 010136          216 NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID---LADRFLPRL  292 (517)
Q Consensus       216 ~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~---~~~~l~~~l  292 (517)
                        ...-.+.......    .......+|++||+|+|....-+.|..+.+.   .+.-++++|...-..   .+..-..++
T Consensus       148 --~~~~~d~~~~~~~----~l~~~~~~iivDEA~~L~~~ale~lr~i~d~---~Gi~~vLvG~prL~~~l~~~~~~~~rl  218 (297)
T COG2842         148 --DGTINDLTERLMI----RLRDTVRLIIVDEADRLPYRALEELRRIHDK---TGIGVVLVGMPRLFKVLRRPEDELSRL  218 (297)
T ss_pred             --chhHHHHHHHHHH----HHccCcceeeeehhhccChHHHHHHHHHHHh---hCceEEEecChHHHhccccchHHHHHH
Confidence              1111122222221    1255667999999999987666666666544   334555665222100   011111233


Q ss_pred             ccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH
Q 010136          293 QSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR  366 (517)
Q Consensus       293 ~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~  366 (517)
                      .|| .+.. .+...-.+.+++.++....+.     .+.++.+..+.   ....|.+|..-.++..++-.|..++.
T Consensus       219 ~srv~v~~-~~~~~~~d~d~~~~~~~~~l~-----~~~~~~v~~~~---~~~~g~~~~L~~~l~~~~~~a~~~~~  284 (297)
T COG2842         219 YSRVRVGK-LLGEKFPDADELAEIAALVLP-----TEDELVLMQVI---KETEGNIRRLDKILAGAVGTARSNGI  284 (297)
T ss_pred             HHHhhhHh-hhhhhhhhhHHHHHHHHhhCc-----cchHHHHHHHH---HhcchhHhHHHHHHhhhhhhhhhccc
Confidence            333 1111 111111122334433332222     23344443332   25678888888888888777665543

>PF13245 AAA_19: Part of AAA domain

Probab=97.23  E-value=0.00042  Score=53.50  Aligned_cols=26  Identities=31%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+.++|.||||||||+++...+..+.
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            45677799999999977666666555

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=97.22  E-value=0.0013  Score=73.29  Aligned_cols=107  Identities=15%  Similarity=0.144  Sum_probs=57.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+.++|.|+||||||++++.+...+...    |   ..++.+ ++..    ..-..+....+..      ......+...
T Consensus       368 ~~~~il~G~aGTGKTtll~~i~~~~~~~----g---~~V~~~-ApTg----~Aa~~L~~~~g~~------a~Ti~~~~~~  429 (744)
T TIGR02768       368 GDIAVVVGRAGTGKSTMLKAAREAWEAA----G---YRVIGA-ALSG----KAAEGLQAESGIE------SRTLASLEYA  429 (744)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHHHHHhC----C---CeEEEE-eCcH----HHHHHHHhccCCc------eeeHHHHHhh
Confidence            3578999999999999999988766532    2   234433 2221    1111122111110      0111112111


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +.. .........+|||||+-.+..   ..+..|++.....++++++||
T Consensus       430 ~~~-~~~~~~~~~llIvDEasMv~~---~~~~~Ll~~~~~~~~kliLVG  474 (744)
T TIGR02768       430 WAN-GRDLLSDKDVLVIDEAGMVGS---RQMARVLKEAEEAGAKVVLVG  474 (744)
T ss_pred             hcc-CcccCCCCcEEEEECcccCCH---HHHHHHHHHHHhcCCEEEEEC
Confidence            110 011123457999999988843   456667765444567888887

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.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.22  E-value=0.0019  Score=74.10  Aligned_cols=149  Identities=13%  Similarity=0.109  Sum_probs=88.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      -...+++-|.||+|||+++.++++..+.          +.+.||.+..++.-++       ++...+...++...-.=..
T Consensus      1542 v~kpilLEGsPGVGKTSlItaLAr~tG~----------kliRINLSeQTdL~DL-------fGsd~Pve~~Gef~w~dap 1604 (4600)
T COG5271        1542 VGKPILLEGSPGVGKTSLITALARKTGK----------KLIRINLSEQTDLCDL-------FGSDLPVEEGGEFRWMDAP 1604 (4600)
T ss_pred             cCCceeecCCCCccHHHHHHHHHHHhcC----------ceEEeeccccchHHHH-------hCCCCCcccCceeEecccH
Confidence            3568999999999999999999988663          5799999887654443       3333333222210000001


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC------C-----CCCCcEEEEEEECCCCc---chhhccccc
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT------T-----FPFSRFILIGIANAIDL---ADRFLPRLQ  293 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~------~-----~~~~~v~lI~ian~~~~---~~~l~~~l~  293 (517)
                      ++.  .+  +.+ .-++|||+.......-+.|...++..      .     ....++.|.++-|..+-   ..-+.....
T Consensus      1605 fL~--am--r~G-~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~ 1679 (4600)
T COG5271        1605 FLH--AM--RDG-GWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFL 1679 (4600)
T ss_pred             HHH--Hh--hcC-CEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHh
Confidence            111  11  222 34679999766443334455555441      1     12346677776775431   111223344


Q ss_pred             ccCCCceEEEeCCCCHHHHHHHHHHHHh
Q 010136          294 SMNCKPLVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       294 sr~~~~~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                      .| |  .++....|+.+++..|+.....
T Consensus      1680 nR-F--svV~~d~lt~dDi~~Ia~~~yp 1704 (4600)
T COG5271        1680 NR-F--SVVKMDGLTTDDITHIANKMYP 1704 (4600)
T ss_pred             hh-h--heEEecccccchHHHHHHhhCC
Confidence            55 6  6899999999999999886543

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.19  E-value=0.0016  Score=60.97  Aligned_cols=46  Identities=17%  Similarity=0.182  Sum_probs=34.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +..+.|+|+||+|||+++..++......    +   -.++|+++.. .++..+.
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~----g---~~v~yi~~e~-~~~~rl~   57 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAARQ----G---KKVVYIDTEG-LSPERFK   57 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC----C---CeEEEEECCC-CCHHHHH
Confidence            4568899999999999999988765431    2   3689999976 3455443

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

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.19  E-value=0.0009  Score=61.77  Aligned_cols=46  Identities=20%  Similarity=0.174  Sum_probs=32.6

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      ..-.+.+|.|||||||||+++-+++.+...-.  ++...+++-|+-.+
T Consensus       135 ~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~--~~l~kkv~IiDers  180 (308)
T COG3854         135 NGWLNTLIIGPPQVGKTTLLRDIARLLSDGIN--QFLPKKVGIIDERS  180 (308)
T ss_pred             cCceeeEEecCCCCChHHHHHHHHHHhhcccc--ccCCceEEEEeccc
Confidence            34557999999999999999999998764221  33334566666443

>PRK08118 topology modulation protein; Reviewed

Probab=97.18  E-value=0.00093  Score=60.25  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=22.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|+|+||+||||+++.+++.++
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~   26 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3589999999999999999988764

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.15  E-value=0.0042  Score=62.99  Aligned_cols=92  Identities=16%  Similarity=0.122  Sum_probs=49.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-CHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-NTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      .+..++|+||+|+||||++..++..+...   .|..  .+..+.+..+. ...+-+....+.++........   ...+.
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~---~G~~--~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~---~~~l~  207 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMR---FGAS--KVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKD---GGDLQ  207 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHh---cCCC--eEEEEecccccccHHHHHHHHHHHcCCceEecCC---cccHH
Confidence            36689999999999999999999876421   1211  34555544432 2223333333344332211111   11233


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      ..+.+     .....+|+||.+....
T Consensus       208 ~~l~~-----l~~~DlVLIDTaG~~~  228 (374)
T PRK14722        208 LALAE-----LRNKHMVLIDTIGMSQ  228 (374)
T ss_pred             HHHHH-----hcCCCEEEEcCCCCCc
Confidence            33321     2234688899997653

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]

Probab=97.14  E-value=0.012  Score=61.37  Aligned_cols=169  Identities=15%  Similarity=0.105  Sum_probs=92.9

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc----cCC----CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE----EEK----AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~----~~~----~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +-+.+.|.+...+.|...|.....    .+.    --++++.|.|.|.|+-|+++|++.....           +...+.
T Consensus       299 LAPSI~GH~~vKkAillLLlGGvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplA-----------I~TTGR  367 (818)
T KOG0479|consen  299 LAPSIYGHDYVKKAILLLLLGGVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLA-----------IATTGR  367 (818)
T ss_pred             cCcccccHHHHHHHHHHHHhccceeccCCCceeccceeEEEecCchHHHHHHHHHHHhccccc-----------ccccCC
Confidence            345789999888777777644322    111    1279999999999999999998754321           111111


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC-------
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT-------  266 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~-------  266 (517)
                      .......     -..+.     ......+..|+.--  .++   ...-|++|||||.+..-+.-++++.++-.       
T Consensus       368 GSSGVGL-----TAAVT-----tD~eTGERRLEAGA--MVL---ADRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKA  432 (818)
T KOG0479|consen  368 GSSGVGL-----TAAVT-----TDQETGERRLEAGA--MVL---ADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKA  432 (818)
T ss_pred             CCCCccc-----eeEEe-----eccccchhhhhcCc--eEE---ccCceEEehhcccccchhHHHHHHHHhcceEEeEec
Confidence            1000000     00000     00000012222100  011   12358999999999887777888877652       


Q ss_pred             ---CCCCCcEEEEEEECCCC--------cchh--hcccccccCCCceEEEeCCCCHHHHHHHHH
Q 010136          267 ---TFPFSRFILIGIANAID--------LADR--FLPRLQSMNCKPLVVTFRAYSKDQIIRILQ  317 (517)
Q Consensus       267 ---~~~~~~v~lI~ian~~~--------~~~~--l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~  317 (517)
                         ..-+.+|.|++++|.+-        ..+.  +...|.|| |..--|.+...+.+.=..|-.
T Consensus       433 GIHasLNARCSVlAAANPvyG~Yd~~k~P~eNIgLpDSLLSR-FDLlFv~lD~~d~~~D~~iSe  495 (818)
T KOG0479|consen  433 GIHASLNARCSVLAAANPVYGQYDQSKTPMENIGLPDSLLSR-FDLLFVVLDDIDADIDRMISE  495 (818)
T ss_pred             cchhhhccceeeeeecCccccccCCCCChhhccCCcHHHHhh-hcEEEEEeccccchHHHHHHH
Confidence               12457899999999862        1111  23466777 655455555555544444433

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.14  E-value=0.0017  Score=65.00  Aligned_cols=138  Identities=18%  Similarity=0.182  Sum_probs=81.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC--CCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN--GSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~--~~~~~~~~l~  226 (517)
                      +..++|-|.||.|||||+..++..+...        -+++||++.+.  ..++ .--++.|+.....-  ......+.+.
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~--------~~vLYVsGEES--~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~  161 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKR--------GKVLYVSGEES--LQQI-KLRADRLGLPTNNLYLLAETNLEDII  161 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhc--------CcEEEEeCCcC--HHHH-HHHHHHhCCCccceEEehhcCHHHHH
Confidence            5568899999999999999999888753        25899999774  3332 22345554221100  0111133444


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHhccCCCCCCcEEEEEEECCCCcchhhccccccc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSM  295 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr  295 (517)
                      ..++      ..+|.+++||-|+.+....           .+.-..|+++....+..+.++|--+...-.  .=|++.-.
T Consensus       162 ~~l~------~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~i~~fiVGHVTKeG~I--AGPrvLEH  233 (456)
T COG1066         162 AELE------QEKPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKNIAIFIVGHVTKEGAI--AGPRVLEH  233 (456)
T ss_pred             HHHH------hcCCCEEEEeccceeecccccCCCCcHHHHHHHHHHHHHHHHHcCCeEEEEEEEcccccc--cCchheee
Confidence            4443      4678999999999987653           133445666655556667777744421100  12454444


Q ss_pred             CCCceEEEeCC
Q 010136          296 NCKPLVVTFRA  306 (517)
Q Consensus       296 ~~~~~~i~f~p  306 (517)
                       +-..+++|..
T Consensus       234 -mVDtVlyFEG  243 (456)
T COG1066         234 -MVDTVLYFEG  243 (456)
T ss_pred             -eeeEEEEEec
Confidence             4444566643

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=97.12  E-value=0.077  Score=53.76  Aligned_cols=111  Identities=17%  Similarity=0.165  Sum_probs=65.8

Q ss_pred             ceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHH
Q 010136          239 KMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE  318 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~  318 (517)
                      ...+|++...+.   ...+.|..++..+  +...++|+ .+..++-...+..-+... -....+.|.+++..++..++..
T Consensus        81 ~~rlViv~~~~~---~~~~~L~~~l~~~--~~~~~lil-~~~~~~~~~kl~k~~~~~-~~~~~v~~~~~~~~~l~~~i~~  153 (343)
T PRK06585         81 GRRLIWVRAGSK---NLAAALKALLESP--PGDAFIVI-EAGDLKKGSSLRKLFETA-AYAAAIPCYADDERDLARLIDD  153 (343)
T ss_pred             CceEEEEECCch---hHHHHHHHHHcCC--CCCcEEEE-EcCCCCcccHHHHHHhcC-CCeeEEecCCCCHHHHHHHHHH
Confidence            345777875432   1234455555443  22333333 344433222222222111 1124678888999999999999


Q ss_pred             HHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          319 RLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       319 rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      ++.... ..++++++++++.   ...||++.+.+-+.....+
T Consensus       154 ~~~~~g-~~i~~~a~~~L~~---~~g~dl~~l~~EleKL~ly  191 (343)
T PRK06585        154 ELAEAG-LRITPDARALLVA---LLGGDRLASRNEIEKLALY  191 (343)
T ss_pred             HHHHCC-CCCCHHHHHHHHH---HhCCCHHHHHHHHHHHHHh
Confidence            987432 3789999999987   4678988777666665543

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.12  E-value=0.00035  Score=65.48  Aligned_cols=22  Identities=27%  Similarity=0.551  Sum_probs=19.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +..++|||+||+|||++++.+.
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            5679999999999999999874

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.12  E-value=0.00099  Score=57.20  Aligned_cols=43  Identities=21%  Similarity=0.169  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          130 EDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       130 e~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +++...+...|...+.  .+..++|.|+.|+|||++++.+++.++
T Consensus         5 ~~~t~~l~~~l~~~l~--~~~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150         5 EKAMDKFGKAFAKPLD--FGTVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             HHHHHHHHHHHHHhCC--CCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            4566677777777664  456899999999999999999998875

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.12  E-value=0.0034  Score=59.72  Aligned_cols=49  Identities=18%  Similarity=0.278  Sum_probs=33.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      .+..++|.|+||||||+++..++..+..    .+   ..++|+....  ++.+++..+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~----~g---~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFLQ----NG---YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh----CC---CcEEEEeCCC--CHHHHHHHH
Confidence            3557999999999999998776655432    22   2578888443  455655555

>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=97.12  E-value=0.0038  Score=56.58  Aligned_cols=92  Identities=15%  Similarity=0.203  Sum_probs=50.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-HHHHHHHHHHHhCCCCC-CCCCCCHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN-TSEIFSKILLKLQPRKK-LNGSTSPLQYLQNL  228 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s-~~~i~~~i~~~l~~~~~-~~~~~~~~~~l~~~  228 (517)
                      .+++.|+||+|||+++..++..+...    +   ..++.++|..... ....+......++.... ......+.+.+.+.
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~----g---~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK----G---KKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRA   74 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC----C---CcEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHH
Confidence            47899999999999999999887642    2   3578888876542 22223333333321111 11112233333333


Q ss_pred             HHhhhccCCCceEEEEEeCcchhc
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      +...   ......++|||......
T Consensus        75 ~~~~---~~~~~d~viiDt~g~~~   95 (173)
T cd03115          75 IEHA---REENFDVVIVDTAGRLQ   95 (173)
T ss_pred             HHHH---HhCCCCEEEEECcccch
Confidence            3311   12234467799876653

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.

>PHA02624 large T antigen; Provisional

Probab=97.11  E-value=0.0014  Score=69.28  Aligned_cols=48  Identities=17%  Similarity=0.133  Sum_probs=35.0

Q ss_pred             HHHhhccC-CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          140 CKKNLEEE-KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       140 L~~~l~~~-~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      ++..+.+- ....++|+||||||||+++.++++.|+.          .++.||++...+
T Consensus       421 lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~G----------~vlsVNsPt~ks  469 (647)
T PHA02624        421 LKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCGG----------KSLNVNCPPDKL  469 (647)
T ss_pred             HHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcCC----------eEEEeeCCcchh
Confidence            44444432 2448999999999999999999998852          366788766533

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=97.10  E-value=0.049  Score=53.97  Aligned_cols=112  Identities=16%  Similarity=0.168  Sum_probs=74.1

Q ss_pred             ceEEEEEeCcchhccc-CchHHHHHhccCCCCCCcEEEEEEECCCCcchhhccccc--ccCCCceEEEeCCCCHHHHHHH
Q 010136          239 KMMLIIADELDYLITR-DRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQ--SMNCKPLVVTFRAYSKDQIIRI  315 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~-~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~--sr~~~~~~i~f~p~~~~e~~~I  315 (517)
                      ...||+|++++.+... ..+.|..++.-   +....++|..++..+....+...+.  ++ +  ..+.|.+++..++..+
T Consensus        46 ~~kliii~~~~~~~~~~~~~~L~~~l~~---~~~~~~~i~~~~~~~~~~~~~k~~~~~~~-~--~~i~~~~~~~~~~~~~  119 (302)
T TIGR01128        46 ERRLVELRNPEGKPGAKGLKALEEYLAN---PPPDTLLLIEAPKLDKRKKLTKWLKALKN-A--QIVECKTPKEQELPRW  119 (302)
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHhc---CCCCEEEEEecCCCCHhHHHHHHHHHhcC-e--eEEEecCCCHHHHHHH
Confidence            3468999999987542 22445554443   2334555555665442222212222  23 3  6899999999999999


Q ss_pred             HHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          316 LQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       316 L~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +...+... ...++++++++++.   ...||++.+.+-+.....+
T Consensus       120 i~~~~~~~-g~~i~~~a~~~l~~---~~~~d~~~l~~el~KL~~~  160 (302)
T TIGR01128       120 IQARLKKL-GLRIDPDAVQLLAE---LVEGNLLAIAQELEKLALY  160 (302)
T ss_pred             HHHHHHHc-CCCCCHHHHHHHHH---HhCcHHHHHHHHHHHHHhh
Confidence            99988743 23689999999987   4678999888888776544

subunit around DNA forming a DNA sliding clamp.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.10  E-value=0.13  Score=53.24  Aligned_cols=152  Identities=9%  Similarity=0.056  Sum_probs=74.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH-HHHHHHHHHHhCCCCCC-CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT-SEIFSKILLKLQPRKKL-NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~~-~~~~~~~~~l~  226 (517)
                      +..++|+|++|+||||++..++..+..    .|   ..+.-|+|-.+... ..-+......++.+... .....+.....
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~----~G---~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~  172 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQR----KG---FKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIAS  172 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH----CC---CCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHH
Confidence            567899999999999999999987653    23   25677777655421 11112223333322111 11222333333


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC-CCCcEEEEEEECC-CCcchhhcccccccCCCceEEEe
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF-PFSRFILIGIANA-IDLADRFLPRLQSMNCKPLVVTF  304 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~-~~~~v~lI~ian~-~~~~~~l~~~l~sr~~~~~~i~f  304 (517)
                      +.+...   .....-+||||=+-.+... ...+.++...... ....+.++.-+.. .+.. .....+... ....-+.|
T Consensus       173 ~~l~~~---~~~~~DvViIDTaGr~~~d-~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~-~~a~~F~~~-~~~~g~Il  246 (429)
T TIGR01425       173 EGVEKF---KKENFDIIIVDTSGRHKQE-DSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE-AQAKAFKDS-VDVGSVII  246 (429)
T ss_pred             HHHHHH---HhCCCCEEEEECCCCCcch-HHHHHHHHHHhhhcCCcEEEEEeccccChhHH-HHHHHHHhc-cCCcEEEE
Confidence            333211   1224568999987665332 2333433333211 1223344432221 1111 112233332 34567888


Q ss_pred             CCCCHHHHH
Q 010136          305 RAYSKDQII  313 (517)
Q Consensus       305 ~p~~~~e~~  313 (517)
                      .-+|.+...
T Consensus       247 TKlD~~arg  255 (429)
T TIGR01425       247 TKLDGHAKG  255 (429)
T ss_pred             ECccCCCCc
Confidence            888876544

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.07  E-value=0.0029  Score=57.51  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=24.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      +-++++|+||+|||+.++.+++.|...
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            357899999999999999999999864

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=97.06  E-value=0.04  Score=55.40  Aligned_cols=112  Identities=17%  Similarity=0.161  Sum_probs=64.4

Q ss_pred             ceEEEEEeCcchhcccCch---HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCC---CCHHHH
Q 010136          239 KMMLIIADELDYLITRDRA---VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRA---YSKDQI  312 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~~~---~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p---~~~~e~  312 (517)
                      ...+|+|++++.+.....+   .|..+++.+  +...++|+..++..|-...+...+... .  ....|.+   |+.+++
T Consensus        61 ~~rlVvv~~~~~~~~~~~~~~~~L~~~l~~~--~~~~~li~~~~~~~d~r~k~~k~l~k~-~--~~~~~~~~~~~~~~~l  135 (326)
T PRK07452         61 GGRLVWLKNSPLCQGCSEELLAELERTLPLI--PENTHLLLTNTKKPDGRLKSTKLLQKL-A--EEKEFSLIPPWDTEGL  135 (326)
T ss_pred             CceEEEEeCchhhccCCHHHHHHHHHHHcCC--CCCcEEEEEeCCCcchHHHHHHHHHHc-e--eEEEecCCCcccHHHH
Confidence            3467888988766433333   344444332  222333333344333222222223332 2  3566654   467789


Q ss_pred             HHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 010136          313 IRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       313 ~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                      ..++..++.... ..++++++++++.   ...+|++.+.+-+...+.
T Consensus       136 ~~~i~~~~~~~g-~~i~~~a~~~L~~---~~g~dl~~l~~EleKL~l  178 (326)
T PRK07452        136 KQLVERTAQELG-VKLTPEAAELLAE---AVGNDSRRLYNELEKLAL  178 (326)
T ss_pred             HHHHHHHHHHcC-CCCCHHHHHHHHH---HhCccHHHHHHHHHHHHH
Confidence            999999987432 3789999999987   467888877666665553

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.06  E-value=0.0032  Score=71.38  Aligned_cols=104  Identities=18%  Similarity=0.129  Sum_probs=57.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY  229 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~  229 (517)
                      ..++|.|.+|||||++++.+...+..    .|.   .++-+ ++..    .    -+..|....    +.. ...+..++
T Consensus       363 ~v~vv~G~AGTGKTT~l~~~~~~~e~----~G~---~V~~~-ApTG----k----AA~~L~e~t----Gi~-a~TI~sll  421 (988)
T PRK13889        363 DLGVVVGYAGTGKSAMLGVAREAWEA----AGY---EVRGA-ALSG----I----AAENLEGGS----GIA-SRTIASLE  421 (988)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHH----cCC---eEEEe-cCcH----H----HHHHHhhcc----Ccc-hhhHHHHH
Confidence            46789999999999999887665543    222   23332 2221    1    112221111    111 22233332


Q ss_pred             Hhh--hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          230 SQK--LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       230 ~~~--~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      ...  .........||||||+-.+.   ...+..|+......+.+|++||
T Consensus       422 ~~~~~~~~~l~~~~vlIVDEASMv~---~~~m~~LL~~a~~~garvVLVG  468 (988)
T PRK13889        422 HGWGQGRDLLTSRDVLVIDEAGMVG---TRQLERVLSHAADAGAKVVLVG  468 (988)
T ss_pred             hhhcccccccccCcEEEEECcccCC---HHHHHHHHHhhhhCCCEEEEEC
Confidence            210  00012345699999998874   3456777766545678888887

>PTZ00494 tuzin-like protein; Provisional

Probab=97.02  E-value=0.068  Score=54.55  Aligned_cols=175  Identities=13%  Similarity=0.111  Sum_probs=97.2

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +...+.|++|-..+.+.|.. +....|..+.|+|..||||+++.+.....-.          ...++|+-..   ..+.+
T Consensus       370 ~~~~V~R~~eE~~vRqvL~q-ld~aHPRIvV~TG~~GcGKSslcRsAvrkE~----------~paV~VDVRg---~EDtL  435 (664)
T PTZ00494        370 EAFEVRREDEEALVRSVLTQ-MAPSHPRIVALAGGSGGGRCVPCRRAVRVEG----------VALVHVDVGG---TEDTL  435 (664)
T ss_pred             cccccchhhHHHHHHHHHhh-ccCCCCcEEEEecCCCCCchHHHHHHHHHcC----------CCeEEEEecC---CcchH
Confidence            34589999988878777766 4456788999999999999999998765422          2456665433   24456


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCc-e-EEEEEeCcchhcccCchHHHHHhccC-CCCCCcEEEEEEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMK-M-MLIIADELDYLITRDRAVLHDLFMLT-TFPFSRFILIGIA  279 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~-~vI~iDEiD~L~~~~~~~L~~l~~~~-~~~~~~v~lI~ia  279 (517)
                      ..+.+.|+......=| ...+-+.+.+........+. | +|+=|-|-+.|..    +..+..-+. ...-+++++=.--
T Consensus       436 rsVVKALgV~nve~CG-DlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~R----VYnE~vaLacDrRlCHvv~EVpl  510 (664)
T PTZ00494        436 RSVVRALGVSNVEVCG-DLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGR----VYGEVVSLVSDCQACHIVLAVPM  510 (664)
T ss_pred             HHHHHHhCCCChhhhc-cHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHH----HHHHHHHHHccchhheeeeechH
Confidence            6777888654322111 12333444444322212222 2 3444667666532    222222221 1111233321111


Q ss_pred             CCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh
Q 010136          280 NAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL  323 (517)
Q Consensus       280 n~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~  323 (517)
                      ..+......+||     +  ..+.+++++..|-.++.++.+..+
T Consensus       511 ESLT~~n~~LPR-----L--DFy~VPnFSr~QAf~YtqH~lDal  547 (664)
T PTZ00494        511 KALTPLNVSSRR-----L--DFYCIPPFSRRQAFAYAEHTLDAL  547 (664)
T ss_pred             hhhchhhccCcc-----c--eeEecCCcCHHHHHHHHhcccchh
Confidence            111122223343     3  456789999999999999988754

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.00  E-value=0.0097  Score=58.50  Aligned_cols=61  Identities=25%  Similarity=0.272  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHhhcc--------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          131 DEQKKVLEFCKKNLEE--------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~--------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      .....+.+.|...+..        ..+..++|+||+|+||||++..++..+....   +.  ..+..|++....
T Consensus       168 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~vi~~vGptGvGKTTt~~kLa~~~~~~~---g~--~~V~li~~D~~r  236 (282)
T TIGR03499       168 DAWRWLREALEKMLPVKPEEDEILEQGGVIALVGPTGVGKTTTLAKLAARFVLEH---GN--KKVALITTDTYR  236 (282)
T ss_pred             HHHHHHHHHHHHHhccCCccccccCCCeEEEEECCCCCCHHHHHHHHHHHHHHHc---CC--CeEEEEECCccc
Confidence            3445555666554431        1345788999999999999999988775421   11  246667765543

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=96.99  E-value=0.00083  Score=66.80  Aligned_cols=111  Identities=19%  Similarity=0.225  Sum_probs=60.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH-------HHHhCCCCCCCC-C-
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI-------LLKLQPRKKLNG-S-  218 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i-------~~~l~~~~~~~~-~-  218 (517)
                      .+.++||||.-|||||+++..+...+......+      -++        -..+...+       ..+.+....... + 
T Consensus       113 ~PkGlYlYG~VGcGKTmLMDlFy~~~~~i~rkq------RvH--------Fh~fM~~VH~r~H~~k~~~~~~~~~~a~~~  178 (467)
T KOG2383|consen  113 PPKGLYLYGSVGCGKTMLMDLFYDALPPIWRKQ------RVH--------FHGFMLSVHKRMHELKQEQGAEKPGYAKSW  178 (467)
T ss_pred             CCceEEEecccCcchhHHHHHHhhcCCchhhhh------hhh--------HHHHHHHHHHHHHHHHHhccccCccccccc
Confidence            377999999999999999988765543211110      011        12233333       222222111111 1 


Q ss_pred             -CCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          219 -TSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       219 -~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                       ..+...+...+.       ...+||++||++--.-.+.=+|..||...  -...+++++++|.
T Consensus       179 ~~Dpl~~vA~eIa-------~ea~lLCFDEfQVTDVADAmiL~rLf~~L--f~~GvVlvATSNR  233 (467)
T KOG2383|consen  179 EIDPLPVVADEIA-------EEAILLCFDEFQVTDVADAMILKRLFEHL--FKNGVVLVATSNR  233 (467)
T ss_pred             cCCccHHHHHHHh-------hhceeeeechhhhhhHHHHHHHHHHHHHH--HhCCeEEEEeCCC
Confidence             123444444443       12479999999765333334566666542  1237888888886

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.96  E-value=0.0031  Score=59.78  Aligned_cols=38  Identities=21%  Similarity=0.253  Sum_probs=30.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +..++|+|+||+|||+++..++.++...    +   ..++|+.+.
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~~~----~---~~v~yi~~e   60 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAAKN----G---KKVIYIDTE   60 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC----C---CeEEEEECC
Confidence            4468899999999999999998776431    2   368899887

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.96  E-value=0.0039  Score=59.51  Aligned_cols=47  Identities=19%  Similarity=0.316  Sum_probs=33.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      +..++|+|+||+|||+++..++.+...    .+   -.++|++...  ++..+...
T Consensus        25 g~~~~i~G~~GsGKt~l~~~~~~~~~~----~g---~~~~y~~~e~--~~~~~~~~   71 (234)
T PRK06067         25 PSLILIEGDHGTGKSVLSQQFVYGALK----QG---KKVYVITTEN--TSKSYLKQ   71 (234)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHHHh----CC---CEEEEEEcCC--CHHHHHHH
Confidence            557889999999999999999755322    12   2578888753  45555444

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.96  E-value=0.013  Score=60.95  Aligned_cols=149  Identities=13%  Similarity=0.096  Sum_probs=73.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH-HHHHhcCCCCceEEEEeCCCCCCHH-HHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV-DWAKEAGLQQPEVFSINCTSLTNTS-EIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~-~~~~~~~~~~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      +..++|.||+|+||||++..++..+. ..   .+   ..+..|++....... .-+..-...++.....  ... ...+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~---~g---~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~--~~~-~~~l~  291 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLY---GK---KKVALITLDTYRIGAVEQLKTYAKIMGIPVEV--VYD-PKELA  291 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhc---CC---CeEEEEECCccHHHHHHHHHHHHHHhCCceEc--cCC-HHhHH
Confidence            45789999999999999999987765 21   11   357778776543211 1111112222211111  111 23344


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCC-CcchhhcccccccCCCceEEE
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAI-DLADRFLPRLQSMNCKPLVVT  303 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~-~~~~~l~~~l~sr~~~~~~i~  303 (517)
                      ..+..     ....-+||||..-......  ...|..+++....+ ..+.++..++.- .-...+...+..  +....+.
T Consensus       292 ~~l~~-----~~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~-~~~~LVl~a~~~~~~l~~~~~~f~~--~~~~~vI  363 (424)
T PRK05703        292 KALEQ-----LRDCDVILIDTAGRSQRDKRLIEELKALIEFSGEP-IDVYLVLSATTKYEDLKDIYKHFSR--LPLDGLI  363 (424)
T ss_pred             HHHHH-----hCCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCC-CeEEEEEECCCCHHHHHHHHHHhCC--CCCCEEE
Confidence            44431     2235789999876543221  13455565521112 344444434321 111122223322  3345677


Q ss_pred             eCCCCHHHHHH
Q 010136          304 FRAYSKDQIIR  314 (517)
Q Consensus       304 f~p~~~~e~~~  314 (517)
                      |..++......
T Consensus       364 ~TKlDet~~~G  374 (424)
T PRK05703        364 FTKLDETSSLG  374 (424)
T ss_pred             Eeccccccccc
Confidence            88877654433

>TIGR02012 tigrfam_recA protein RecA

Probab=96.96  E-value=0.0029  Score=62.86  Aligned_cols=90  Identities=13%  Similarity=0.059  Sum_probs=52.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC---CCCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK---LNGSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~---~~~~~~~~~~l  225 (517)
                      +..+.|+||||+|||+++..++.+....    +   -.++||++....++.     .+..++....   ........+.+
T Consensus        55 G~iteI~G~~GsGKTtLaL~~~~~~~~~----g---~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l  122 (321)
T TIGR02012        55 GRIIEIYGPESSGKTTLALHAIAEAQKA----G---GTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQAL  122 (321)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc----C---CcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHH
Confidence            4468899999999999999887776432    2   257899887654432     2333322110   00111212222


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .. +..  ........+||||-+..|..
T Consensus       123 ~~-~~~--li~~~~~~lIVIDSv~al~~  147 (321)
T TIGR02012       123 EI-AET--LVRSGAVDIIVVDSVAALVP  147 (321)
T ss_pred             HH-HHH--HhhccCCcEEEEcchhhhcc
Confidence            22 221  11245678999999998864

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.95  E-value=0.023  Score=57.64  Aligned_cols=171  Identities=11%  Similarity=0.061  Sum_probs=82.9

Q ss_pred             HHHHHHHHHHHHHhhc-----cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-HHHHHH
Q 010136          130 EDEQKKVLEFCKKNLE-----EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN-TSEIFS  203 (517)
Q Consensus       130 e~e~~~l~~~L~~~l~-----~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s-~~~i~~  203 (517)
                      +.....+.+.+...+.     ...+..+.|.||+|+||||++..++..+...    +   ..+..+++....- ...-+.
T Consensus       217 ~~~~~~l~~~l~~~l~~~~~~~~~~~vI~LVGptGvGKTTTiaKLA~~L~~~----G---kkVglI~aDt~RiaAvEQLk  289 (436)
T PRK11889        217 EEVIEYILEDMRSHFNTENVFEKEVQTIALIGPTGVGKTTTLAKMAWQFHGK----K---KTVGFITTDHSRIGTVQQLQ  289 (436)
T ss_pred             HHHHHHHHHHHHHHhccccccccCCcEEEEECCCCCcHHHHHHHHHHHHHHc----C---CcEEEEecCCcchHHHHHHH
Confidence            3444445555444332     1234689999999999999999999877532    2   2466677655431 111122


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHH---HHhccCCCCCCcEEEE-EEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLH---DLFMLTTFPFSRFILI-GIA  279 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~---~l~~~~~~~~~~v~lI-~ia  279 (517)
                      .....++-....  ... ...+...+...  ......-+||||-+-..... ...+.   .+++... +. .+.++ .++
T Consensus       290 ~yae~lgipv~v--~~d-~~~L~~aL~~l--k~~~~~DvVLIDTaGRs~kd-~~lm~EL~~~lk~~~-Pd-evlLVLsAT  361 (436)
T PRK11889        290 DYVKTIGFEVIA--VRD-EAAMTRALTYF--KEEARVDYILIDTAGKNYRA-SETVEEMIETMGQVE-PD-YICLTLSAS  361 (436)
T ss_pred             HHhhhcCCcEEe--cCC-HHHHHHHHHHH--HhccCCCEEEEeCccccCcC-HHHHHHHHHHHhhcC-CC-eEEEEECCc
Confidence            222222211110  112 33444444321  11123468999988775432 23333   3333221 22 33333 222


Q ss_pred             CCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHH
Q 010136          280 NAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQ  317 (517)
Q Consensus       280 n~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~  317 (517)
                      ....-...+..++..  +....+.|.-+|.....-.+-
T Consensus       362 tk~~d~~~i~~~F~~--~~idglI~TKLDET~k~G~iL  397 (436)
T PRK11889        362 MKSKDMIEIITNFKD--IHIDGIVFTKFDETASSGELL  397 (436)
T ss_pred             cChHHHHHHHHHhcC--CCCCEEEEEcccCCCCccHHH
Confidence            111111122233333  345788888888765544433

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.91  E-value=0.00094  Score=58.28  Aligned_cols=40  Identities=25%  Similarity=0.434  Sum_probs=31.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHh
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKL  209 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l  209 (517)
                      +-|.|+|||||||+++.+++.++       +     -      +.+...+|+.++.+.
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~g-------l-----~------~vsaG~iFR~~A~e~   42 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLG-------L-----K------LVSAGTIFREMARER   42 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhC-------C-----c------eeeccHHHHHHHHHc
Confidence            67899999999999999988764       1     1      223456889999888

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.90  E-value=0.0041  Score=56.16  Aligned_cols=87  Identities=18%  Similarity=0.120  Sum_probs=50.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYS  230 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~  230 (517)
                      .++|.|+||+|||+++..++..+.          ..++|+..... ...+....+..........+........|.+++.
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~----------~~~~~iat~~~-~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~   71 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSG----------LQVLYIATAQP-FDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLR   71 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcC----------CCcEeCcCCCC-ChHHHHHHHHHHHhcCCCCCeEecccccHHHHHH
Confidence            589999999999999999876642          13567766543 3344445554444322222222211223444443


Q ss_pred             hhhccCCCceEEEEEeCcchhc
Q 010136          231 QKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       231 ~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      ..    .....+++||-+..+.
T Consensus        72 ~~----~~~~~~VlID~Lt~~~   89 (170)
T PRK05800         72 AD----AAPGRCVLVDCLTTWV   89 (170)
T ss_pred             hh----cCCCCEEEehhHHHHH
Confidence            10    1224478999888774

>PRK06696 uridine kinase; Validated

Probab=96.88  E-value=0.0027  Score=60.16  Aligned_cols=61  Identities=13%  Similarity=0.157  Sum_probs=43.0

Q ss_pred             CcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          128 CREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      .|.+.+++|.+.+... ....+..|.|.|++|+||||+++.+++.|...    |   ..++.++.-.+.
T Consensus         2 ~~~~~~~~la~~~~~~-~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~----g---~~v~~~~~Ddf~   62 (223)
T PRK06696          2 SRKQLIKELAEHILTL-NLTRPLRVAIDGITASGKTTFADELAEEIKKR----G---RPVIRASIDDFH   62 (223)
T ss_pred             cHHHHHHHHHHHHHHh-CCCCceEEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEecccccc
Confidence            3667777777776552 23456688899999999999999999988642    2   245555554443

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.87  E-value=0.0016  Score=60.45  Aligned_cols=26  Identities=31%  Similarity=0.571  Sum_probs=23.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +.++|+||+|+||||++++++..+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~   27 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            57899999999999999999887753

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.87  E-value=0.0027  Score=61.34  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=21.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ++|+|+||+||||+++.+++.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            689999999999999999988753

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.

>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=96.87  E-value=0.0033  Score=58.21  Aligned_cols=151  Identities=12%  Similarity=0.043  Sum_probs=78.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-HHHHHHHHHHHhCCCCCC-CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN-TSEIFSKILLKLQPRKKL-NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s-~~~i~~~i~~~l~~~~~~-~~~~~~~~~l~  226 (517)
                      |..++|+||+|+||||++-.++..+...    +   ..+..+++-.++- ..+-++..++.++-+... .....+.+.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~----~---~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~   73 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK----G---KKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAR   73 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT----T-----EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc----c---ccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHH
Confidence            3568899999999999999999887643    2   2355555544432 233445566666543221 11223445555


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCCCcchhhc--ccccccCCCceEE
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFL--PRLQSMNCKPLVV  302 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~--~~l~sr~~~~~~i  302 (517)
                      +.+...   ...+.-+|+||=.-......  .+.|..+++..  ....+.++.-++.-  .+.+.  .+.... +....+
T Consensus        74 ~~l~~~---~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~--~~~~~~LVlsa~~~--~~~~~~~~~~~~~-~~~~~l  145 (196)
T PF00448_consen   74 EALEKF---RKKGYDLVLIDTAGRSPRDEELLEELKKLLEAL--NPDEVHLVLSATMG--QEDLEQALAFYEA-FGIDGL  145 (196)
T ss_dssp             HHHHHH---HHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHH--SSSEEEEEEEGGGG--GHHHHHHHHHHHH-SSTCEE
T ss_pred             HHHHHH---hhcCCCEEEEecCCcchhhHHHHHHHHHHhhhc--CCccceEEEecccC--hHHHHHHHHHhhc-ccCceE
Confidence            544421   12233588999875543221  12344444433  23455555544421  12221  122222 445678


Q ss_pred             EeCCCCHHHHHH
Q 010136          303 TFRAYSKDQIIR  314 (517)
Q Consensus       303 ~f~p~~~~e~~~  314 (517)
                      .|..+|.....-
T Consensus       146 IlTKlDet~~~G  157 (196)
T PF00448_consen  146 ILTKLDETARLG  157 (196)
T ss_dssp             EEESTTSSSTTH
T ss_pred             EEEeecCCCCcc
Confidence            888887754433

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 ....

>PRK14712 conjugal transfer nickase/helicase TraI; Provisional

Probab=96.86  E-value=0.0059  Score=72.00  Aligned_cols=108  Identities=14%  Similarity=0.130  Sum_probs=59.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+.++|.|.||||||++++.++..+.......+.   .++-+ ++.    ......|. +.        +. ....+..+
T Consensus       852 dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~---~V~gl-APT----gkAa~~L~-e~--------Gi-~A~TIasf  913 (1623)
T PRK14712        852 DRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERP---RVVGL-GPT----HRAVGEMR-SA--------GV-DAQTLASF  913 (1623)
T ss_pred             CceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCc---eEEEE-ech----HHHHHHHH-Hh--------Cc-hHhhHHHH
Confidence            4689999999999999999998876543322221   22222 222    11112221 11        11 13344444


Q ss_pred             HHhh-----h-ccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          229 YSQK-----L-HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       229 ~~~~-----~-~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +...     . ........||||||+-.+..   ..++.|+......+.++++||
T Consensus       914 L~~~~~~~~~~~~~~~~~~llIVDEASMV~~---~~m~~ll~~~~~~garvVLVG  965 (1623)
T PRK14712        914 LHDTQLQQRSGETPDFSNTLFLLDESSMVGN---TDMARAYALIAAGGGRAVASG  965 (1623)
T ss_pred             hccccchhhcccCCCCCCcEEEEEccccccH---HHHHHHHHhhhhCCCEEEEEc
Confidence            4310     0 00112357999999988854   344555544433567888887

>PRK05973 replicative DNA helicase; Provisional

Probab=96.83  E-value=0.01  Score=56.46  Aligned_cols=48  Identities=13%  Similarity=0.171  Sum_probs=33.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      +..++|.|+||+|||+++..++.....    .|   -.++|++....  +.++...+
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~a~----~G---e~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEAMK----SG---RTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHh----cC---CeEEEEEEeCC--HHHHHHHH
Confidence            457889999999999999998766532    12   24777776543  45554443

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.82  E-value=0.003  Score=61.36  Aligned_cols=28  Identities=14%  Similarity=0.245  Sum_probs=24.3

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +...+++|.||+|+||||+++.++..+.
T Consensus       109 ~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       109 NRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            3347899999999999999999988765

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.

>TIGR00416 sms DNA repair protein RadA

Probab=96.81  E-value=0.0032  Score=66.02  Aligned_cols=89  Identities=16%  Similarity=0.139  Sum_probs=52.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC--CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL--NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~--~~~~~~~~~l~  226 (517)
                      +..++|+|+||+|||+++..++..+...    +   -+++|++...  +..++... +..++-....  -......+.+.
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~----g---~kvlYvs~EE--s~~qi~~r-a~rlg~~~~~l~~~~e~~~~~I~  163 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKN----Q---MKVLYVSGEE--SLQQIKMR-AIRLGLPEPNLYVLSETNWEQIC  163 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhc----C---CcEEEEECcC--CHHHHHHH-HHHcCCChHHeEEcCCCCHHHHH
Confidence            4578899999999999999998776531    2   2578888754  34443221 2233211000  00111133344


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ..+.      ..++.+||||.+..+..
T Consensus       164 ~~i~------~~~~~~vVIDSIq~l~~  184 (454)
T TIGR00416       164 ANIE------EENPQACVIDSIQTLYS  184 (454)
T ss_pred             HHHH------hcCCcEEEEecchhhcc
Confidence            4443      34567999999998754

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)).

>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=96.80  E-value=0.0032  Score=62.55  Aligned_cols=69  Identities=17%  Similarity=0.230  Sum_probs=54.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccC--CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEE--KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~--~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      +.++|-++.++++..++..+..+.  ....+||.||+|+|||++++.+.+.+.+.        ..+...-|+...+|-.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y--------~~Y~l~~~Pm~e~PL~  131 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY--------PIYTLKGCPMHEEPLH  131 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE--------EEEEecCCccccChhh
Confidence            368999999999999999987654  35589999999999999999998888753        1344466666656544

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=96.80  E-value=0.0089  Score=68.36  Aligned_cols=106  Identities=15%  Similarity=0.106  Sum_probs=58.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ..+..+|.|++|||||++++.+...+..    .|.   .++-+ +...    ..-..|.+..+..         ...+..
T Consensus       396 ~~r~~~v~G~AGTGKTt~l~~~~~~~e~----~G~---~V~g~-ApTg----kAA~~L~e~~Gi~---------a~TIas  454 (1102)
T PRK13826        396 PARIAAVVGRAGAGKTTMMKAAREAWEA----AGY---RVVGG-ALAG----KAAEGLEKEAGIQ---------SRTLSS  454 (1102)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHH----cCC---eEEEE-cCcH----HHHHHHHHhhCCC---------eeeHHH
Confidence            3567899999999999999998876543    222   23322 2221    1112232222111         111222


Q ss_pred             HHHhh--hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          228 LYSQK--LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       228 ~~~~~--~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      ++...  ....-....||||||+-.+.   ...++.|+......+.++++||
T Consensus       455 ~ll~~~~~~~~l~~~~vlVIDEAsMv~---~~~m~~Ll~~~~~~garvVLVG  503 (1102)
T PRK13826        455 WELRWNQGRDQLDNKTVFVLDEAGMVA---SRQMALFVEAVTRAGAKLVLVG  503 (1102)
T ss_pred             HHhhhccCccCCCCCcEEEEECcccCC---HHHHHHHHHHHHhcCCEEEEEC
Confidence            21100  00112345799999998884   3556666666544567888887

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=96.77  E-value=0.051  Score=62.56  Aligned_cols=149  Identities=22%  Similarity=0.249  Sum_probs=84.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ...+++++||||+|||.++.--++.-.         .+.++++|-...++...+++.+.+...-...  +|..      .
T Consensus      1493 t~R~~i~cGppGSgK~mlM~~sLrs~~---------~~ev~~~Nfs~~t~T~s~ls~Ler~t~yy~~--tg~~------~ 1555 (3164)
T COG5245        1493 TLRSYIYCGPPGSGKEMLMCPSLRSEL---------ITEVKYFNFSTCTMTPSKLSVLERETEYYPN--TGVV------R 1555 (3164)
T ss_pred             ccceEEEECCCCCccchhcchhhhhhh---------heeeeEEeeccccCCHHHHHHHHhhceeecc--CCeE------E
Confidence            457899999999999998654433211         1579999998888777766666555421111  0100      0


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhccc----Cch---HHHHHhcc----CCC-----CCCcEEEEEEECCCCcchhh--c
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITR----DRA---VLHDLFML----TTF-----PFSRFILIGIANAIDLADRF--L  289 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~----~~~---~L~~l~~~----~~~-----~~~~v~lI~ian~~~~~~~l--~  289 (517)
                          ...+..-+..|||.|||. |...    .++   .|+.|++.    ...     .-.++++.|++|+..-+.+.  .
T Consensus      1556 ----l~PK~~vK~lVLFcDeIn-Lp~~~~y~~~~vI~FlR~l~e~QGfw~s~~~~wvTI~~i~l~Gacnp~td~gRv~~~ 1630 (3164)
T COG5245        1556 ----LYPKPVVKDLVLFCDEIN-LPYGFEYYPPTVIVFLRPLVERQGFWSSIAVSWVTICGIILYGACNPGTDEGRVKYY 1630 (3164)
T ss_pred             ----EccCcchhheEEEeeccC-CccccccCCCceEEeeHHHHHhcccccchhhhHhhhcceEEEccCCCCCCcccCccH
Confidence                012233456799999998 4322    122   13334332    111     22578999999976433332  2


Q ss_pred             ccccccCCCceEEEeCCC-CHHHHHHHHHHHHhh
Q 010136          290 PRLQSMNCKPLVVTFRAY-SKDQIIRILQERLME  322 (517)
Q Consensus       290 ~~l~sr~~~~~~i~f~p~-~~~e~~~IL~~rl~~  322 (517)
                      .|+.++    .++.|-.| ....+..|....+.+
T Consensus      1631 eRf~r~----~v~vf~~ype~~SL~~Iyea~l~~ 1660 (3164)
T COG5245        1631 ERFIRK----PVFVFCCYPELASLRNIYEAVLMG 1660 (3164)
T ss_pred             HHHhcC----ceEEEecCcchhhHHHHHHHHHHH
Confidence            344433    35555444 445666666655553

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.77  E-value=0.0014  Score=62.03  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+|.||||||||+++..++..+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCChHHHHHHHHHHh
Confidence            48999999999999988887776

>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=96.77  E-value=0.0029  Score=61.56  Aligned_cols=107  Identities=20%  Similarity=0.237  Sum_probs=46.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLY  229 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~  229 (517)
                      +-++|+|.||+|||++++.+.+.+.+.    +   ..++.++...+.            +...  .+.....++.++..+
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~----~---~~v~~i~~~~~~------------~~~~--~y~~~~~Ek~~R~~l   60 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEK----G---KEVVIISDDSLG------------IDRN--DYADSKKEKEARGSL   60 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHT----T-----EEEE-THHHH-------------TTS--SS--GGGHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhc----C---CEEEEEcccccc------------cchh--hhhchhhhHHHHHHH
Confidence            358899999999999999999888761    2   346666632210            0000  010111133333222


Q ss_pred             HhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC
Q 010136          230 SQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       230 ~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      ...+...-.+..|||+|...++-+-+ -.||.+-+.   .+...++|-+..+
T Consensus        61 ~s~v~r~ls~~~iVI~Dd~nYiKg~R-YelyclAr~---~~~~~c~i~~~~~  108 (270)
T PF08433_consen   61 KSAVERALSKDTIVILDDNNYIKGMR-YELYCLARA---YGTTFCVIYCDCP  108 (270)
T ss_dssp             HHHHHHHHTT-SEEEE-S---SHHHH-HHHHHHHHH---TT-EEEEEEEE--
T ss_pred             HHHHHHhhccCeEEEEeCCchHHHHH-HHHHHHHHH---cCCCEEEEEECCC
Confidence            22111111223688999998874332 224444433   3455666665654

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PF07034 ORC3_N: Origin recognition complex (ORC) subunit 3 N-terminus; InterPro: IPR020795 The Origin Recognition Complex (ORC) is a six-subunit ATP-dependent DNA-binding complex encoded in yeast by ORC1-6 []

Probab=96.76  E-value=0.07  Score=53.68  Aligned_cols=218  Identities=17%  Similarity=0.230  Sum_probs=132.3

Q ss_pred             HHHHHHHHHHHHhhccC---------------CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          131 DEQKKVLEFCKKNLEEE---------------KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~~---------------~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +.+++|.+|+.......               -+..+++.|+.=+.=..+...+...+.+.    .  ...++.++....
T Consensus        56 ~~f~~l~~Fi~~~~~~~~~~~~~~~~~~~~~~IPtA~lltGvN~~dh~~~F~~L~~~L~~~----~--~~~vv~L~S~dc  129 (330)
T PF07034_consen   56 KLFDDLVDFIRNSHSSDESSARDWASQMNSREIPTALLLTGVNIPDHDLLFEQLSERLQSS----V--GPYVVRLNSKDC  129 (330)
T ss_pred             HHHHHHHHHHHhhcCccccccccccccccccccchHHHHhCCCCccHHHHHHHHHHHHHhC----C--CcEEEEEecccc
Confidence            34556777776654322               23456777888777777888877777642    1  247889999999


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCC------------CCHHHHHHHHHHh------------hh--ccCCCceEEEEEeCcc
Q 010136          196 TNTSEIFSKILLKLQPRKKLNGS------------TSPLQYLQNLYSQ------------KL--HSSVMKMMLIIADELD  249 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~~~~~~~~------------~~~~~~l~~~~~~------------~~--~~~~~~~~vI~iDEiD  249 (517)
                      .+...+++.|..++.........            ....+.|...+..            ..  ......++||+|.+++
T Consensus       130 ~~lk~~lk~iv~ql~~~~~~~~~~~~~~~~~~~~~~yd~~~L~~wy~~~~~~~~~~~~~~~~~~~~~~~~~lVIi~eD~E  209 (330)
T PF07034_consen  130 SNLKSALKSIVRQLMSDKSDVDEDEEEEEKGQRRLNYDMDILAAWYQNNTKKNDSPSKQKNFSSSRDKSPPLVIIFEDFE  209 (330)
T ss_pred             hHHHHHHHHHHHHHHhcccccccccchhhcccCcCCCCHHHHHHHHHhhhccccchhhhcccccccccCCCEEEEEcccc
Confidence            89999999999998543322211            1124455555541            00  0122358999999999


Q ss_pred             hhcccCchHHHHHhccC---CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHH-HHHHHHh-hhc
Q 010136          250 YLITRDRAVLHDLFMLT---TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIR-ILQERLM-ELS  324 (517)
Q Consensus       250 ~L~~~~~~~L~~l~~~~---~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~-IL~~rl~-~~~  324 (517)
                      .+..   .+|..|+...   ...-.-+.|+|++++.++....+|+-..+.+..  -.|.-.+..++.+ |+...+- .-.
T Consensus       210 sF~~---~VL~dlI~ils~~~~~lP~vli~GiaTs~~~~~~~Lp~~~~~~L~~--~~F~~~~~~~~l~~v~~~~l~~~~~  284 (330)
T PF07034_consen  210 SFDS---QVLQDLILILSSYLDRLPFVLIFGIATSVEAFHSRLPRSTLSLLRI--KKFQLQSSSEILERVLEKVLLSPDF  284 (330)
T ss_pred             cCCH---HHHHHHHHHHHhccCCcCEEEEEecCCChHHHHhhCCHHHHhhcCc--eEEEeCChHHHHHHHHHHHhcCCCC
Confidence            9854   4444443321   112234667788888776666554444332533  3455555555544 4444432 111


Q ss_pred             cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 010136          325 YIVFQPQALELCARKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       325 ~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                      +-.+.+.+++.+..........+...+..++.|.+
T Consensus       285 ~~~l~~~~~~~L~~~f~~~~~Sv~~fi~~lk~~~m  319 (330)
T PF07034_consen  285 PFKLGPRVLQFLLDRFLDHDFSVDSFISGLKYAYM  319 (330)
T ss_pred             CceECHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            23678889999888777777777777777776653

ORC is a central component for eukaryotic DNA replication, and binds chromatin at replication origins throughout the cell cycle []. ORC directs DNA replication throughout the genome and is required for its initiation [, , ]. ORC bound at replication origins serves as the foundation for assembly of the pre-replicative complex (pre-RC), which includes Cdc6, Tah11 (aka Cdt1), and the Mcm2-7 complex [, , ]. Pre-RC assembly during G1 is required for replication licensing of chromosomes prior to DNA synthesis during S phase [, , ]. Cell cycle-regulated phosphorylation of Orc2, Orc6, Cdc6, and MCM by the cyclin-dependent protein kinase Cdc28 regulates initiation of DNA replication, including blocking reinitiation in G2/M phase [, , , ]. In yeast, ORC also plays a role in the establishment of silencing at the mating-type loci Hidden MAT Left (HML) and Hidden MAT Right (HMR) [, , ]. ORC participates in the assembly of transcriptionally silent chromatin at HML and HMR by recruiting the Sir1 silencing protein to the HML and HMR silencers [, , ]. Both Orc1 and Orc5 bind ATP, though only Orc1 has ATPase activity []. The binding of ATP by Orc1 is required for ORC binding to DNA and is essential for cell viability []. The ATPase activity of Orc1 is involved in formation of the pre-RC [, , ]. ATP binding by Orc5 is crucial for the stability of ORC as a whole. Only the Orc1-5 subunits are required for origin binding; Orc6 is essential for maintenance of pre-RCs once formed []. Interactions within ORC suggest that Orc2-3-6 may form a core complex []. ORC homologues have been found in various eukaryotes, including fission yeast, insects, amphibians, and humans []. ; GO: 0003677 DNA binding, 0006260 DNA replication, 0005664 nuclear origin of replication recognition complex

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=96.76  E-value=0.0024  Score=59.06  Aligned_cols=45  Identities=29%  Similarity=0.301  Sum_probs=33.1

Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCCC------------CCCcEEEEEEECCCCcc
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTTF------------PFSRFILIGIANAIDLA  285 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~~------------~~~~v~lI~ian~~~~~  285 (517)
                      .|+.|||++.+.....+.|..++.....            -....++||++|..++.
T Consensus        97 ~iveldEl~~~~k~~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L  153 (198)
T PF05272_consen   97 WIVELDELDGLSKKDVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFL  153 (198)
T ss_pred             HheeHHHHhhcchhhHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCccee
Confidence            6899999999987777888887755211            12468899999976643

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.76  E-value=0.0044  Score=61.57  Aligned_cols=90  Identities=16%  Similarity=0.112  Sum_probs=51.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC---CCCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK---LNGSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~---~~~~~~~~~~l  225 (517)
                      +..+.|+||||+|||+++..++......    +   -.++||++....++.     .+..++....   ........+.+
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~~----g---~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l  122 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQKL----G---GTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQAL  122 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc----C---CCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHH
Confidence            4467899999999999999988765432    2   257899886654432     2333321100   00111222222


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      + .+...  .......+||||-+-.|..
T Consensus       123 ~-i~~~l--i~s~~~~lIVIDSvaal~~  147 (325)
T cd00983         123 E-IADSL--VRSGAVDLIVVDSVAALVP  147 (325)
T ss_pred             H-HHHHH--HhccCCCEEEEcchHhhcc
Confidence            2 22211  1245678999999988864

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.76  E-value=0.0095  Score=57.01  Aligned_cols=49  Identities=16%  Similarity=0.277  Sum_probs=33.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      .+..++|+|+||+|||+++..++.+...    .|   -.++|++...  ++.++...+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~----~g---e~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ----MG---EPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHH----cC---CcEEEEEeeC--CHHHHHHHH
Confidence            3557999999999999999887655322    12   2478888654  455655543

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>PF13479 AAA_24: AAA domain

Probab=96.75  E-value=0.0036  Score=58.88  Aligned_cols=78  Identities=12%  Similarity=0.231  Sum_probs=43.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      +-.++|||+||+|||+++..+    .           ..+++++..-......+.      .... .  .....+.+.+.
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~----~-----------k~l~id~E~g~~~~~~~~------~~~~-i--~i~s~~~~~~~   58 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL----P-----------KPLFIDTENGSDSLKFLD------DGDV-I--PITSWEDFLEA   58 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC----C-----------CeEEEEeCCCccchhhhc------CCCe-e--CcCCHHHHHHH
Confidence            457999999999999999886    1           456666654321111100      0000 0  11124445554


Q ss_pred             HHhhhccCCCceEEEEEeCcchh
Q 010136          229 YSQKLHSSVMKMMLIIADELDYL  251 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L  251 (517)
                      +... .......-+||||-++.+
T Consensus        59 ~~~l-~~~~~~y~tiVIDsis~~   80 (213)
T PF13479_consen   59 LDEL-EEDEADYDTIVIDSISWL   80 (213)
T ss_pred             HHHH-HhccCCCCEEEEECHHHH
Confidence            4321 112445678999988886

>PRK07261 topology modulation protein; Provisional

Probab=96.75  E-value=0.004  Score=56.34  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|+|+||+||||+++.+++.+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999987664

>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=96.75  E-value=0.0012  Score=56.26  Aligned_cols=22  Identities=27%  Similarity=0.566  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      |+|.|+||+||||+++.+.+.+
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            6899999999999999999885

...

>cd01394 radB RadB

Probab=96.75  E-value=0.0065  Score=57.28  Aligned_cols=40  Identities=28%  Similarity=0.273  Sum_probs=30.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +..+.|+|+||+|||+++..++.++...    +   ..++|++....
T Consensus        19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~----g---~~v~yi~~e~~   58 (218)
T cd01394          19 GTVTQVYGPPGTGKTNIAIQLAVETAGQ----G---KKVAYIDTEGL   58 (218)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc----C---CeEEEEECCCC
Confidence            4468899999999999999998876431    2   35788876543

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

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.74  E-value=0.0089  Score=58.03  Aligned_cols=38  Identities=24%  Similarity=0.315  Sum_probs=27.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +..++|+|+||||||+++..++.....    .|.   .++|++..
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~a~----~Ge---~vlyis~E   73 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQAS----RGN---PVLFVTVE   73 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHh----CCC---cEEEEEec
Confidence            456889999999999999998765332    222   46777764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.73  E-value=0.039  Score=56.60  Aligned_cols=152  Identities=10%  Similarity=0.052  Sum_probs=71.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH-HHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE-IFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~-i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      +..++|+||+|+||||++..++..+...   .|   ..+..+++-....... .+...+..++....     . ...+..
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~---~G---~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~-----~-~~~~~~  290 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLH---MG---KSVSLYTTDNYRIAAIEQLKRYADTMGMPFY-----P-VKDIKK  290 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHh---cC---CeEEEecccchhhhHHHHHHHHHHhcCCCee-----e-hHHHHH
Confidence            3468899999999999999998765321   12   2466666655443221 12222223322110     0 111222


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCC-CCCcEEEEEEECC-CCcchhhcccccccCCCceEEE
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTF-PFSRFILIGIANA-IDLADRFLPRLQSMNCKPLVVT  303 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~-~~~~v~lI~ian~-~~~~~~l~~~l~sr~~~~~~i~  303 (517)
                      +... ..  ....-+|+||=.-......  -+.|..+++.... ....+.++.-++. .+-...+..+. +. ++...+.
T Consensus       291 l~~~-l~--~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f-~~-~~~~glI  365 (432)
T PRK12724        291 FKET-LA--RDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAY-ES-LNYRRIL  365 (432)
T ss_pred             HHHH-HH--hCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHh-cC-CCCCEEE
Confidence            2221 11  2344679999654432211  1234444433211 1223334332332 11112222333 22 5667889


Q ss_pred             eCCCCHHHHHHHHH
Q 010136          304 FRAYSKDQIIRILQ  317 (517)
Q Consensus       304 f~p~~~~e~~~IL~  317 (517)
                      |.-+|.....-.+-
T Consensus       366 lTKLDEt~~~G~il  379 (432)
T PRK12724        366 LTKLDEADFLGSFL  379 (432)
T ss_pred             EEcccCCCCccHHH
Confidence            98888765544333

>PRK13709 conjugal transfer nickase/helicase TraI; Provisional

Probab=96.73  E-value=0.0088  Score=71.51  Aligned_cols=108  Identities=14%  Similarity=0.133  Sum_probs=60.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      ...++|.|.||||||++++.+...+.......+.   .++-+ ++..    .....|. +.        |. ....|..+
T Consensus       984 dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~---~V~gl-APTg----rAAk~L~-e~--------Gi-~A~TI~s~ 1045 (1747)
T PRK13709        984 DRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERP---RVVGL-GPTH----RAVGEMR-SA--------GV-DAQTLASF 1045 (1747)
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCc---eEEEE-CCcH----HHHHHHH-hc--------Cc-chhhHHHH
Confidence            4689999999999999999998887543222221   22222 2221    1112221 11        11 13334444


Q ss_pred             HHhhh------ccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          229 YSQKL------HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       229 ~~~~~------~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +....      ........||||||+-.+..   ..++.|++.....+.++++||
T Consensus      1046 L~~~~~~~~~~~~~~~~~~llIVDEaSMv~~---~~m~~Ll~~~~~~garvVLVG 1097 (1747)
T PRK13709       1046 LHDTQLQQRSGETPDFSNTLFLLDESSMVGN---TDMARAYALIAAGGGRAVSSG 1097 (1747)
T ss_pred             hcccccccccccCCCCCCcEEEEEccccccH---HHHHHHHHhhhcCCCEEEEec
Confidence            43100      00112347999999988843   456666666544567888887

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

Probab=96.71  E-value=0.001  Score=58.07  Aligned_cols=22  Identities=36%  Similarity=0.769  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ++++|+||+||||+++.+++.+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            7899999999999999998764

...

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.71  E-value=0.018  Score=56.31  Aligned_cols=75  Identities=17%  Similarity=0.155  Sum_probs=45.6

Q ss_pred             HHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          113 VREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       113 ~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      .++.|..+-+|..+.+.++.           +.+ ..+..++|.|+||+|||+++..++..+...   .+   ..++|++
T Consensus         4 ~~~~~~~~~~~tg~~~Ld~~-----------~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~---~g---~~vl~iS   66 (271)
T cd01122           4 IREALSNEEVWWPFPVLNKL-----------TKGLRKGELIILTAGTGVGKTTFLREYALDLITQ---HG---VRVGTIS   66 (271)
T ss_pred             hhccccccCCCCCcceeeee-----------eEEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHh---cC---ceEEEEE
Confidence            44555555566555554441           112 235578899999999999999988765432   12   3577887


Q ss_pred             CCCCCCHHHHHHHHH
Q 010136          192 CTSLTNTSEIFSKIL  206 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~  206 (517)
                      ...  +...+...+.
T Consensus        67 ~E~--~~~~~~~r~~   79 (271)
T cd01122          67 LEE--PVVRTARRLL   79 (271)
T ss_pred             ccc--CHHHHHHHHH
Confidence            654  3344444443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>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=96.71  E-value=0.0016  Score=58.65  Aligned_cols=25  Identities=32%  Similarity=0.602  Sum_probs=22.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +++|+|+||+||||+++.+++.+..
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhc
Confidence            5899999999999999999999864

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.67  E-value=0.0048  Score=61.52  Aligned_cols=37  Identities=16%  Similarity=0.370  Sum_probs=30.0

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+|..++.  ...+++|+|++|+||||++++++..+.
T Consensus       133 ~~~~l~~~v~--~~~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       133 IKEFLRLAIA--SRKNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             HHHHHHHHhh--CCCEEEEECCCCCCHHHHHHHHHccCC
Confidence            4556666665  457999999999999999999987764

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.66  E-value=0.0036  Score=58.55  Aligned_cols=55  Identities=16%  Similarity=0.213  Sum_probs=34.1

Q ss_pred             CCceEEEEEeCcchhccc-CchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccc
Q 010136          237 VMKMMLIIADELDYLITR-DRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRL  292 (517)
Q Consensus       237 ~~~~~vI~iDEiD~L~~~-~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l  292 (517)
                      ...|.+|++||.=....- .|..+.+++.... ...++.+|.|+.++.+.+.+-.|+
T Consensus       157 ~~~PklLIlDEptSaLD~siQa~IlnlL~~l~-~~~~lt~l~IsHdl~~v~~~cdRi  212 (252)
T COG1124         157 IPEPKLLILDEPTSALDVSVQAQILNLLLELK-KERGLTYLFISHDLALVEHMCDRI  212 (252)
T ss_pred             ccCCCEEEecCchhhhcHHHHHHHHHHHHHHH-HhcCceEEEEeCcHHHHHHHhhhe
Confidence            346789999998665443 3444444443321 235678888899877666655443

>PRK14709 hypothetical protein; Provisional

Probab=96.64  E-value=0.28  Score=51.70  Aligned_cols=48  Identities=21%  Similarity=0.356  Sum_probs=34.7

Q ss_pred             CcHHHHHHHHHHHHHhhccCCC--CeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          128 CREDEQKKVLEFCKKNLEEEKA--GSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~~~~--~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      |-++.+.-|.+++.-++.+...  ..++++|+-|.|||++++.+..-++.
T Consensus       182 gD~e~~~~lq~~lGy~L~g~~~~q~~~~l~G~G~NGKSt~~~~i~~llG~  231 (469)
T PRK14709        182 GDDELIRFLQQWCGYCLTGDTREHALVFVFGGGGNGKSVFLNVLAGILGD  231 (469)
T ss_pred             CCHHHHHHHHHHhhHhhcCCCccceEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3344555566667666665432  34778999999999999998888775

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.63  E-value=0.0019  Score=58.31  Aligned_cols=27  Identities=26%  Similarity=0.258  Sum_probs=24.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|+|+||+|||++++.+++.++
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            456899999999999999999998874

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.62  E-value=0.00094  Score=62.78  Aligned_cols=24  Identities=21%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ++.++|+||.|+|||++++.++..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~   52 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALI   52 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHH
Confidence            367999999999999999999843

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

>PRK13808 adenylate kinase; Provisional

Probab=96.60  E-value=0.0064  Score=60.55  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .|+|+||||+|||++++.+++.+
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~y   24 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQY   24 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998765

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.58  E-value=0.024  Score=57.34  Aligned_cols=150  Identities=11%  Similarity=0.102  Sum_probs=80.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ..+.+.|.||.|+||||++-.++..+.-.   .+-.++.++..++.......++ ..-++-++.+...  -.+ .+.|..
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~---~~~~kVaiITtDtYRIGA~EQL-k~Ya~im~vp~~v--v~~-~~el~~  274 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVML---KKKKKVAIITTDTYRIGAVEQL-KTYADIMGVPLEV--VYS-PKELAE  274 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhh---ccCcceEEEEeccchhhHHHHH-HHHHHHhCCceEE--ecC-HHHHHH
Confidence            47789999999999999998888776621   1223356777777766554442 2223333322211  112 333444


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECC--CCcchhhcccccccCCCceEEE
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANA--IDLADRFLPRLQSMNCKPLVVT  303 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~--~~~~~~l~~~l~sr~~~~~~i~  303 (517)
                      .+..     -...-+|++|=+-+=..+.  -..|..+++...  ...+.++..+|+  .|+. .+.++...  +...-+.
T Consensus       275 ai~~-----l~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~--~i~~~Lvlsat~K~~dlk-ei~~~f~~--~~i~~~I  344 (407)
T COG1419         275 AIEA-----LRDCDVILVDTAGRSQYDKEKIEELKELIDVSH--SIEVYLVLSATTKYEDLK-EIIKQFSL--FPIDGLI  344 (407)
T ss_pred             HHHH-----hhcCCEEEEeCCCCCccCHHHHHHHHHHHhccc--cceEEEEEecCcchHHHH-HHHHHhcc--CCcceeE
Confidence            4431     1122688899765432221  134666666552  233333333332  2322 23344433  5557788


Q ss_pred             eCCCCHHHHHH
Q 010136          304 FRAYSKDQIIR  314 (517)
Q Consensus       304 f~p~~~~e~~~  314 (517)
                      |.-+|.....-
T Consensus       345 ~TKlDET~s~G  355 (407)
T COG1419         345 FTKLDETTSLG  355 (407)
T ss_pred             EEcccccCchh
Confidence            88887755443

>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=96.56  E-value=0.0025  Score=48.19  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +.|.|+||+|||++++.+.+.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999998887

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.55  E-value=0.007  Score=55.43  Aligned_cols=25  Identities=28%  Similarity=0.585  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+.++|.|+||+||||+++.+++.+
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578899999999999999998765

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.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.53  E-value=0.0035  Score=60.35  Aligned_cols=53  Identities=26%  Similarity=0.410  Sum_probs=36.8

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      .+|..++..++--  +...+.. +.....+-+|++||.|+||||++-++.+.++..
T Consensus       100 ~Ip~~i~~~e~Lg--lP~i~~~-~~~~~~GLILVTGpTGSGKSTTlAamId~iN~~  152 (353)
T COG2805         100 LIPSKIPTLEELG--LPPIVRE-LAESPRGLILVTGPTGSGKSTTLAAMIDYINKH  152 (353)
T ss_pred             ccCccCCCHHHcC--CCHHHHH-HHhCCCceEEEeCCCCCcHHHHHHHHHHHHhcc
Confidence            3555555544422  3344444 333567889999999999999999999998764

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.53  E-value=0.022  Score=50.50  Aligned_cols=121  Identities=14%  Similarity=0.108  Sum_probs=59.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE---EeCCCCCCHHHHHHHHHHHhC----CCCCCCCCCCHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS---INCTSLTNTSEIFSKILLKLQ----PRKKLNGSTSPL  222 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~---vn~~~~~s~~~i~~~i~~~l~----~~~~~~~~~~~~  222 (517)
                      +-+.||+.+|.|||++|-.++-....    .|.   ++..   +-+........++..+- .+.    +...........
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~----~g~---~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~   74 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALG----HGY---RVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDE   74 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH----CCC---eEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChH
Confidence            56889999999999999888755432    233   3444   33332334444444431 110    000000001111


Q ss_pred             H---HHHHHHHh-hhccCCCceEEEEEeCcchhcccC---chHHHHHhccCCCCCCcEEEEEEECC
Q 010136          223 Q---YLQNLYSQ-KLHSSVMKMMLIIADELDYLITRD---RAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       223 ~---~l~~~~~~-~~~~~~~~~~vI~iDEiD~L~~~~---~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                      +   ..++.+.. .........-+|||||+-......   .+.+.++++..   ...+-||.+.+.
T Consensus        75 ~~~~~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~r---p~~~evIlTGr~  137 (159)
T cd00561          75 EDIAAAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAK---PEDLELVLTGRN  137 (159)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcC---CCCCEEEEECCC
Confidence            1   11112211 001124566799999998886543   34455555432   234445554554

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.52  E-value=0.01  Score=57.71  Aligned_cols=27  Identities=26%  Similarity=0.370  Sum_probs=23.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.++|+|++|+||||++++++..+.
T Consensus        79 ~~GlilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          79 PHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence            456899999999999999999988764

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.51  E-value=0.004  Score=63.06  Aligned_cols=27  Identities=30%  Similarity=0.548  Sum_probs=24.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.++|+||+|+||||++++++..+.
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            468899999999999999999988764

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.51  E-value=0.02  Score=54.43  Aligned_cols=40  Identities=23%  Similarity=0.249  Sum_probs=29.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+..++|.|+||+|||+++..++.....    .+   -.++|++...
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~----~g---~~~~~is~e~   58 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGLR----DG---DPVIYVTTEE   58 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHh----cC---CeEEEEEccC
Confidence            3567899999999999999988764332    12   2578887643

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=96.50  E-value=0.037  Score=61.72  Aligned_cols=155  Identities=12%  Similarity=0.167  Sum_probs=77.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCC---------
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGST---------  219 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~---------  219 (517)
                      ...++|.|++|+||||-+-.++-+.+-     +.  -..+.+.-+.-.....+-..++++++.......|.         
T Consensus        65 ~~vvii~getGsGKTTqlP~~lle~g~-----~~--~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRfe~~~s  137 (845)
T COG1643          65 NQVVIIVGETGSGKTTQLPQFLLEEGL-----GI--AGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVS  137 (845)
T ss_pred             CCEEEEeCCCCCChHHHHHHHHHhhhc-----cc--CCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEeeccCC
Confidence            578999999999999999888755431     00  01222222222233456677778876543211110         


Q ss_pred             --------CHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhcc--CCCC-CCcEEEEEEECCCC---cc
Q 010136          220 --------SPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFML--TTFP-FSRFILIGIANAID---LA  285 (517)
Q Consensus       220 --------~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~--~~~~-~~~v~lI~ian~~~---~~  285 (517)
                              ...-.++.+..+..   -.+..+|+|||+|.=.-.. +.+..++..  .... .-++++.  +-++|   |.
T Consensus       138 ~~Trik~mTdGiLlrei~~D~~---Ls~ys~vIiDEaHERSl~t-DilLgllk~~~~~rr~DLKiIim--SATld~~rfs  211 (845)
T COG1643         138 PRTRIKVMTDGILLREIQNDPL---LSGYSVVIIDEAHERSLNT-DILLGLLKDLLARRRDDLKLIIM--SATLDAERFS  211 (845)
T ss_pred             CCceeEEeccHHHHHHHhhCcc---cccCCEEEEcchhhhhHHH-HHHHHHHHHHHhhcCCCceEEEE--ecccCHHHHH
Confidence                    11234444443222   3456799999998643322 333333222  1122 2455554  44443   33


Q ss_pred             hhhc--c--cccccCCCceEEEe-CCCCHHH-HHHHHH
Q 010136          286 DRFL--P--RLQSMNCKPLVVTF-RAYSKDQ-IIRILQ  317 (517)
Q Consensus       286 ~~l~--~--~l~sr~~~~~~i~f-~p~~~~e-~~~IL~  317 (517)
                      ..+.  |  .+-.| -.+..|.| ++...++ +.+-+.
T Consensus       212 ~~f~~apvi~i~GR-~fPVei~Y~~~~~~d~~l~~ai~  248 (845)
T COG1643         212 AYFGNAPVIEIEGR-TYPVEIRYLPEAEADYILLDAIV  248 (845)
T ss_pred             HHcCCCCEEEecCC-ccceEEEecCCCCcchhHHHHHH
Confidence            3332  1  22234 45678888 4444444 433333

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.49  E-value=0.023  Score=54.45  Aligned_cols=50  Identities=12%  Similarity=0.272  Sum_probs=34.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL  206 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~  206 (517)
                      +..++|.|+||+|||+++..++..+...   .+   ..++|+++..  ++..+...+.
T Consensus        13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~---~g---~~vly~s~E~--~~~~~~~r~~   62 (242)
T cd00984          13 GDLIIIAARPSMGKTAFALNIAENIAKK---QG---KPVLFFSLEM--SKEQLLQRLL   62 (242)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHh---CC---CceEEEeCCC--CHHHHHHHHH
Confidence            4478899999999999999987665432   12   3578888655  3445544443

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.49  E-value=0.0021  Score=58.76  Aligned_cols=22  Identities=32%  Similarity=0.653  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ++|+|+||+||||+++.+++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998875

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.

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=96.49  E-value=0.055  Score=47.80  Aligned_cols=134  Identities=12%  Similarity=0.151  Sum_probs=74.1

Q ss_pred             EEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC--HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 010136          153 YVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN--TSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYS  230 (517)
Q Consensus       153 li~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s--~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~  230 (517)
                      +=.+.+||||||++.++.+.+++|           -+|..-....  +..+...+.+.                    +.
T Consensus         3 vPIAtiGCGKTTva~aL~~LFg~w-----------gHvQnDnI~~k~~~~f~~~~l~~--------------------L~   51 (168)
T PF08303_consen    3 VPIATIGCGKTTVALALSNLFGEW-----------GHVQNDNITGKRKPKFIKAVLEL--------------------LA   51 (168)
T ss_pred             eeecCCCcCHHHHHHHHHHHcCCC-----------CccccCCCCCCCHHHHHHHHHHH--------------------Hh
Confidence            346899999999999988776432           2233333322  33332222222                    21


Q ss_pred             hhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--C-CCCcEEEEEEECCCC-cch---h-hcccccccCCCceEE
Q 010136          231 QKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--F-PFSRFILIGIANAID-LAD---R-FLPRLQSMNCKPLVV  302 (517)
Q Consensus       231 ~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--~-~~~~v~lI~ian~~~-~~~---~-l~~~l~sr~~~~~~i  302 (517)
                            .....++|+|==.++...+++.+..+-....  . ....+-+|++.=..+ ..+   + ...|+..|+-..+.|
T Consensus        52 ------~~~~~vViaDRNNh~~reR~ql~~~~~~~~~~yl~~~~~~r~VaL~fv~~~~~~~i~~it~~RV~~RGDNHQTi  125 (168)
T PF08303_consen   52 ------KDTHPVVIADRNNHQKRERKQLFEDVSQLKPDYLPYDTNVRFVALNFVHDDDLDEIRRITQDRVLARGDNHQTI  125 (168)
T ss_pred             ------hCCCCEEEEeCCCchHHHHHHHHHHHHHhcccccccCCCeEEEEEEccCCCCHHHHHHHHHHHHHhcCcCccee
Confidence                  2334688999777765544444333322211  1 123444555432211 111   1 246777775455788


Q ss_pred             EeCCCCHHHHHHHHHHHHhhh
Q 010136          303 TFRAYSKDQIIRILQERLMEL  323 (517)
Q Consensus       303 ~f~p~~~~e~~~IL~~rl~~~  323 (517)
                      ....++......|+..-+..+
T Consensus       126 ka~~~~~~~~~~Im~gFi~rf  146 (168)
T PF08303_consen  126 KADSKDEKKVEGIMEGFIKRF  146 (168)
T ss_pred             ecCCCCHHHHHHHHHHHHHhc
Confidence            888888888888888777654

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

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

Probab=96.46  E-value=0.018  Score=54.51  Aligned_cols=101  Identities=12%  Similarity=0.065  Sum_probs=54.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC-------CCCCCCH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK-------LNGSTSP  221 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~-------~~~~~~~  221 (517)
                      +..+.|+|+||+|||+++..++....... ..+-....++|+++.....+.. +..+...+.....       ...... 
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~-~~~g~~~~v~yi~~e~~~~~~r-l~~~~~~~~~~~~~~~~~i~~~~~~~-   95 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPG-ELGGLEGKVVYIDTEGAFRPER-LVQLAVRFGLDPEEVLDNIYVARPYN-   95 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhccc-ccCCCcceEEEEecCCCCCHHH-HHHHHHHhccchhhhhccEEEEeCCC-
Confidence            45788999999999999999877653211 0001113688999876444433 3344444321100       000111 


Q ss_pred             HHHHHHHHHhhh-ccCCCceEEEEEeCcchhc
Q 010136          222 LQYLQNLYSQKL-HSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       222 ~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~  252 (517)
                      .+.+...+.... ........+||||-+..+.
T Consensus        96 ~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~  127 (226)
T cd01393          96 GEQQLEIVEELERIMSSGRVDLVVVDSVAALF  127 (226)
T ss_pred             HHHHHHHHHHHHHHhhcCCeeEEEEcCcchhh
Confidence            222333333210 0124467799999998774

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.

>PRK03839 putative kinase; Provisional

Probab=96.45  E-value=0.0026  Score=58.02  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.|+||+||||+++.+++.++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999988863

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.45  E-value=0.002  Score=57.07  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+.|+|.|||||||+++.+. .+
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~l   23 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-EL   23 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-Hh
Confidence            57899999999999999987 54

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.45  E-value=0.026  Score=55.14  Aligned_cols=43  Identities=21%  Similarity=0.354  Sum_probs=31.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      .+..+.|+|++|+||||++..++..+...    +   ..+..+++-.+..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~----g---~~V~li~~D~~r~  113 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQ----G---KSVLLAAGDTFRA  113 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc----C---CEEEEEeCCCCCH
Confidence            35678899999999999999999877532    2   2566677665543

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK00625 shikimate kinase; Provisional

Probab=96.44  E-value=0.0027  Score=57.47  Aligned_cols=24  Identities=25%  Similarity=0.653  Sum_probs=22.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +++|+|.||+|||++++.+++.++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999988864

>PRK06547 hypothetical protein; Provisional

Probab=96.44  E-value=0.0045  Score=56.03  Aligned_cols=30  Identities=17%  Similarity=0.145  Sum_probs=25.1

Q ss_pred             hccCCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          144 LEEEKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       144 l~~~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +....+..+.|.|++|+|||++++.+++.+
T Consensus        10 ~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         10 LCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            334567788899999999999999998774

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.41  E-value=0.11  Score=51.98  Aligned_cols=40  Identities=23%  Similarity=0.341  Sum_probs=29.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +..+.|.||+|+||||++..++..+...    +   ..+..+.+...
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~----g---~~V~Li~~D~~  153 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHKYKAQ----G---KKVLLAAGDTF  153 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhc----C---CeEEEEecCcc
Confidence            5578899999999999999999887532    2   24555665443

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=96.40  E-value=0.018  Score=51.59  Aligned_cols=22  Identities=18%  Similarity=0.309  Sum_probs=18.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +.++++.||+|+|||+.+...+
T Consensus        14 ~~~~li~aptGsGKT~~~~~~~   35 (169)
T PF00270_consen   14 GKNVLISAPTGSGKTLAYILPA   35 (169)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCEEEECCCCCccHHHHHHHH
Confidence            4679999999999999988544

Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....

>PRK04328 hypothetical protein; Provisional

Probab=96.38  E-value=0.029  Score=54.09  Aligned_cols=46  Identities=17%  Similarity=0.250  Sum_probs=31.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+..++|+|+||+|||+++..++.+-..    .|.   ..+|++...  ++..+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~----~ge---~~lyis~ee--~~~~i~   67 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ----MGE---PGVYVALEE--HPVQVR   67 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh----cCC---cEEEEEeeC--CHHHHH
Confidence            3567899999999999999887655322    122   467887655  445543

>PRK09354 recA recombinase A; Provisional

Probab=96.38  E-value=0.009  Score=59.89  Aligned_cols=90  Identities=14%  Similarity=0.081  Sum_probs=52.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC---CCCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK---LNGSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~---~~~~~~~~~~l  225 (517)
                      +..+.|+||||||||+++..++.+....    |   -.++||++....++.     .+..++....   ........+.+
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~~~----G---~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l  127 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQKA----G---GTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQAL  127 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc----C---CcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHH
Confidence            4467899999999999999987665432    2   257899987755542     2333322110   00111222222


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      . .+...  .......+||||-+-.|..
T Consensus       128 ~-i~~~l--i~s~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        128 E-IADTL--VRSGAVDLIVVDSVAALVP  152 (349)
T ss_pred             H-HHHHH--hhcCCCCEEEEeChhhhcc
Confidence            2 22211  1245678999999998864

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=96.36  E-value=0.021  Score=70.07  Aligned_cols=109  Identities=19%  Similarity=0.198  Sum_probs=61.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      ....++|.|.+|||||++++.+.+.+.......+.   .++-+ ++.    ......|. ..        |.. ...+..
T Consensus      1035 ~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~---~v~gl-ApT----~~Aa~~L~-~~--------g~~-a~Ti~s 1096 (1960)
T TIGR02760      1035 KDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQL---QVIGL-APT----HEAVGELK-SA--------GVQ-AQTLDS 1096 (1960)
T ss_pred             CCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCC---eEEEE-eCh----HHHHHHHH-hc--------CCc-hHhHHH
Confidence            34678899999999999997766655443333332   33333 222    11112221 11        111 334444


Q ss_pred             HHHhh----hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          228 LYSQK----LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       228 ~~~~~----~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      ++...    .........||||||+-.+..   ..+..|++.....+.++++||
T Consensus      1097 ~l~~~~~~~~~~~~~~~~v~ivDEasMv~~---~~~~~l~~~~~~~~ak~vlvG 1147 (1960)
T TIGR02760      1097 FLTDISLYRNSGGDFRNTLFILDESSMVSN---FQLTHATELVQKSGSRAVSLG 1147 (1960)
T ss_pred             HhcCcccccccCCCCcccEEEEEccccccH---HHHHHHHHhccCCCCEEEEeC
Confidence            44210    011133457999999988743   556666665545668888887

This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.35  E-value=0.021  Score=51.51  Aligned_cols=86  Identities=20%  Similarity=0.185  Sum_probs=47.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHh
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ  231 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~  231 (517)
                      ++|+|++|+|||+++..++...       +   -+++|+....-.+ .++-..|..........+........|.+.+.+
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~-------~---~~~~y~at~~~~d-~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~   70 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL-------G---GPVTYIATAEAFD-DEMAERIARHRKRRPAHWRTIETPRDLVSALKE   70 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-------C---CCeEEEEccCcCC-HHHHHHHHHHHHhCCCCceEeecHHHHHHHHHh
Confidence            6899999999999999987551       1   1467776554332 233333333221111112222223445555541


Q ss_pred             hhccCCCceEEEEEeCcchhcc
Q 010136          232 KLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       232 ~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                           ...+.+|+||-+..+..
T Consensus        71 -----~~~~~~VLIDclt~~~~   87 (169)
T cd00544          71 -----LDPGDVVLIDCLTLWVT   87 (169)
T ss_pred             -----cCCCCEEEEEcHhHHHH
Confidence                 11345899998776643

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.33  E-value=0.0037  Score=56.80  Aligned_cols=26  Identities=23%  Similarity=0.265  Sum_probs=22.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|+|+||+||||+++.+++.+.
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            45789999999999999999987753

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK10646 ADP-binding protein; Provisional

Probab=96.32  E-value=0.011  Score=52.06  Aligned_cols=45  Identities=20%  Similarity=0.151  Sum_probs=37.4

Q ss_pred             CcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          128 CREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .-+++..++...|...+.  .+..+++.|.=|+|||++++.+++.++
T Consensus         9 ~s~~~t~~l~~~la~~l~--~g~vi~L~GdLGaGKTtf~rgl~~~Lg   53 (153)
T PRK10646          9 PDEQATLDLGARVAKACD--GATVIYLYGDLGAGKTTFSRGFLQALG   53 (153)
T ss_pred             CCHHHHHHHHHHHHHhCC--CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            345677788888887775  345789999999999999999999986

>PRK14531 adenylate kinase; Provisional

Probab=96.30  E-value=0.0033  Score=57.64  Aligned_cols=24  Identities=25%  Similarity=0.353  Sum_probs=21.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..++|+|+||+||||+++.+++.+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999998875

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=96.29  E-value=0.033  Score=68.36  Aligned_cols=113  Identities=18%  Similarity=0.160  Sum_probs=59.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC-------CCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN-------GSTS  220 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~-------~~~~  220 (517)
                      .....+|.|+||||||++++.+...+...    |.   .++ +-++....    -..|.+..+......       ....
T Consensus       445 ~~~v~ii~G~aGTGKTt~l~~l~~~~~~~----G~---~V~-~lAPTgrA----A~~L~e~~g~~A~Ti~~~l~~l~~~~  512 (1960)
T TIGR02760       445 TKRFIIINGFGGTGSTEIAQLLLHLASEQ----GY---EIQ-IITAGSLS----AQELRQKIPRLASTFITWVKNLFNDD  512 (1960)
T ss_pred             CCCeEEEEECCCCCHHHHHHHHHHHHHhc----CC---eEE-EEeCCHHH----HHHHHHHhcchhhhHHHHHHhhcccc
Confidence            45789999999999999999998776542    32   233 33333211    122222221110000       0000


Q ss_pred             HHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          221 PLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       221 ~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      ....+..++..  .......-||||||+-.+.   ...+..|++.....+.+|++||
T Consensus       513 ~~~tv~~fl~~--~~~l~~~~vlIVDEAsMl~---~~~~~~Ll~~a~~~garvVlvG  564 (1960)
T TIGR02760       513 QDHTVQGLLDK--SSPFSNKDIFVVDEANKLS---NNELLKLIDKAEQHNSKLILLN  564 (1960)
T ss_pred             cchhHHHhhcc--cCCCCCCCEEEEECCCCCC---HHHHHHHHHHHhhcCCEEEEEc
Confidence            00111111110  0011244699999999884   4567777776555667888877

This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.

>PRK07078 hypothetical protein; Validated

Probab=96.29  E-value=0.89  Score=50.76  Aligned_cols=56  Identities=14%  Similarity=0.126  Sum_probs=40.6

Q ss_pred             CCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-cCC-c-eeEEEeecCH
Q 010136          441 KDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-RDD-K-LKRVTLKADE  499 (517)
Q Consensus       441 ~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-~~~-~-~~~~~l~~~~  499 (517)
                      ..++..+||+.|+..|+..+..+.+...|..   .|...|+-... ..| + ++=|.|...+
T Consensus       691 ~~~~~~~LY~~Y~~wc~~~G~~~~s~k~F~~---~L~~~Gf~~~r~~~g~~~~~Gi~L~~~~  749 (759)
T PRK07078        691 AKELTAELFNDWKEWAERAGEFVGSQKRFSD---LLATRGFEKWRLTGGLRGFRGIGLKPKP  749 (759)
T ss_pred             CceeHHHHHHHHHHHHHHcCCCCCCHHHHHH---HHHhcCCceeeccCCcEEEeceEEeccc
Confidence            4568999999999999999999999998887   55566876543 222 2 3345665444

>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=96.28  E-value=0.0043  Score=60.66  Aligned_cols=50  Identities=14%  Similarity=0.297  Sum_probs=38.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +.+.-.....+.+.++|...+.  ..++++|+|++|+||||++++++..+..
T Consensus       104 e~l~~~~~~~~~~~~~l~~~v~--~~~~ili~G~tGSGKTT~l~all~~i~~  153 (270)
T PF00437_consen  104 EDLGESGSIPEEIAEFLRSAVR--GRGNILISGPTGSGKTTLLNALLEEIPP  153 (270)
T ss_dssp             CCCCHTHHCHHHHHHHHHHCHH--TTEEEEEEESTTSSHHHHHHHHHHHCHT
T ss_pred             hhccCchhhHHHHHHHHhhccc--cceEEEEECCCccccchHHHHHhhhccc
Confidence            3455555555667777777654  5689999999999999999999888764

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 ....

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.28  E-value=0.0082  Score=57.13  Aligned_cols=47  Identities=26%  Similarity=0.317  Sum_probs=33.4

Q ss_pred             cHHHHHHHHHHHHH----hhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKK----NLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       129 Re~e~~~l~~~L~~----~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      |+++.+.+...|..    +... ..+..+.|.|++|+||||+++.++..+..
T Consensus         8 ~~~~~~~~~~~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270          8 RDEEIEAVHKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             ChHhHHHHHHHHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            55555555555444    3333 33456789999999999999999988875

>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=96.27  E-value=0.0036  Score=55.28  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=21.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +++|+|+||+|||++++.+++.++
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999988763

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.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.26  E-value=0.0051  Score=61.74  Aligned_cols=38  Identities=18%  Similarity=0.272  Sum_probs=31.5

Q ss_pred             HHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          135 KVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       135 ~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+|..++.  ...+++|+|++|+||||++++++..+.
T Consensus       148 ~~~~~L~~~v~--~~~nili~G~tgSGKTTll~aL~~~ip  185 (332)
T PRK13900        148 KIKEFLEHAVI--SKKNIIISGGTSTGKTTFTNAALREIP  185 (332)
T ss_pred             HHHHHHHHHHH--cCCcEEEECCCCCCHHHHHHHHHhhCC
Confidence            35667776665  568999999999999999999988775

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.25  E-value=0.0068  Score=60.39  Aligned_cols=37  Identities=16%  Similarity=0.273  Sum_probs=29.5

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...+|..++.  ...+++|+|++|+||||++++++..+.
T Consensus       133 ~~~~L~~~v~--~~~nilI~G~tGSGKTTll~aL~~~i~  169 (323)
T PRK13833        133 QASVIRSAID--SRLNIVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             HHHHHHHHHH--cCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence            3455666665  346899999999999999999988764

>PRK13947 shikimate kinase; Provisional

Probab=96.23  E-value=0.0034  Score=56.67  Aligned_cols=25  Identities=28%  Similarity=0.376  Sum_probs=22.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+++|.|+||+|||++++.+++.++
T Consensus         2 ~~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            3699999999999999999998874

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.23  E-value=0.14  Score=51.86  Aligned_cols=93  Identities=19%  Similarity=0.120  Sum_probs=52.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH-HHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT-SEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      .+..++|+||.|+||||++..++..+...    +   ..+..+++-..... ..-+....+.++....  .... ...+.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~----g---~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~d-p~dL~  274 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ----N---RTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATS-PAELE  274 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCC-HHHHH
Confidence            35678999999999999999998776432    2   25667777665442 1223333333332211  1122 33444


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      ..+...  ......-+||||=+-...
T Consensus       275 ~al~~l--~~~~~~D~VLIDTAGr~~  298 (407)
T PRK12726        275 EAVQYM--TYVNCVDHILIDTVGRNY  298 (407)
T ss_pred             HHHHHH--HhcCCCCEEEEECCCCCc
Confidence            444321  111234688999876654

>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=96.23  E-value=0.0052  Score=54.28  Aligned_cols=38  Identities=18%  Similarity=0.373  Sum_probs=29.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +..++|+|.||+||||+++++.+.|...    +   ..++++++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~----g---~~~~~LDgD   39 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFAR----G---IKVYLLDGD   39 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHT----T---S-EEEEEHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHc----C---CcEEEecCc
Confidence            4568999999999999999999998763    2   357777753

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 ....

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.23  E-value=0.0067  Score=55.74  Aligned_cols=37  Identities=14%  Similarity=0.314  Sum_probs=29.5

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+|..++.  .+.+++|.|++|+||||++++++..+.
T Consensus        14 ~~~~l~~~v~--~g~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          14 QAAYLWLAVE--ARKNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             HHHHHHHHHh--CCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            4555665555  467899999999999999999987664

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=96.21  E-value=0.0081  Score=64.77  Aligned_cols=63  Identities=13%  Similarity=0.157  Sum_probs=50.4

Q ss_pred             HHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          111 SAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       111 ~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ...++.|.....|...+-|.+..+.|.++...-.  ..+..++|+|.||+||||+++.++..+..
T Consensus       356 t~ir~~l~~G~~pP~~f~rpeV~~iL~~~~~~r~--~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        356 TELRRRLREGLEIPEWFSFPEVVAELRRTYPPRH--KQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             HHHHHHHHCCCCCChhhcHHHHHHHHHHHhcccc--CCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            4566788889999999999988776666654432  24558999999999999999999998864

>PRK06762 hypothetical protein; Provisional

Probab=96.20  E-value=0.0044  Score=55.70  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..++|+|+||+||||+++.+++.+
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998876

>PRK04040 adenylate kinase; Provisional

Probab=96.20  E-value=0.0042  Score=57.15  Aligned_cols=25  Identities=32%  Similarity=0.498  Sum_probs=22.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|+|+||+||||+++.+++.+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            4689999999999999999988874

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.20  E-value=0.0074  Score=59.77  Aligned_cols=38  Identities=13%  Similarity=0.228  Sum_probs=30.2

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ...+|..++.  ...+++|+|++|+||||++++++..+..
T Consensus       121 ~~~~L~~~v~--~~~~ilI~G~tGSGKTTll~al~~~i~~  158 (299)
T TIGR02782       121 QRDVLREAVL--ARKNILVVGGTGSGKTTLANALLAEIAK  158 (299)
T ss_pred             HHHHHHHHHH--cCCeEEEECCCCCCHHHHHHHHHHHhhc
Confidence            3455666665  4578999999999999999999987753

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.

>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.19  E-value=0.038  Score=59.97  Aligned_cols=141  Identities=21%  Similarity=0.175  Sum_probs=92.0

Q ss_pred             eEEEEEeCcchhcccC-chHHHHHhcc-----CC------------CCCCcEEEEEEECCCCcchhhccccccc--CCCc
Q 010136          240 MMLIIADELDYLITRD-RAVLHDLFML-----TT------------FPFSRFILIGIANAIDLADRFLPRLQSM--NCKP  299 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~-~~~L~~l~~~-----~~------------~~~~~v~lI~ian~~~~~~~l~~~l~sr--~~~~  299 (517)
                      .-||||||+..|.... +..|..+.+-     ..            .-...+.+|++.|..++ ..+.+...+|  +++.
T Consensus       226 gGVLiIdei~lL~~~~~w~~LKa~~~k~~~~~~~~~~s~~~~v~~e~vP~d~klI~~Gn~~~l-~~l~~~~~~r~~g~~y  304 (647)
T COG1067         226 GGVLIIDEIGLLAQPLQWKLLKALLDKEQPIWGSSEPSSGAPVRPESVPLDLKLILAGNREDL-EDLHEPDRSRIEGFGY  304 (647)
T ss_pred             CcEEEEEhhhhhCcHHHHHHHHHHHhccccccCcCccccCcccCCCCcccceEEEeeCCHHHH-HhhcccCHHHHhhcce
Confidence            3599999999997543 3444444433     11            11246777776664332 3344555554  2221


Q ss_pred             eEEEeCCC---CHHHHHHHHHHHHhhh----ccCCCChhHHHHHHHHHHHHhCC-------HHHHHHHHHHHHHHHHHHH
Q 010136          300 LVVTFRAY---SKDQIIRILQERLMEL----SYIVFQPQALELCARKVAAASGD-------MRKALSVCRSAIEILEAEM  365 (517)
Q Consensus       300 ~~i~f~p~---~~~e~~~IL~~rl~~~----~~~~~~~~ai~~ia~~~~~~~Gd-------~R~al~ll~~A~~~a~~~~  365 (517)
                       ...|..+   +.+.....++...+.+    ....++.+|++.+.+...+..|+       +|.+.++++.|..+|..++
T Consensus       305 -~ae~~~~m~~~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~  383 (647)
T COG1067         305 -EAEFEDTMPITDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEG  383 (647)
T ss_pred             -EEEEcCCCCCChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCC
Confidence             3566543   4555555555444322    23578899998888877766665       7899999999999999887


Q ss_pred             HhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          366 RESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      ..                            .|+.+||.+|++...
T Consensus       384 ~~----------------------------~I~ae~Ve~a~~~~~  400 (647)
T COG1067         384 RK----------------------------LITAEDVEEALQKRE  400 (647)
T ss_pred             cc----------------------------cCcHHHHHHHHHhhh
Confidence            66                            899999999998844

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.18  E-value=0.21  Score=50.88  Aligned_cols=146  Identities=16%  Similarity=0.189  Sum_probs=96.3

Q ss_pred             HHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHh
Q 010136          109 QMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE  179 (517)
Q Consensus       109 ~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~  179 (517)
                      .+...++......+|..+-..+.-+.-+.+-|...+.+         ..+..++++|--|+||||++-.++..+...   
T Consensus        51 fi~~ikera~g~ev~~~l~p~q~~iKiV~eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk~---  127 (451)
T COG0541          51 FIKRIKERALGEEVPKGLTPGQQFIKIVYEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYLKKK---  127 (451)
T ss_pred             HHHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHHHHc---
Confidence            34556666666667777888888777777777766542         225579999999999999999999888762   


Q ss_pred             cCCCCceEEEEeCCCCC-CHHHHHHHHHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCch
Q 010136          180 AGLQQPEVFSINCTSLT-NTSEIFSKILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRA  257 (517)
Q Consensus       180 ~~~~~~~~v~vn~~~~~-s~~~i~~~i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~  257 (517)
                       +   ..+.-|.|-.++ ...+=+..+..+++...-.. .+.++.+...+.+...   .....-+|++|=+-++.. +.+
T Consensus       128 -~---~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~a---k~~~~DvvIvDTAGRl~i-de~  199 (451)
T COG0541         128 -G---KKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKA---KEEGYDVVIVDTAGRLHI-DEE  199 (451)
T ss_pred             -C---CceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHH---HHcCCCEEEEeCCCcccc-cHH
Confidence             2   356666666553 23445677788887655444 2445666666666532   233457999999888755 234


Q ss_pred             HHHHHhcc
Q 010136          258 VLHDLFML  265 (517)
Q Consensus       258 ~L~~l~~~  265 (517)
                      .+.++-+.
T Consensus       200 Lm~El~~I  207 (451)
T COG0541         200 LMDELKEI  207 (451)
T ss_pred             HHHHHHHH
Confidence            44444443

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.18  E-value=0.0053  Score=61.76  Aligned_cols=37  Identities=16%  Similarity=0.299  Sum_probs=30.7

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+|..++.  ...+++|+|++|+||||++++++..+.
T Consensus       151 ~~~~l~~~v~--~~~nilI~G~tGSGKTTll~aLl~~i~  187 (344)
T PRK13851        151 LEAFLHACVV--GRLTMLLCGPTGSGKTTMSKTLISAIP  187 (344)
T ss_pred             HHHHHHHHHH--cCCeEEEECCCCccHHHHHHHHHcccC
Confidence            5566666665  568999999999999999999987764

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.17  E-value=0.034  Score=53.01  Aligned_cols=51  Identities=14%  Similarity=0.056  Sum_probs=32.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      +..+.|+|+||+|||+++..++....... +.+-..-.++|+++....+...
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~-~~~g~~~~viyi~~e~~~~~~r   69 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTVQLPI-ELGGLEGKAVYIDTEGTFRPER   69 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHeeCcc-ccCCCCccEEEEeCCCCcCHHH
Confidence            45688999999999999999975432110 0000113688998876444443

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 .

>PRK14532 adenylate kinase; Provisional

Probab=96.17  E-value=0.0035  Score=57.66  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=20.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +++|.|+||+||||+++.+++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998765

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.16  E-value=0.065  Score=56.51  Aligned_cols=43  Identities=23%  Similarity=0.416  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhhc------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          133 QKKVLEFCKKNLE------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       133 ~~~l~~~L~~~l~------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ...+...|...+.      -..++.+.|+||+|+||||++..++..+..
T Consensus       328 ~~~l~~~L~~~l~v~~~~~l~~G~vIaLVGPtGvGKTTtaakLAa~la~  376 (559)
T PRK12727        328 RGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAA  376 (559)
T ss_pred             HHHHHHHHHHhcCcCccccccCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4445555555332      123578899999999999999999877643

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.15  E-value=0.014  Score=55.78  Aligned_cols=132  Identities=16%  Similarity=0.077  Sum_probs=70.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-----HHHHHHHHHHHhCCCCCC----CCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN-----TSEIFSKILLKLQPRKKL----NGS  218 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s-----~~~i~~~i~~~l~~~~~~----~~~  218 (517)
                      .+..+-|.|++||||||+++.++.-....        .--+++++.....     ...-+.+++..++.....    +..
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt--------~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhe  109 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT--------SGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHE  109 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC--------CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcc
Confidence            56788899999999999999998765421        1246666654322     223345555555422110    001


Q ss_pred             CCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc-CchHHHHHhccCCCCCCcEEEEEEECCCCcchhhccc
Q 010136          219 TSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR-DRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPR  291 (517)
Q Consensus       219 ~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~-~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~  291 (517)
                      .+ ..+.+++.-...  -.-.|.+|+.||.-....- .|..+.+|+...+ ..-.+..++|+.++.....+..+
T Consensus       110 lS-GGQrQRi~IARA--Lal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq-~~~~lt~lFIsHDL~vv~~isdr  179 (268)
T COG4608         110 LS-GGQRQRIGIARA--LALNPKLIVADEPVSALDVSVQAQILNLLKDLQ-EELGLTYLFISHDLSVVRYISDR  179 (268)
T ss_pred             cC-chhhhhHHHHHH--HhhCCcEEEecCchhhcchhHHHHHHHHHHHHH-HHhCCeEEEEEEEHHhhhhhccc
Confidence            11 112222221111  1346789999999887654 2333333332211 12356677778876655544443

>PLN02200 adenylate kinase family protein

Probab=96.11  E-value=0.0043  Score=59.19  Aligned_cols=25  Identities=32%  Similarity=0.486  Sum_probs=22.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|+||+||||+++.+++.+
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999998765

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.10  E-value=0.0069  Score=53.90  Aligned_cols=27  Identities=22%  Similarity=0.308  Sum_probs=23.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|+.|+|||++++.++..+.
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~~   50 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLLK   50 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            456888999999999999999976653

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.

>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]

Probab=96.09  E-value=0.025  Score=62.33  Aligned_cols=49  Identities=20%  Similarity=0.350  Sum_probs=33.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      ....+|.|.||||||+++-.+.+.|....        .-|-+.+..+.....++.++
T Consensus       685 edy~LI~GMPGTGKTTtI~~LIkiL~~~g--------kkVLLtsyThsAVDNILiKL  733 (1100)
T KOG1805|consen  685 EDYALILGMPGTGKTTTISLLIKILVALG--------KKVLLTSYTHSAVDNILIKL  733 (1100)
T ss_pred             cchheeecCCCCCchhhHHHHHHHHHHcC--------CeEEEEehhhHHHHHHHHHH
Confidence            46789999999999999999998887532        23445555544444444333

>PRK14530 adenylate kinase; Provisional

Probab=96.09  E-value=0.0054  Score=57.74  Aligned_cols=26  Identities=19%  Similarity=0.382  Sum_probs=22.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+.++|.|+||+||||+++.+++.++
T Consensus         3 ~~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          3 QPRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34799999999999999999988763

>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=96.06  E-value=0.011  Score=70.12  Aligned_cols=162  Identities=15%  Similarity=0.125  Sum_probs=99.5

Q ss_pred             HHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH-HHHHHh
Q 010136          131 DEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS-KILLKL  209 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~-~i~~~l  209 (517)
                      ..++....-+..... .+...++|-||.|+|||.+++.+++..+          ..++.+|-..+++....+. ......
T Consensus       423 ~~vq~~la~~~~a~~-~~~~pillqG~tssGKtsii~~la~~~g----------~~~vrinnhehtd~qeyig~y~~~~~  491 (1856)
T KOG1808|consen  423 PRVQKNLADLARAIS-SGKFPILLQGPTSSGKTSIIKELARATG----------KNIVRINNHEHTDLQEYIGTYVADDN  491 (1856)
T ss_pred             HHHHHHHHHHHHHHh-cCCCCeEEecCcCcCchhHHHHHHHHhc----------cCceehhccccchHHHHHHhhhcCCC
Confidence            333344444444333 2234799999999999999999998876          3689999999877666543 121111


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC---C--------CCCcEEEEEE
Q 010136          210 QPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT---F--------PFSRFILIGI  278 (517)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~---~--------~~~~v~lI~i  278 (517)
                      +...     -. ...+...+        .+...+|+||+....+..-++|..++++..   .        +...+.+.++
T Consensus       492 g~l~-----fr-eg~LV~Al--------r~G~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfat  557 (1856)
T KOG1808|consen  492 GDLV-----FR-EGVLVQAL--------RNGDWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFAT  557 (1856)
T ss_pred             CCee-----ee-hhHHHHHH--------HhCCEEEeccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhh
Confidence            1100     00 11122222        134688999999888888889999888821   1        2233444544


Q ss_pred             ECCCCcch---hhcccccccCCCceEEEeCCCCHHHHHHHHHHHH
Q 010136          279 ANAIDLAD---RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERL  320 (517)
Q Consensus       279 an~~~~~~---~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl  320 (517)
                      -|......   .+...+.+| |  ..++|.....+++..|+..+.
T Consensus       558 qn~~~~y~grk~lsRa~~~r-f--~e~~f~~~~e~e~~~i~~~~~  599 (1856)
T KOG1808|consen  558 QNPPGTYGGRKILSRALRNR-F--IELHFDDIGEEELEEILEHRC  599 (1856)
T ss_pred             ccCccccchhhhhhhccccc-c--hhhhhhhcCchhhhhhhcccc
Confidence            45432111   233445555 4  578899999999999998775

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.05  E-value=0.0071  Score=54.94  Aligned_cols=28  Identities=18%  Similarity=0.294  Sum_probs=24.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..++|.|++|+||||+++.+++.+..
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~   33 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKL   33 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4568999999999999999999988864

>PRK05629 hypothetical protein; Validated

Probab=96.05  E-value=1  Score=45.08  Aligned_cols=165  Identities=12%  Similarity=0.127  Sum_probs=90.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+..+|||+--    .++....+.+.......+...+.++++++.... ...++    ....        .+       +
T Consensus         6 ~~vyL~~G~e~----~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~e~~-~~~l~----~~~t--------~s-------l   61 (318)
T PRK05629          6 PPVHLVLGDDE----FLAERARLNIVHDIRSSMADSLQVTTLKASEVS-QGELL----DALS--------PS-------L   61 (318)
T ss_pred             CceEEEEeCHH----HHHHHHHHHHHHHHhccCCCCCceEEeecccCC-HHHHH----HhhC--------cC-------c
Confidence            45678888653    444444444444443444455778888877653 23322    1110        00       1


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCC
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                      |        ....+|+++..+.......+.+...+..+  +. ..++|.++...+-...+...++..   ...+.|.++.
T Consensus        62 F--------~~~rlV~v~~~~~~~~~~~~~l~~~l~~~--~~-~~~Lil~~~~~~~~kk~~K~l~k~---~~~ve~~~~~  127 (318)
T PRK05629         62 F--------GEDRVIVLTNMEQAGKEPTDLALSAAVDP--SP-GIYLIIMHSGGGRTKSMVPKLEKI---AVVHEAAKLK  127 (318)
T ss_pred             c--------CCceEEEEeChHhcChhHHHHHHHHHhCC--CC-CeEEEEEcCCcchhhHHHHHHHhc---ceEeeCCCCC
Confidence            2        23467888887664322223333333222  22 223333343322222232334433   2578998999


Q ss_pred             HHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          309 KDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       309 ~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                      ..++...+..++.... ..++++++++++.   ...+|+..+-+-+.
T Consensus       128 ~~~l~~wi~~~~~~~g-~~i~~~A~~~L~~---~~g~dl~~l~~Ele  170 (318)
T PRK05629        128 PRERPGWVTQEFKNHG-VRPTPDVVHALLE---GVGSDLRELASAIS  170 (318)
T ss_pred             HHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HHCccHHHHHHHHH
Confidence            9999999999997543 3789999999877   45677765444443

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.02  E-value=0.024  Score=60.26  Aligned_cols=92  Identities=18%  Similarity=0.177  Sum_probs=54.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC-------------
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK-------------  214 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~-------------  214 (517)
                      .+..++|.||||+|||+++..++.+...    .|.   +++|++..+  ++.++.... ..++-...             
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~----~ge---~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~  331 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENACA----NKE---RAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICA  331 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH----CCC---eEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEc
Confidence            3557999999999999999998876543    222   478888655  456655553 34332110             


Q ss_pred             CCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          215 LNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       215 ~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      .+......+.+..+... .  ...++.+|+||-+..+.
T Consensus       332 ~p~~~~~~~~~~~i~~~-i--~~~~~~~vvIDsi~~~~  366 (484)
T TIGR02655       332 YPESAGLEDHLQIIKSE-I--ADFKPARIAIDSLSALA  366 (484)
T ss_pred             ccccCChHHHHHHHHHH-H--HHcCCCEEEEcCHHHHH
Confidence            00111223334444331 1  23456789999998774

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.02  E-value=0.047  Score=54.94  Aligned_cols=101  Identities=14%  Similarity=0.005  Sum_probs=54.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC-------CCCCCH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL-------NGSTSP  221 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~-------~~~~~~  221 (517)
                      +....|+|+||||||+++..++-...-.....|. .-.++||+....-++..+. .++..++-....       ..... 
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~-~~~vvyIdTE~tF~peRl~-~ia~~~g~d~~~~l~~I~~~~~~~-  202 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGG-NGKVAYIDTEGTFRPDRIV-PIAERFGMDADAVLDNIIYARAYT-  202 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCC-CceEEEEEcCCCCCHHHHH-HHHHHcCCChhhhcCeEEEecCCC-
Confidence            3456699999999999999886433211111122 2378999987755666653 345555332110       00111 


Q ss_pred             HHHHHHHHHh--hhccCCCceEEEEEeCcchhcc
Q 010136          222 LQYLQNLYSQ--KLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       222 ~~~l~~~~~~--~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .+.+..++..  ... ...+..+||||-+-.+..
T Consensus       203 ~e~~~~~l~~l~~~i-~~~~~~LvVIDSital~r  235 (344)
T PLN03187        203 YEHQYNLLLGLAAKM-AEEPFRLLIVDSVIALFR  235 (344)
T ss_pred             HHHHHHHHHHHHHHH-HhcCCCEEEEeCcHHhhh
Confidence            2222222211  001 123467999999887643

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.01  E-value=0.18  Score=53.06  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=23.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+.|.||.|+||||++..++..+.
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~  281 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCV  281 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHH
Confidence            46788999999999999999998764

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.01  E-value=0.0051  Score=54.20  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ++|+|+||+||||+++.+++.+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            6899999999999999987764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>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=96.00  E-value=0.012  Score=54.51  Aligned_cols=53  Identities=13%  Similarity=0.159  Sum_probs=26.2

Q ss_pred             ceEEEEEeCcchhcccCchH---HHHHhcc-CCCCCCcEEEEEEECCCCcchhhcccccc
Q 010136          239 KMMLIIADELDYLITRDRAV---LHDLFML-TTFPFSRFILIGIANAIDLADRFLPRLQS  294 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~~~~---L~~l~~~-~~~~~~~v~lI~ian~~~~~~~l~~~l~s  294 (517)
                      ...||||||++.........   ....+++ .......+-+|.+|..   +..+++.++.
T Consensus        79 ~~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~---~~~id~~ir~  135 (193)
T PF05707_consen   79 KGSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQS---PSQIDKFIRD  135 (193)
T ss_dssp             TT-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES----GGGB-HHHHC
T ss_pred             CCcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCC---HHHHhHHHHH
Confidence            45799999999987653321   1122222 2234445667777885   4445555543

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.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.00  E-value=0.022  Score=59.09  Aligned_cols=84  Identities=17%  Similarity=0.155  Sum_probs=48.4

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      .+.+-++++||.|+||||++.++++.+....       ..++.|.-+--.....+     .++.  .....|......|+
T Consensus       256 ~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~-------~nI~TiEDPVE~~~~gI-----~Q~q--VN~k~gltfa~~LR  321 (500)
T COG2804         256 RPQGLILVTGPTGSGKTTTLYAALSELNTPE-------RNIITIEDPVEYQLPGI-----NQVQ--VNPKIGLTFARALR  321 (500)
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCC-------ceEEEeeCCeeeecCCc-----ceee--cccccCCCHHHHHH
Confidence            3567789999999999999999999887421       12333332211000000     0110  11112444455566


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchh
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYL  251 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L  251 (517)
                      .++.       ..|-||.+.||-..
T Consensus       322 a~LR-------qDPDvImVGEIRD~  339 (500)
T COG2804         322 AILR-------QDPDVIMVGEIRDL  339 (500)
T ss_pred             HHhc-------cCCCeEEEeccCCH
Confidence            6664       46789999999654

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=95.98  E-value=0.0072  Score=60.64  Aligned_cols=49  Identities=12%  Similarity=0.180  Sum_probs=32.2

Q ss_pred             CceEEEEEeCcchhccc--CchHHHHHhccCCCCCCcEEEEEEECCCCcchhh
Q 010136          238 MKMMLIIADELDYLITR--DRAVLHDLFMLTTFPFSRFILIGIANAIDLADRF  288 (517)
Q Consensus       238 ~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l  288 (517)
                      .++.++++||++.....  .+.+...+-++..  ...+.++++++..++.+.|
T Consensus       524 erpn~~~iDEF~AhLD~~TA~rVArkiselaR--e~giTlivvThrpEv~~AL  574 (593)
T COG2401         524 ERPNVLLIDEFAAHLDELTAVRVARKISELAR--EAGITLIVVTHRPEVGNAL  574 (593)
T ss_pred             cCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHH--HhCCeEEEEecCHHHHhcc
Confidence            45679999999988764  2345555555532  2356688888876665554

>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]

Probab=95.96  E-value=0.041  Score=57.74  Aligned_cols=49  Identities=12%  Similarity=0.054  Sum_probs=37.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..+.-|.-+.+.+..+....-.   ....+|+-|+|+|||.++..++..+..
T Consensus        33 ~~~~lr~yQ~~al~a~~~~~~~---~~~gvivlpTGaGKT~va~~~~~~~~~   81 (442)
T COG1061          33 FEFELRPYQEEALDALVKNRRT---ERRGVIVLPTGAGKTVVAAEAIAELKR   81 (442)
T ss_pred             cCCCCcHHHHHHHHHHHhhccc---CCceEEEeCCCCCHHHHHHHHHHHhcC
Confidence            3455677777777777665321   677889999999999999999988764

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.96  E-value=0.0056  Score=55.68  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=21.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998874

>PRK06217 hypothetical protein; Validated

Probab=95.95  E-value=0.0064  Score=55.66  Aligned_cols=24  Identities=17%  Similarity=0.290  Sum_probs=21.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .|+|.|.||+||||+++.+++.++
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999988763

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.95  E-value=0.08  Score=48.63  Aligned_cols=47  Identities=19%  Similarity=0.193  Sum_probs=30.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcC---CCCceEEEEeCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAG---LQQPEVFSINCTSL  195 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~---~~~~~~v~vn~~~~  195 (517)
                      +...+|+|+||+|||+++..++..+.....-.+   .....++|+++...
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            457899999999999999999887763111001   02257899998764

>PRK13949 shikimate kinase; Provisional

Probab=95.92  E-value=0.0067  Score=54.78  Aligned_cols=25  Identities=20%  Similarity=0.352  Sum_probs=22.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|+|+||+|||++++.+++.++
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3689999999999999999988764

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=95.92  E-value=0.012  Score=58.76  Aligned_cols=36  Identities=17%  Similarity=0.233  Sum_probs=29.1

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ...+|..++.  ...+++|+|++|+||||++++++..+
T Consensus       137 ~~~~L~~~v~--~~~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        137 QREAIIAAVR--AHRNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             HHHHHHHHHH--cCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            3455666665  45899999999999999999998765

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.91  E-value=0.063  Score=53.46  Aligned_cols=101  Identities=16%  Similarity=0.044  Sum_probs=54.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC-------CCCCCH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL-------NGSTSP  221 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~-------~~~~~~  221 (517)
                      +....|+|+||+|||+++..++-...- ..+.+...-.++||+....-++..+. .+++.++.....       ..-.. 
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~-~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~-  172 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQL-PREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYT-  172 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhc-chhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCC-
Confidence            446779999999999999887643221 01111112368999987655666653 455555432110       00011 


Q ss_pred             HHHHHHHHHh--hhccCCCceEEEEEeCcchhcc
Q 010136          222 LQYLQNLYSQ--KLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       222 ~~~l~~~~~~--~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .+.+...+..  ... ......+||||-+-.+..
T Consensus       173 ~e~~~~~l~~l~~~i-~~~~~~LvVIDSisal~r  205 (313)
T TIGR02238       173 SEHQMELLDYLAAKF-SEEPFRLLIVDSIMALFR  205 (313)
T ss_pred             HHHHHHHHHHHHHHh-hccCCCEEEEEcchHhhh
Confidence            1222222211  011 133567899999987753

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.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.91  E-value=0.005  Score=55.13  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ++|.|++|+||||+++.+++.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998876

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.

>PRK14527 adenylate kinase; Provisional

Probab=95.90  E-value=0.0071  Score=55.80  Aligned_cols=27  Identities=30%  Similarity=0.425  Sum_probs=23.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|+|+||+||||+++.+++.++
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999987653

>PRK08233 hypothetical protein; Provisional

Probab=95.89  E-value=0.0064  Score=55.39  Aligned_cols=26  Identities=23%  Similarity=0.388  Sum_probs=22.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+.|.|+||+||||+++.++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            35678999999999999999988764

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.88  E-value=0.012  Score=53.42  Aligned_cols=39  Identities=18%  Similarity=0.280  Sum_probs=29.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+..++|.|+||+|||++++.++..+...    +   ..+.+++..
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~~----g---~~v~~id~D   41 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLREA----G---YPVEVLDGD   41 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEEcCc
Confidence            45678999999999999999999988531    1   245667653

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.88  E-value=0.0072  Score=56.90  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|+|+||+||||+++.+++.++
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999987753

>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=95.88  E-value=0.0056  Score=56.44  Aligned_cols=23  Identities=26%  Similarity=0.535  Sum_probs=20.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|+|+||+|||++++.+++.+
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            37899999999999999998774

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=95.88  E-value=0.01  Score=50.15  Aligned_cols=38  Identities=16%  Similarity=0.212  Sum_probs=29.5

Q ss_pred             HHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          135 KVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       135 ~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++...|...+.  .+..++|.|+=|+|||++++.+++.++
T Consensus         3 ~la~~l~~~l~--~g~vi~L~GdLGaGKTtf~r~l~~~lg   40 (123)
T PF02367_consen    3 RLAKKLAQILK--PGDVILLSGDLGAGKTTFVRGLARALG   40 (123)
T ss_dssp             HHHHHHHHHHS--S-EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCC--CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            34555555553  456899999999999999999999875

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.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=95.87  E-value=0.015  Score=53.10  Aligned_cols=26  Identities=23%  Similarity=0.304  Sum_probs=22.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.|+.|+||||+++.++..+
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            56688899999999999999997654

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=95.86  E-value=0.0075  Score=52.70  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +.|+|+||+|||++++.++..++
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            68999999999999999988763

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

Probab=95.79  E-value=0.0082  Score=54.66  Aligned_cols=25  Identities=28%  Similarity=0.473  Sum_probs=21.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|.||+|+||||+++.++..+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3578999999999999999887754

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.

>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=95.79  E-value=0.013  Score=53.26  Aligned_cols=27  Identities=22%  Similarity=0.359  Sum_probs=23.0

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+..+.|.||.|+||||+++.++..+
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            356688899999999999999987654

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.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=95.79  E-value=0.0062  Score=57.47  Aligned_cols=24  Identities=21%  Similarity=0.106  Sum_probs=21.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+..++|.||.|+|||++.+.++.
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356789999999999999999987

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

>cd01878 HflX HflX subfamily

Probab=95.78  E-value=0.12  Score=48.04  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ...+.|.|++|+|||++++.+...
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999998764

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

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.77  E-value=0.24  Score=51.26  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..+.|.||+|+||||++..++..+
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            5578999999999999999998754

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.76  E-value=0.0085  Score=56.86  Aligned_cols=26  Identities=23%  Similarity=0.289  Sum_probs=22.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +-.++|.||||+||||+++.+++.++
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhC
Confidence            34599999999999999999988753

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional

Probab=95.76  E-value=0.092  Score=61.13  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=19.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ...++|+|++||||||.+=.++.+
T Consensus        89 ~~VviI~GeTGSGKTTqlPq~lle  112 (1294)
T PRK11131         89 HQVVIVAGETGSGKTTQLPKICLE  112 (1294)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999976655544

>PRK10436 hypothetical protein; Provisional

Probab=95.75  E-value=0.042  Score=57.64  Aligned_cols=27  Identities=26%  Similarity=0.439  Sum_probs=24.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.++|+||.|+||||++.+++..+.
T Consensus       217 ~~GliLvtGpTGSGKTTtL~a~l~~~~  243 (462)
T PRK10436        217 PQGLILVTGPTGSGKTVTLYSALQTLN  243 (462)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHhhC
Confidence            568899999999999999999887764

>PRK06851 hypothetical protein; Provisional

Probab=95.72  E-value=0.021  Score=57.71  Aligned_cols=40  Identities=28%  Similarity=0.409  Sum_probs=31.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      ...++|.|+||||||++++.++.++...    |   ..+.+.-|+..
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~----G---~~v~~~hC~~d  253 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAAEER----G---FDVEVYHCGFD  253 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHHHhC----C---CeEEEEeCCCC
Confidence            4568999999999999999999887642    3   35777777764

>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]

Probab=95.70  E-value=0.25  Score=55.39  Aligned_cols=157  Identities=16%  Similarity=0.087  Sum_probs=81.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCC---------
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGST---------  219 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~---------  219 (517)
                      ...++|+|.+||||||-+=.+.-+..   .+.+ + ..-+.+.-..-.+.-.+...+..+.+.......|.         
T Consensus       188 ~qVvvIsGeTGcGKTTQvpQfiLd~~---~~~~-~-~~~IicTQPRRIsAIsvAeRVa~ER~~~~g~~VGYqvrl~~~~s  262 (924)
T KOG0920|consen  188 NQVVVISGETGCGKTTQVPQFILDEA---IESG-A-ACNIICTQPRRISAISVAERVAKERGESLGEEVGYQVRLESKRS  262 (924)
T ss_pred             CceEEEeCCCCCCchhhhhHHHHHHH---HhcC-C-CCeEEecCCchHHHHHHHHHHHHHhccccCCeeeEEEeeecccC
Confidence            57899999999999998877654322   1222 2 12244443333344556666666653222111110         


Q ss_pred             -------CH-HHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhcc-CCCCCCcEEEEEEECCCC-cchhhc
Q 010136          220 -------SP-LQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFML-TTFPFSRFILIGIANAID-LADRFL  289 (517)
Q Consensus       220 -------~~-~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~-~~~~~~~v~lI~ian~~~-~~~~l~  289 (517)
                             .. .-.|+.+..   ...-.....|++||++.=.-...-+|.-+-++ ...+.-++++..+|-+.+ |.+.+ 
T Consensus       263 ~~t~L~fcTtGvLLr~L~~---~~~l~~vthiivDEVHER~i~~DflLi~lk~lL~~~p~LkvILMSAT~dae~fs~YF-  338 (924)
T KOG0920|consen  263 RETRLLFCTTGVLLRRLQS---DPTLSGVTHIIVDEVHERSINTDFLLILLKDLLPRNPDLKVILMSATLDAELFSDYF-  338 (924)
T ss_pred             CceeEEEecHHHHHHHhcc---CcccccCceeeeeeEEEccCCcccHHHHHHHHhhhCCCceEEEeeeecchHHHHHHh-
Confidence                   01 223333332   22334567899999986544333333333222 233556666666554322 11111 


Q ss_pred             ccccccCCCceEEEeCCCCHHHHHHHHHHHHh
Q 010136          290 PRLQSMNCKPLVVTFRAYSKDQIIRILQERLM  321 (517)
Q Consensus       290 ~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~  321 (517)
                             -+..+++.+..+..-..-.|++.+.
T Consensus       339 -------~~~pvi~i~grtfpV~~~fLEDil~  363 (924)
T KOG0920|consen  339 -------GGCPVITIPGRTFPVKEYFLEDILS  363 (924)
T ss_pred             -------CCCceEeecCCCcchHHHHHHHHHH
Confidence                   1335778777776666666665554

>PLN02459 probable adenylate kinase

Probab=95.70  E-value=0.0063  Score=58.46  Aligned_cols=27  Identities=26%  Similarity=0.545  Sum_probs=22.6

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +.+-.++|.||||+||||+++.+++.+
T Consensus        27 ~~~~~ii~~G~PGsGK~T~a~~la~~~   53 (261)
T PLN02459         27 GRNVNWVFLGCPGVGKGTYASRLSKLL   53 (261)
T ss_pred             cCccEEEEECCCCCCHHHHHHHHHHHh
Confidence            334568899999999999999998765

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.70  E-value=0.14  Score=46.69  Aligned_cols=27  Identities=30%  Similarity=0.241  Sum_probs=22.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.+.|||.+|.|||+++-.++-...
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~   47 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAV   47 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHH
Confidence            468999999999999999988875543

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.69  E-value=0.019  Score=51.06  Aligned_cols=33  Identities=24%  Similarity=0.407  Sum_probs=28.2

Q ss_pred             hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          144 LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       144 l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      .....+..++++|.+|+||||++.++.+.|...
T Consensus        18 ~~~~~~~viW~TGLSGsGKSTiA~ale~~L~~~   50 (197)
T COG0529          18 LKGQKGAVIWFTGLSGSGKSTIANALEEKLFAK   50 (197)
T ss_pred             HhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHc
Confidence            344567789999999999999999999998864

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.69  E-value=0.0085  Score=53.67  Aligned_cols=21  Identities=29%  Similarity=0.509  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~  172 (517)
                      |.|+|.|||||||+++.+++.
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999998865

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=95.68  E-value=0.05  Score=49.72  Aligned_cols=25  Identities=16%  Similarity=0.333  Sum_probs=21.6

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .....+++.|++|+|||++++.+..
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~   39 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKN   39 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhc
Confidence            3457899999999999999999864

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>PLN02674 adenylate kinase

Probab=95.68  E-value=0.017  Score=55.15  Aligned_cols=26  Identities=23%  Similarity=0.365  Sum_probs=22.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ....++|.||||+||||.++.+++.+
T Consensus        30 ~~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         30 PDKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHc
Confidence            35679999999999999999998764

>PRK02496 adk adenylate kinase; Provisional

Probab=95.67  E-value=0.0096  Score=54.51  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=21.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.|+||+|||++++.+++.++
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~   26 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLH   26 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999987753

>PRK14528 adenylate kinase; Provisional

Probab=95.66  E-value=0.011  Score=54.42  Aligned_cols=24  Identities=25%  Similarity=0.402  Sum_probs=21.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..++|.|+||+|||++++.+++.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999997765

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=95.65  E-value=0.042  Score=59.48  Aligned_cols=41  Identities=27%  Similarity=0.395  Sum_probs=29.7

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+.+.+.+...+.     ...+.++|+||+|+||||++.++++.+.
T Consensus       301 ~~~~~~~l~~~~~-----~~~Glilv~G~tGSGKTTtl~a~l~~~~  341 (564)
T TIGR02538       301 EPDQKALFLEAIH-----KPQGMVLVTGPTGSGKTVSLYTALNILN  341 (564)
T ss_pred             CHHHHHHHHHHHH-----hcCCeEEEECCCCCCHHHHHHHHHHhhC
Confidence            4444444444433     2567899999999999999999888764

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.

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=95.64  E-value=0.0074  Score=53.34  Aligned_cols=20  Identities=25%  Similarity=0.559  Sum_probs=18.4

Q ss_pred             EEcCCCCcHHHHHHHHHHHH
Q 010136          154 VCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       154 i~G~pGtGKT~l~~~v~~~l  173 (517)
                      |.||||+|||++++.+++.+
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999875

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 ....

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

Probab=95.63  E-value=0.025  Score=54.98  Aligned_cols=49  Identities=18%  Similarity=0.263  Sum_probs=35.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      .+..++|+|+||||||+++..++.+..+.    |.   +++||+....  +..++...
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~----ge---~vlyvs~~e~--~~~l~~~~   70 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGARE----GE---PVLYVSTEES--PEELLENA   70 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHHHhc----CC---cEEEEEecCC--HHHHHHHH
Confidence            46689999999999999999998776542    33   4788887653  55555444

>TIGR00376 DNA helicase, putative

Probab=95.61  E-value=0.02  Score=62.70  Aligned_cols=27  Identities=30%  Similarity=0.507  Sum_probs=22.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+.++|.||||||||+++..++.++..
T Consensus       173 ~~~~lI~GpPGTGKT~t~~~ii~~~~~  199 (637)
T TIGR00376       173 KDLFLIHGPPGTGKTRTLVELIRQLVK  199 (637)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            367889999999999999998877653

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=95.59  E-value=0.036  Score=57.42  Aligned_cols=31  Identities=26%  Similarity=0.308  Sum_probs=24.3

Q ss_pred             CCCeE-EEEcCCCCcHHHHHHHHHHHHHHHHH
Q 010136          148 KAGSL-YVCGCPGTGKSLSMEKVQHYLVDWAK  178 (517)
Q Consensus       148 ~~~~l-li~G~pGtGKT~l~~~v~~~l~~~~~  178 (517)
                      +++.| -+.||||||||||++.+.+.+....-
T Consensus        67 PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti   98 (1077)
T COG5192          67 PPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTI   98 (1077)
T ss_pred             CCCeEEEeecCCCCChhHHHHHHHHHHHHhhh
Confidence            34444 49999999999999999888765443

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.58  E-value=0.011  Score=52.71  Aligned_cols=26  Identities=23%  Similarity=0.223  Sum_probs=23.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+++|.|++|+||||+.+.+++.|.
T Consensus         2 ~~~IvLiG~mGaGKSTIGr~LAk~L~   27 (172)
T COG0703           2 NMNIVLIGFMGAGKSTIGRALAKALN   27 (172)
T ss_pred             CccEEEEcCCCCCHhHHHHHHHHHcC
Confidence            35799999999999999999999875

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=95.58  E-value=0.02  Score=41.99  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=21.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...+|+|+.|+||||++.++.-.|.
T Consensus        24 ~~tli~G~nGsGKSTllDAi~~~L~   48 (62)
T PF13555_consen   24 DVTLITGPNGSGKSTLLDAIQTVLY   48 (62)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHc
Confidence            3799999999999999999876554

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=95.57  E-value=0.019  Score=57.23  Aligned_cols=44  Identities=18%  Similarity=0.151  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHhhc----cCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          131 DEQKKVLEFCKKNLE----EEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~----~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++.+.+...++..+.    -....+++|+|+||+|||++++.+++.++
T Consensus       111 ~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~Lg  158 (309)
T PRK08154        111 AQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARLG  158 (309)
T ss_pred             HHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            344445555544333    23466899999999999999999988774

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=95.56  E-value=0.03  Score=48.62  Aligned_cols=46  Identities=17%  Similarity=0.179  Sum_probs=38.2

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...+++..++...|...+.  .+..+++.|+=|.|||+++|.+++.+.
T Consensus         5 ~~~~~~t~~lg~~l~~~l~--~g~Vv~L~GdLGAGKTtf~rgi~~~Lg   50 (149)
T COG0802           5 LPDEEATLALGERLAEALK--AGDVVLLSGDLGAGKTTLVRGIAKGLG   50 (149)
T ss_pred             cCCHHHHHHHHHHHHhhCC--CCCEEEEEcCCcCChHHHHHHHHHHcC
Confidence            3456677778888877764  577899999999999999999999886

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.55  E-value=0.059  Score=53.03  Aligned_cols=97  Identities=14%  Similarity=0.187  Sum_probs=59.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH-HHhCCCCCC-CCCCCHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL-LKLQPRKKL-NGSTSPLQYL  225 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~-~~l~~~~~~-~~~~~~~~~l  225 (517)
                      .+..++++|..|+||||++-.++..+...    |   ..++-..|-.++....=--.+| +.++...-. ..|..+....
T Consensus       138 ~p~Vil~vGVNG~GKTTTIaKLA~~l~~~----g---~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVa  210 (340)
T COG0552         138 KPFVILFVGVNGVGKTTTIAKLAKYLKQQ----G---KSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVA  210 (340)
T ss_pred             CcEEEEEEecCCCchHhHHHHHHHHHHHC----C---CeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHH
Confidence            46689999999999999999999887753    3   3577777766643322111122 333322211 1344445444


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                      ...+..   +...+.-++++|=+-+|.++
T Consensus       211 fDAi~~---Akar~~DvvliDTAGRLhnk  236 (340)
T COG0552         211 FDAIQA---AKARGIDVVLIDTAGRLHNK  236 (340)
T ss_pred             HHHHHH---HHHcCCCEEEEeCcccccCc
Confidence            455442   12345578999999988654

>TIGR01587 cas3_core CRISPR-associated helicase Cas3

Probab=95.55  E-value=0.034  Score=56.72  Aligned_cols=21  Identities=19%  Similarity=0.039  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ++|.+|+|+|||.++-..+-.
T Consensus         2 vvi~apTGsGKT~~~~~~~l~   22 (358)
T TIGR01587         2 LVIEAPTGYGKTEAALLWALH   22 (358)
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            689999999999997766543

This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	517
2qby_A	386	Crystal Structure Of A Heterodimer Of Cdc6ORC1 INIT		3e-14
2v1u_A	387	Structure Of The Aeropyrum Pernix Orc1 Protein In C		9e-12
2qby_B	384	Crystal Structure Of A Heterodimer Of Cdc6ORC1 INIT		1e-04

>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS Bound To Origin Dna (From S. Solfataricus) Length = 386

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 91/405 (22%), Positives = 173/405 (42%), Gaps = 52/405 (12%)
Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
           RE L     P  +  RED+ +K+         EEK  ++++ G  GTGK+     V  ++
Sbjct: 10  REYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKT----AVVKFV 65
Query: 174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL 233
           +    +  L + +   IN   +     + + +L  L  +    G +    Y + + + + 
Sbjct: 66  LSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD 125
Query: 234 HSSVMKMMLIIADELDYLITR-DRAVLHDLFMLTT-FPFSRFILIGIANAIDLADRFLPR 291
           + S    ++I+ DE+D  + + +  +L+ L  + +    S+   IGI N +   D   PR
Sbjct: 126 YGS---QVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPR 182
Query: 292 LQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQAL-----ELCARKVAAASGD 346
           ++S   +  ++ F  Y+ +++  IL +R    + + F+P  L     +LCA   A   GD
Sbjct: 183 VKSSLSEEEII-FPPYNAEELEDILTKR----AQMAFKPGVLPDNVIKLCAALAAREHGD 237
Query: 347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVAL 406
            R+AL + R + EI E        +M                     +++V+ +++ +A 
Sbjct: 238 ARRALDLLRVSGEIAE--------RMK--------------------DTKVKEEYVYMAK 269
Query: 407 SNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGT 466
               +  V D I +LP H +++L + V          T G + ++Y+NICK   +  V  
Sbjct: 270 EEIERDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAVTQ 329
Query: 467 LEFFSMCRVLHDQGVLKV-----GRDDKLKRVTLKADESDITFAL 506
                +   L   G+L       GR  K K + L  D++ I  +L
Sbjct: 330 RRVSDIINELDMVGILTAKVVNRGRYGKTKEIGLAVDKNIIVRSL 374

>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex With Dna Length = 387

Iteration: 1
 Score = 68.6 bits (166), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 95/405 (23%), Positives = 162/405 (40%), Gaps = 66/405 (16%)
Query: 123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL 182
           P  +  RE E +++ E     L  EK  +  + G  GTGK+     V   L   A   G+
Sbjct: 18  PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGV 77
Query: 183 QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ--KLHSSVMKM 240
               ++ +N         + S I   +  R    G +     +  +Y +  K  S +  +
Sbjct: 78  LVKPIY-VNARHRETPYRVASAIAEAVGVRVPFTGLS-----VGEVYERLVKRLSRLRGI 131
Query: 241 MLIIADELDYL------------ITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRF 288
            +I+ DE+D+L            ITR    L D   ++        L+GI N++   +  
Sbjct: 132 YIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVS--------LVGITNSLGFVENL 183
Query: 289 LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVAAASGDM 347
            PR++S +   + + F  Y+  Q+  IL+ R  E  +  V  P  + LCA   A   GD 
Sbjct: 184 EPRVKS-SLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDA 242
Query: 348 RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS 407
           R+AL + R A EI                            A      +VR +H+  A +
Sbjct: 243 RRALDLLRVAGEI----------------------------AERRREERVRREHVYSARA 274
Query: 408 NTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPV--- 464
              +  V + +++LP H +++L S +    GG+   T GE+ + Y  +  T  +  V   
Sbjct: 275 EIERDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPAST-GEIYERYKELTSTLGLEHVTLR 333
Query: 465 ---GTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFAL 506
              G +    M  ++  + V+  GR  K + V+L AD   +  AL
Sbjct: 334 RVSGIISELDMLGIVKSR-VVSRGRYGKTREVSLDADRLAVENAL 377

>pdb|2QBY|B Chain B, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS Bound To Origin Dna (From S. Solfataricus) Length = 384

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 86/370 (23%), Positives = 148/370 (40%), Gaps = 71/370 (19%)
Query: 155 CGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI-----NCTSLTNTSEIFSKILLKL 209
            G  GTGK+     V  Y+ +  +E   +  E   +     NC  +  T +    +L  L
Sbjct: 51  LGLTGTGKTF----VSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQ---AVLSSL 103
Query: 210 QPRKKLNGSTSPLQYLQNL--YSQKLHSSVMKMMLIIA-DELDYLITRDRA--VLHDLFM 264
               KL G + P ++  NL  Y  K+ +    +  II  DE+D L+ R     VL+ L  
Sbjct: 104 AG--KLTGFSVP-KHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLR 160
Query: 265 LTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS 324
                 +   +I I+N I++ D   PR+ S +  P V+ F+ Y  +Q+  IL  +  E  
Sbjct: 161 SD----ANISVIMISNDINVRDYMEPRVLS-SLGPSVI-FKPYDAEQLKFILS-KYAEYG 213
Query: 325 YI--VFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLF 382
            I   +  + L   A   A   GD RKA+++   A                         
Sbjct: 214 LIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRA------------------------- 248
Query: 383 DQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKD 442
             Q AS        +R +H+  A+ +  +  +++ +K+LP H ++ L S +       + 
Sbjct: 249 -AQLASG----GGIIRKEHVDKAIVDYEQERLIEAVKALPFHYKLALRSLI-------ES 296
Query: 443 MTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKV-----GRDDKLKRVTLKA 497
             V   +K Y ++C      P+    F  +   L   G++K+     GR   +K+  L  
Sbjct: 297 EDVMSAHKMYTDLCNKFKQKPLSYRRFSDIISELDMFGIVKIRIINRGRAGGVKKYALVE 356
Query: 498 DESDITFALQ 507
           D+  +  AL 
Sbjct: 357 DKEKVLRALN 366

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	517
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	2e-79
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	2e-73
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	2e-67
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	4e-65
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	8e-54
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	1e-53
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-19
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-06
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	2e-04
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	4e-04

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 386

 Score =  252 bits (645), Expect = 2e-79
 Identities = 89/402 (22%), Positives = 160/402 (39%), Gaps = 44/402 (10%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
           RE L     P  +  RED+ +K+         EEK  ++++ G  GTGK+  ++ V   L
Sbjct: 10  REYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL 69

Query: 174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL 233
                +  L + +   IN   +     + + +L  L  +    G +    Y + +   K 
Sbjct: 70  ----HKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLV---KA 122

Query: 234 HSSVMKMMLIIADELDYLITRDR-AVLHDLFMLTT-FPFSRFILIGIANAIDLADRFLPR 291
                  ++I+ DE+D  + +    +L+ L  + +    S+   IGI N +   D   PR
Sbjct: 123 VRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPR 182

Query: 292 LQSMNCKPLVVTFRAYSKDQIIRILQERLMELSY-IVFQPQALELCARKVAAASGDMRKA 350
           ++S +     + F  Y+ +++  IL +R        V     ++LCA   A   GD R+A
Sbjct: 183 VKS-SLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRA 241

Query: 351 LSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF 410
           L + R + EI E                                 +V+ +++ +A     
Sbjct: 242 LDLLRVSGEIAERMKDT----------------------------KVKEEYVYMAKEEIE 273

Query: 411 KSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFF 470
           +  V D I +LP H +++L + V          T G + ++Y+NICK   +  V      
Sbjct: 274 RDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAVTQRRVS 333

Query: 471 SMCRVLHDQGVLKV-----GRDDKLKRVTLKADESDITFALQ 507
            +   L   G+L       GR  K K + L  D++ I  +L 
Sbjct: 334 DIINELDMVGILTAKVVNRGRYGKTKEIGLAVDKNIIVRSLI 375

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Length = 387

 Score =  237 bits (604), Expect = 2e-73
 Identities = 96/413 (23%), Positives = 161/413 (38%), Gaps = 44/413 (10%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
           R  L     P  +  RE E +++ E     L  EK  +  + G  GTGK+     V   L
Sbjct: 9   RWVLLPDYVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRL 68

Query: 174 VDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL 233
              A   G+   +   +N         + S I   +  R    G +    Y +     K 
Sbjct: 69  EARASSLGV-LVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERL---VKR 124

Query: 234 HSSVMKMMLIIADELDYLITRDRA--VLHDLFMLTTFPFS--RFILIGIANAIDLADRFL 289
            S +  + +I+ DE+D+L  R     +L+ +  +           L+GI N++   +   
Sbjct: 125 LSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLE 184

Query: 290 PRLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVAAASGDMR 348
           PR++S +   + + F  Y+  Q+  IL+ R  E  +  V  P  + LCA   A   GD R
Sbjct: 185 PRVKS-SLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDAR 243

Query: 349 KALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSN 408
           +AL + R A EI E    E                            +VR +H+  A + 
Sbjct: 244 RALDLLRVAGEIAERRREE----------------------------RVRREHVYSARAE 275

Query: 409 TFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLE 468
             +  V + +++LP H +++L S +    GG +  + GE+ + Y  +  T  +  V    
Sbjct: 276 IERDRVSEVVRTLPLHAKLVLLSIMMLEDGG-RPASTGEIYERYKELTSTLGLEHVTLRR 334

Query: 469 FFSMCRVLHDQGVLKV-----GRDDKLKRVTLKADESDITFALQGVRFFRNCL 516
              +   L   G++K      GR  K + V+L AD   +  AL    F    L
Sbjct: 335 VSGIISELDMLGIVKSRVVSRGRYGKTREVSLDADRLAVENALSEDPFVARLL 387

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 384

 Score =  221 bits (564), Expect = 2e-67
 Identities = 75/403 (18%), Positives = 146/403 (36%), Gaps = 55/403 (13%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL 173
           +  +   +    I  RED  +      +  ++ E   S    G  GTGK+   + + + +
Sbjct: 10  KVFIDPLSVFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEI 69

Query: 174 VDWAKEAGLQQP-EVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK 232
            +  KE    +  +   +NC  +  T +     L        +      L    +     
Sbjct: 70  EEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNG 129

Query: 233 LHSSVMKMMLIIADELDYLITRDRA--VLHDLFMLTTFPFSRFILIGIANAIDLADRFLP 290
             +      +I  DE+D L+ R     VL+ L        +   +I I+N I++ D   P
Sbjct: 130 TRN---IRAIIYLDEVDTLVKRRGGDIVLYQLLR----SDANISVIMISNDINVRDYMEP 182

Query: 291 RLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVAAASGDMRK 349
           R+ S     ++  F+ Y  +Q+  IL +     L    +  + L   A   A   GD RK
Sbjct: 183 RVLSSLGPSVI--FKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARK 240

Query: 350 ALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT 409
           A+++   A ++                                    +R +H+  A+ + 
Sbjct: 241 AVNLLFRAAQLASGG------------------------------GIIRKEHVDKAIVDY 270

Query: 410 FKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEF 469
            +  +++ +K+LP H ++ L S +       +   V   +K Y ++C      P+    F
Sbjct: 271 EQERLIEAVKALPFHYKLALRSLI-------ESEDVMSAHKMYTDLCNKFKQKPLSYRRF 323

Query: 470 FSMCRVLHDQGVLKV-----GRDDKLKRVTLKADESDITFALQ 507
             +   L   G++K+     GR   +K+  L  D+  +  AL 
Sbjct: 324 SDIISELDMFGIVKIRIINRGRAGGVKKYALVEDKEKVLRALN 366

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20 Length = 389

 Score =  215 bits (548), Expect = 4e-65
 Identities = 66/412 (16%), Positives = 133/412 (32%), Gaps = 56/412 (13%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQH 171
                 S  P  +  RE + +++       L           + G PGTGK++++ K+  
Sbjct: 7   DSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE 66

Query: 172 YLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ 231
              D              IN     N + I  +I   L       G  S  ++L  L   
Sbjct: 67  LYKDKTT------ARFVYINGFIYRNFTAIIGEIARSLNIPFPRRG-LSRDEFLALL--V 117

Query: 232 KLHSSVMKMMLIIADELDYLITRDRAVLHDLF-MLTTFPFSRFILIGIANAIDLADRFLP 290
           +        M ++ D+   L     +    L          R  L+ + +   + +   P
Sbjct: 118 EHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDP 177

Query: 291 RLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVAAA------ 343
             +       V+ F  Y+KDQI  IL +R    L+   +    L++ A    A       
Sbjct: 178 STRG-IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTN 236

Query: 344 SGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMA 403
            GD R A+ +   +    +   R+                             +  + + 
Sbjct: 237 RGDARLAIDILYRSAYAAQQNGRK----------------------------HIAPEDVR 268

Query: 404 VALSNTFKSPVVDTIKSLPQHQQILLCSAVKFF-RGGKKDMTVGELNKSYMNICKTSLIP 462
            +          + +  LP H+++ L + V+         +T G+  +SY  +C+     
Sbjct: 269 KSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGER 328

Query: 463 PVGTLEFFSMCRVLHDQGVLKV-------GRDDKLKRVTLKADESDITFALQ 507
           P    + +S    L ++G+++        G   +   +++  +  D   A+ 
Sbjct: 329 PRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVI 380

>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* Length = 412

 Score =  186 bits (472), Expect = 8e-54
 Identities = 69/422 (16%), Positives = 142/422 (33%), Gaps = 61/422 (14%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGS-----LYVCGCPGTGKSLSMEK 168
           R     +  P  +  R  E + +       L      S         G  G GK+   + 
Sbjct: 12  RRVFDENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKF 71

Query: 169 VQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL 228
               + + A + GL   + + +N  +  N   I S I+ +     ++ G+ +       +
Sbjct: 72  TVKRVSEAAAKEGLTVKQAY-VNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALV 130

Query: 229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF--------SRFILIGIAN 280
                       +L+I DE   +++  R    DL+ L             +R   + +A+
Sbjct: 131 ---DNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVAS 187

Query: 281 AIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCAR 338
            +        ++  + +     +   AY   ++  IL++R    L   V++P+ LEL + 
Sbjct: 188 DVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISD 247

Query: 339 KVA---AASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNS 395
                    G  R+A+   + A E+ EA  R+                            
Sbjct: 248 VYGEDKGGDGSARRAIVALKMACEMAEAMGRD---------------------------- 279

Query: 396 QVRVDHMAVALSNTFKSPV-VDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMN 454
            +  D +  A+S    + +    +++L  H+ I+L    +   GG + +  G L + Y +
Sbjct: 280 SLSEDLVRKAVSENEAASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYED 339

Query: 455 ICKTSL-IPPVGTLEFFSMCRVLHDQGVLKV--------GRDDKLKRVTLKADESDITFA 505
              T   + P G  ++    + L   G++          GR   L R+        +   
Sbjct: 340 ASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAKPSGRGMRGR-TTLFRLAPHLPADRLIEV 398

Query: 506 LQ 507
           + 
Sbjct: 399 VD 400

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae} Length = 318

 Score =  183 bits (464), Expect = 1e-53
 Identities = 40/308 (12%), Positives = 93/308 (30%), Gaps = 42/308 (13%)

Query: 106 DVEQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLS 165
           D+    ++RE+L        +  + ++  ++      +L   +    Y+     + K   
Sbjct: 5   DINLEESIRESLQ---KRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQL 61

Query: 166 MEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYL 225
           +  V   L+  +    L   +   I+   L     ++ KI   +            L+ L
Sbjct: 62  VNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDI--SLEAL 119

Query: 226 QNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLA 285
              Y   +  +  +  LI+    + L++    +L       +   S+  +I +       
Sbjct: 120 NF-YITNVPKAKKRKTLILIQNPENLLSEK--ILQYFEKWISSKNSKLSIICVGGHNVTI 176

Query: 286 DRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSY-------------------- 325
              +  + S+      +      K+++ +++  RL  L                      
Sbjct: 177 REQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIRE 236

Query: 326 --------------IVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSK 371
                              +  +L A+ VA  SG   KA  +C +A+EI + +       
Sbjct: 237 GQNQKIPDNVIVINHKINNKITQLIAKNVANVSGSTEKAFKICEAAVEISKKDFVRKGGL 296

Query: 372 MNSASAEQ 379
                   
Sbjct: 297 QKGKLVVS 304

>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 = 90.7 bits (224), Expect = 3e-19
 Identities = 83/530 (15%), Positives = 165/530 (31%), Gaps = 143/530 (26%)

Query: 48  ISTPMKLKPPRRCVNSSPNSGANGIEMEINEKLMSARKSPVKKKLCDSFKSKPNWNPQDV 107
           I +   +    R   +  +     ++  + E L         K L    K++        
Sbjct: 55  IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL-----RINYKFLMSPIKTEQRQPSMMT 109

Query: 108 EQMSAVREALH--VSTAPSTIVCREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKS- 163
                 R+ L+          V R     K+    ++ L E   A ++ + G  G+GK+ 
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL----RQALLELRPAKNVLIDGVLGSGKTW 165

Query: 164 LSMEKVQHYLVDWAKEAGLQQPEVFSIN---CTSLTNTSEIFSKILLKLQPRKKLNGSTS 220
           ++++    Y V    +       +F +N   C S     E+  K+L ++ P        S
Sbjct: 166 VALDVCLSYKVQCKMDFK-----IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220

Query: 221 ---PL------QYLQNLYSQKLHSSVMKMMLIIADE------LDY--------LITRDRA 257
               L        L+ L   K +    +  L++          +         L TR + 
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPY----ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ 276

Query: 258 VLHDLFMLTTF---------PFSRFILIGI-ANAIDLADRFLPRLQSMNCKPLVVT-FRA 306
           V   L   TT            +   +  +    +D   + LPR + +   P  ++    
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR-EVLTTNPRRLSIIAE 335

Query: 307 YSKDQIIRILQ---------ERLMELSYIVFQPQALELCARKVAAASGDMRK---ALSVC 354
             +D +                ++E S  V +P               + RK    LSV 
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP--------------AEYRKMFDRLSVF 381

Query: 355 R-------SAIEIL-----EAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHM 402
                     + ++     ++++   V+K++  S    L ++Q         S + +  +
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS----LVEKQPK------ESTISIPSI 431

Query: 403 AVALSNTFKSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIP 462
            + L        ++   +L  H+ I     V  +           + K++       LIP
Sbjct: 432 YLELKVK-----LENEYAL--HRSI-----VDHYN----------IPKTF---DSDDLIP 466

Query: 463 PVGTLEFFSMCRVL--HDQGVLKVGRDDKLKRVTLKADESDITFALQGVR 510
           P     F+S    +  H + +    R    + V L     D  F  Q +R
Sbjct: 467 PYLDQYFYSH---IGHHLKNIEHPERMTLFRMVFL-----DFRFLEQKIR 508

>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 = 49.5 bits (118), Expect = 2e-06
 Identities = 48/239 (20%), Positives = 81/239 (33%), Gaps = 41/239 (17%)

Query: 152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP 211
             + G PG GK+ +   V       A+E G    E          N S++ SK LL    
Sbjct: 80  AMLYGPPGIGKTTAAHLV-------AQELGYDILEQ---------NASDVRSKTLL---- 119

Query: 212 RKKLNGSTSPLQYLQNLYSQ-KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF 270
              +  +   +  +       +  +   K  +II DE+D +   DR  +  L        
Sbjct: 120 NAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQL-AQFCRKT 178

Query: 271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSY---IV 327
           S  + I I N  +     +       C  L + FR    + I      RLM ++      
Sbjct: 179 STPL-ILICN--ERNLPKMRPFDR-VC--LDIQFRRPDANSIK----SRLMTIAIREKFK 228

Query: 328 FQPQALELCARKVAAASGDMRKA---LSVCRSAIEILEAEMRESVSKMNSASAEQGLFD 383
             P  ++   +      GD+R+    LS   +  + +  E    +SK    +     FD
Sbjct: 229 LDPNVIDRLIQ---TTRGDIRQVINLLSTISTTTKTINHENINEISKAWEKNIALKPFD 284

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Length = 368

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 20/112 (17%), Positives = 35/112 (31%), Gaps = 10/112 (8%)

Query: 260 HDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQER 319
             L M T    +R       +   +    L RL        +V+   YS+    +IL+ R
Sbjct: 219 PVLIMATNRGITRIRGTSYQSPHGIPIDLLDRLL-------IVSTTPYSEKDTKQILRIR 271

Query: 320 LMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSK 371
             E   +     A  +  R        +R A+ +  +A  +        V  
Sbjct: 272 CEEED-VEMSEDAYTVLTRI--GLETSLRYAIQLITAASLVCRKRKGTEVQV 320

>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 = 40.4 bits (95), Expect = 4e-04
 Identities = 32/191 (16%), Positives = 65/191 (34%), Gaps = 47/191 (24%)

Query: 131 DEQKKVLEFCK---KNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEV 187
             Q + L   +    N   E+   L   G PG GK+       H  V   K    ++   
Sbjct: 17  VSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKT-------HLAVATLKAIYEKK--- 66

Query: 188 FSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADE 247
             I      +T ++  ++       K L       ++L+ + +  +        L++ D+
Sbjct: 67  -GIRGY-FFDTKDLIFRL-------KHLMDEGKDTKFLKTVLNSPV--------LVL-DD 108

Query: 248 LDYL-ITRD-RAVLHDLF----------MLTT-FPFSRFILIGIANAIDLADRFLPRLQS 294
           L    ++   R ++  +           ++TT +   R     +  + DLA R    + S
Sbjct: 109 LGSERLSDWQRELISYIITYRYNNLKSTIITTNYSLQREEESSVRISADLASRLGENVVS 168

Query: 295 ---MNCKPLVV 302
                 + LV+
Sbjct: 169 KIYEMNELLVI 179

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	517
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	100.0
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	100.0
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	100.0
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	100.0
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	100.0
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.91
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.91
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.9
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.9
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.9
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.89
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.88
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.87
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.85
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.85
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.84
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.84
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.84
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.83
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.83
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.82
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.82
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.82
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.81
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.81
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.8
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.8
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.8
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.8
3pvs_A	447	Replication-associated recombination protein A; ma	99.8
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.79
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.79
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.79
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.79
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.78
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.78
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.78
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.78
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.78
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.77
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.76
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.76
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.76
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.75
3bos_A	242	Putative DNA replication factor; P-loop containing	99.75
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.73
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.73
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.73
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.72
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.72
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.71
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.69
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.68
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.67
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.66
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.66
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.65
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.64
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.62
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.61
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.61
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.6
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.6
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.6
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.59
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.59
2fna_A	357	Conserved hypothetical protein; structural genomic	99.58
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.57
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.56
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.55
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.55
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.51
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.5
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.49
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.49
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.47
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.47
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.46
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.44
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.35
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.31
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.3
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.26
3co5_A	143	Putative two-component system transcriptional RES	99.25
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	99.15
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.96
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	98.95
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.89
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.87
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.83
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.77
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.76
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.75
3f8t_A	506	Predicted ATPase involved in replication control,	98.71
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.7
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.38
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.36
2qgz_A	308	Helicase loader, putative primosome component; str	98.36
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.34
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.27
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.17
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.06
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	98.04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.82
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.79
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.77
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.58
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.58
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.48
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.42
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.4
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.38
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.37
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.27
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.23
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.14
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.12
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.12
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.12
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.01
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.96
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.94
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.94
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.85
3io5_A	333	Recombination and repair protein; storage dimer, i	96.83
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.83
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.8
3kw6_A	78	26S protease regulatory subunit 8; structural geno	96.8
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.74
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	96.68
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.68
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.66
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.62
2krk_A	86	26S protease regulatory subunit 8; structural geno	96.61
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.6
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.56
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.54
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.54
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.48
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.47
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.45
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	96.45
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.44
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.41
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.4
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	96.4
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.33
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.32
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.32
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.32
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.31
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.28
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.27
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.27
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.21
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.2
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.19
1via_A	175	Shikimate kinase; structural genomics, transferase	96.18
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.17
3b6e_A	216	Interferon-induced helicase C domain-containing P;	96.17
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.15
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.15
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.12
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.1
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.09
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.09
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.05
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.02
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.02
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.0
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.99
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.98
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.98
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	95.96
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.96
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.95
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.93
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.93
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.93
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.91
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.89
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	95.87
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.87
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.87
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.86
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.86
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.86
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.85
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.84
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.84
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.83
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.83
3ice_A	422	Transcription termination factor RHO; transcriptio	95.83
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.83
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.79
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.77
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.76
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.75
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.75
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	95.73
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.71
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.68
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.68
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.65
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.64
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.63
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.62
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.61
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.61
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.61
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.59
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	95.57
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.52
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.52
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	95.51
2xxa_A	433	Signal recognition particle protein; protein trans	95.51
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.5
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	95.48
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.43
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.4
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	95.4
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.39
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	95.38
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.37
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	95.36
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.35
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.35
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.35
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.34
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	95.33
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	95.32
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.32
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.31
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	95.31
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.31
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	95.28
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.25
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.23
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.22
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.22
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.17
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	95.13
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.07
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.06
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	95.05
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.01
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	94.99
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	94.96
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	94.94
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.92
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.91
3bor_A	237	Human initiation factor 4A-II; translation initiat	94.9
1p6r_A	82	Penicillinase repressor; transcription regulation,	94.89
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.84
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.81
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.79
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	94.78
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.76
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	94.76
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.76
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.73
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.67
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.66
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.64
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.62
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.62
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.62
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	94.61
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.6
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	94.6
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.59
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.58
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	94.55
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.55
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.54
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	94.54
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	94.54
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.54
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.5
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	94.5
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.49
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.48
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	94.48
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.47
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.45
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	94.41
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.38
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.33
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.32
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.32
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	94.31
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	94.3
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.3
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.27
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.22
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.21
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.19
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.18
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.17
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.16
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.1
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.1
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.09
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.05
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.03
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.0
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.0
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.97
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	93.93
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.92
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	93.91
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.9
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	93.9
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.89
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	93.85
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	93.84
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.84
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.79
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	93.77
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.76
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	93.66
2og2_A	359	Putative signal recognition particle receptor; nuc	93.64
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	93.63
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	93.6
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.59
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.58
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.53
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.51
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	93.51
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	93.46
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	93.42
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	93.42
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	93.4
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.4
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.35
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.31
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.29
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.23
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.21
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.18
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	93.12
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.12
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	93.1
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.07
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	92.99
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	92.98
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	92.98
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.95
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	92.95
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.91
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	92.91
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.88
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	92.88
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	92.87
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	92.86
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	92.85
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	92.83
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.83
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.82
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	92.81
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	92.8
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	92.79
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	92.79
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	92.77
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	92.74
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	92.69
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	92.69
1b0u_A	262	Histidine permease; ABC transporter, transport pro	92.68
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.65
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	92.63
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	92.62
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	92.49
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	92.47
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.46
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	92.45
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	92.45
1sgw_A	214	Putative ABC transporter; structural genomics, P p	92.44
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	92.43
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.43
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.43
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.41
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	92.4
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	92.4
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.4
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	92.39
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.38
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.38
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	92.35
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.35
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.34
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	92.33
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	92.32
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	92.29
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	92.26
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.23
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.23
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	92.23
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	92.23
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.21
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.21
1g6h_A	257	High-affinity branched-chain amino acid transport	92.2
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.19
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.18
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	92.16
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.15
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.13
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.13
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.11
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	92.1
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	92.1
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.08
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	92.08
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.06
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.06
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.04
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.03
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.03
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.0
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	92.0
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	91.98
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	91.96
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	91.95
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	91.94
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	91.93
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	91.89
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	91.89
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	91.88
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	91.84
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.84
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	91.83
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	91.82
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.8
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	91.77
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	91.77
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	91.76
2k4b_A	99	Transcriptional regulator; DNA binding protein, wi	91.73
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	91.69
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	91.69
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	91.68
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	91.67
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	91.67
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	91.67
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	91.64
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	91.63
3l0o_A	427	Transcription termination factor RHO; helicase, RH	91.62
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	91.62
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	91.6
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	91.59
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	91.58
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	91.56
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	91.55
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	91.52
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	91.51
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	91.48
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	91.48
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.47
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	91.42
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.38
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.38
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	91.33
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	91.32
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	91.3
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.3
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	91.28
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	91.26
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.19
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	91.16
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.14
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.13
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	91.1
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.09
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	91.09
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	91.07
2g9w_A	138	Conserved hypothetical protein; DNA-binding domain	91.05
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.03
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.02
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	90.98
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	90.98
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	90.97
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	90.95
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	90.94
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	90.94
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	90.91
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	90.9
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	90.9
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	90.9
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	90.87
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	90.83
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	90.83
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	90.81
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	90.79
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	90.79
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	90.77
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	90.75
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	90.74
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	90.74
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	90.72
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	90.71

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=100.00  E-value=1.3e-42  Score=356.21  Aligned_cols=373  Identities=25%  Similarity=0.318  Sum_probs=312.4

Q ss_pred             HHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE
Q 010136          110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS  189 (517)
Q Consensus       110 ~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~  189 (517)
                      ++.+++.|++++.|+.++||+++++.+..++...+....+.+++|+||||||||++++.+++.+.......+.. +.+++
T Consensus         5 ~f~~~~~l~~~~~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~-~~~~~   83 (387)
T 2v1u_A            5 IFRKRWVLLPDYVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVL-VKPIY   83 (387)
T ss_dssp             SBSCHHHHSTTCCCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCC-EEEEE
T ss_pred             hhhCHHhcCCccCCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCC-eEEEE
Confidence            34567789999999999999999999999998887777888999999999999999999999987654333332 67999


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCC
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTT  267 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~  267 (517)
                      +||....+...++..++.+++.... ..+....+.+..++.  .....+++.||||||+|.+...  .++.|+.++++..
T Consensus        84 i~~~~~~~~~~~~~~l~~~l~~~~~-~~~~~~~~~~~~l~~--~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~  160 (387)
T 2v1u_A           84 VNARHRETPYRVASAIAEAVGVRVP-FTGLSVGEVYERLVK--RLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQ  160 (387)
T ss_dssp             EETTTSCSHHHHHHHHHHHHSCCCC-SSCCCHHHHHHHHHH--HHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGG
T ss_pred             EECCcCCCHHHHHHHHHHHhCCCCC-CCCCCHHHHHHHHHH--HHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchh
Confidence            9999999999999999999965322 223333343444443  1223556899999999999877  6789999998854


Q ss_pred             C-C-CCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-hhccCCCChhHHHHHHHHHHHHh
Q 010136          268 F-P-FSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-ELSYIVFQPQALELCARKVAAAS  344 (517)
Q Consensus       268 ~-~-~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-~~~~~~~~~~ai~~ia~~~~~~~  344 (517)
                      . . ..++.+|+++|..++.+.+.+++.+| +....+.|+||+.+++.+|+..++. .+....+++++++.+++.+....
T Consensus       161 ~~~~~~~~~~I~~t~~~~~~~~l~~~l~~r-~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  239 (387)
T 2v1u_A          161 ELGDRVWVSLVGITNSLGFVENLEPRVKSS-LGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREH  239 (387)
T ss_dssp             CC-----CEEEEECSCSTTSSSSCHHHHTT-TTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSS
T ss_pred             hcCCCceEEEEEEECCCchHhhhCHHHHhc-CCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhc
Confidence            2 2 57899999999887777888999998 6667999999999999999999987 44456789999999998766566


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHH
Q 010136          345 GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQH  424 (517)
Q Consensus       345 Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~  424 (517)
                      ||+|.++++|+.|+.+|..++..                            .|+.+||.+|+.....+.+...+.+|+.+
T Consensus       240 G~~r~~~~~l~~a~~~a~~~~~~----------------------------~i~~~~v~~a~~~~~~~~~~~~~~~l~~~  291 (387)
T 2v1u_A          240 GDARRALDLLRVAGEIAERRREE----------------------------RVRREHVYSARAEIERDRVSEVVRTLPLH  291 (387)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCS----------------------------CBCHHHHHHHHHHHHHHHHHHHHHSSCHH
T ss_pred             cCHHHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHHhhchHHHHHHcCCHH
Confidence            99999999999999888765443                            79999999999999877888899999999


Q ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCceeEEEeecCH
Q 010136          425 QQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKLKRVTLKADE  499 (517)
Q Consensus       425 ~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~~~~~l~~~~  499 (517)
                      ++.+|++++.+.. +...++++++|+.|..+|+..+..|++..++..+++.|+..|+|...     ++|+++.++|.+++
T Consensus       292 ~~~~l~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~g~~g~~~~~~l~~~~  370 (387)
T 2v1u_A          292 AKLVLLSIMMLED-GGRPASTGEIYERYKELTSTLGLEHVTLRRVSGIISELDMLGIVKSRVVSRGRYGKTREVSLDADR  370 (387)
T ss_dssp             HHHHHHHHHHHSS-SSCCEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEEEEEECGGGCEEEEEEECSCH
T ss_pred             HHHHHHHHHHHhc-CCCCCcHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCeEEEeecCCCCCceeEEEecCCH
Confidence            9999999997765 55578999999999999999999999999999999999999999873     57889999999999


Q ss_pred             HHHHHHHhCChhhhhhc
Q 010136          500 SDITFALQGVRFFRNCL  516 (517)
Q Consensus       500 ~~i~~~l~~~~~~~~~~  516 (517)
                      ++|.++|++|+.|+.+|
T Consensus       371 ~~i~~~l~~~~~~~~~~  387 (387)
T 2v1u_A          371 LAVENALSEDPFVARLL  387 (387)
T ss_dssp             HHHHHHHHHSTTGGGGC
T ss_pred             HHHHHHHhccHhhhhcC
Confidence            99999999999999875

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.8e-41  Score=331.67  Aligned_cols=272  Identities=14%  Similarity=0.182  Sum_probs=224.7

Q ss_pred             hhcCcCCCCCC-CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          115 EALHVSTAPST-IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       115 ~~l~~~~~p~~-l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +.|.++|.|.. |+|||+|++.|..+|..++.++.++++||+||||||||++++.+++++.......+.+.+.+++|||+
T Consensus        10 ~~l~~~~~~~~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~   89 (318)
T 3te6_A           10 ESIRESLQKRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDAL   89 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETT
T ss_pred             hhhhhccCCccccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEecc
Confidence            34445566655 99999999999999999999999999999999999999999999999987665555666899999999


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcE
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRF  273 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v  273 (517)
                      .+.+++.+|..|+.++.+.... .+ ...+.|..+|... ......++||||||+|.|.  .|++||.+++|.....+++
T Consensus        90 ~~~t~~~~~~~I~~~L~g~~~~-~~-~~~~~L~~~f~~~-~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~  164 (318)
T 3te6_A           90 ELAGMDALYEKIWFAISKENLC-GD-ISLEALNFYITNV-PKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKL  164 (318)
T ss_dssp             CCC--HHHHHHHHHHHSCCC---CC-CCHHHHHHHHHHS-CGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCE
T ss_pred             ccCCHHHHHHHHHHHhcCCCCC-ch-HHHHHHHHHHHHh-hhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcE
Confidence            9999999999999999765432 22 2367788888731 1134678999999999998  7899999999987788899


Q ss_pred             EEEEEECCCCcchh-hcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccC--------------------------
Q 010136          274 ILIGIANAIDLADR-FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYI--------------------------  326 (517)
Q Consensus       274 ~lI~ian~~~~~~~-l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~--------------------------  326 (517)
                      +||||+|+++++++ +++++.|| +..++|.|+||+.+|+.+||+.|+..+...                          
T Consensus       165 ~vI~i~n~~d~~~~~L~~~v~SR-~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  243 (318)
T 3te6_A          165 SIICVGGHNVTIREQINIMPSLK-AHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIP  243 (318)
T ss_dssp             EEEEECCSSCCCHHHHHTCHHHH-TTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------C
T ss_pred             EEEEEecCcccchhhcchhhhcc-CCceEEEeCCCCHHHHHHHHHHHHHhhhcccccccccccccccccccccccccccc
Confidence            99999999998886 57899999 777899999999999999999999865322                          


Q ss_pred             --------CCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCcccc
Q 010136          327 --------VFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVR  398 (517)
Q Consensus       327 --------~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt  398 (517)
                              .++++++++||++++..+||+|+|+++|+.|+++|+.+...+....     +.              ...||
T Consensus       244 ~~~~~~~~~i~~~ai~~~A~~vA~~~GD~R~Al~ilr~A~~~ae~e~~~k~~~~-----~~--------------~~~i~  304 (318)
T 3te6_A          244 DNVIVINHKINNKITQLIAKNVANVSGSTEKAFKICEAAVEISKKDFVRKGGLQ-----KG--------------KLVVS  304 (318)
T ss_dssp             TTEEEECEECCHHHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHTTEE-----TT--------------EECCS
T ss_pred             ccccccccccCHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHHHHHhccCCC-----CC--------------cEEee
Confidence                    4699999999999999999999999999999999999877632211     01              11688


Q ss_pred             HHHHHHHHHHhcc
Q 010136          399 VDHMAVALSNTFK  411 (517)
Q Consensus       399 ~~~v~~a~~~~~~  411 (517)
                      .+++.++++++..
T Consensus       305 ~~~~~~~~~~~~~  317 (318)
T 3te6_A          305 QEMVPRYFSEAIN  317 (318)
T ss_dssp             EECCTHHHHHHHC
T ss_pred             HHHHHHHHHHHhc
Confidence            8888888887653

>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=100.00  E-value=1e-39  Score=334.39  Aligned_cols=370  Identities=24%  Similarity=0.309  Sum_probs=294.3

Q ss_pred             HHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEE
Q 010136          110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFS  189 (517)
Q Consensus       110 ~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~  189 (517)
                      ++.+++.|++++.|+.++||+++++.+..++...+.+..+.+++|+||||||||++++.+++.+......    ...+++
T Consensus         6 i~~~~~~l~~~~~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~----~~~~~~   81 (386)
T 2qby_A            6 IFINREYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLG----KFKHVY   81 (386)
T ss_dssp             CBSCGGGGSSSCCCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCS----SCEEEE
T ss_pred             cccchhhCCCccCCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcC----CceEEE
Confidence            3445677889999999999999999999999887777778899999999999999999999887643110    257999


Q ss_pred             EeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhccCC-
Q 010136          190 INCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFMLTT-  267 (517)
Q Consensus       190 vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~~-  267 (517)
                      ++|....+...++..++..++.... ..+....+.+..++. . ......+.||||||+|.+.... ++.++.++++.. 
T Consensus        82 i~~~~~~~~~~~~~~i~~~l~~~~~-~~~~~~~~~~~~l~~-~-l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~  158 (386)
T 2qby_A           82 INTRQIDTPYRVLADLLESLDVKVP-FTGLSIAELYRRLVK-A-VRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSE  158 (386)
T ss_dssp             EEHHHHCSHHHHHHHHTTTTSCCCC-SSSCCHHHHHHHHHH-H-HHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHHHHhCCCCC-CCCCCHHHHHHHHHH-H-HhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhh
Confidence            9998888888888888887754322 123332333333332 1 1134458999999999998664 778888877642 


Q ss_pred             CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-hhccCCCChhHHHHHHHHHHHHhCC
Q 010136          268 FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-ELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      ....++.+|+++|..++...+.+++.+| +..+.+.|+||+.+++.+++..++. .+....+++++++++++.....+|+
T Consensus       159 ~~~~~~~~I~~~~~~~~~~~~~~~~~~r-~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~  237 (386)
T 2qby_A          159 VNKSKISFIGITNDVKFVDLLDPRVKSS-LSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGD  237 (386)
T ss_dssp             CCC--EEEEEEESCGGGGGGCTTHHHHT-TTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCC
T ss_pred             cCCCeEEEEEEECCCChHhhhCHHHhcc-CCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCC
Confidence            2456899999999887777888899998 6667999999999999999999886 4444578999999999876656699


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHH
Q 010136          347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQ  426 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k  426 (517)
                      +|.++++|+.|+.+|..++..                            .|+.+||..|+..+....+...+.++|.+++
T Consensus       238 ~r~~~~ll~~a~~~a~~~~~~----------------------------~i~~~~v~~a~~~~~~~~~~~~~~~l~~~~~  289 (386)
T 2qby_A          238 ARRALDLLRVSGEIAERMKDT----------------------------KVKEEYVYMAKEEIERDRVRDIILTLPFHSK  289 (386)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCS----------------------------SCCHHHHHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCC----------------------------ccCHHHHHHHHHHHhhchHHHHHHcCCHHHH
Confidence            999999999999888765544                            7999999999999887777888999999999


Q ss_pred             HHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCceeEEEeecCHHH
Q 010136          427 ILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKLKRVTLKADESD  501 (517)
Q Consensus       427 ~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~~~~~l~~~~~~  501 (517)
                      .+|++++.+...+...+++++||+.|..+|+..+..|++..++..+++.|+.+|+|...     +.|+|+.++|.+++++
T Consensus       290 ~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~~g~y~~~~l~~~~~~  369 (386)
T 2qby_A          290 LVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVEAVTQRRVSDIINELDMVGILTAKVVNRGRYGKTKEIGLAVDKNI  369 (386)
T ss_dssp             HHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTCCCCCHHHHHHHHHHHHHHTSEEEEECCCTTSCCCEEEEESSCSHH
T ss_pred             HHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCEEEEeecCCCCCCeEEEEeCCCHHH
Confidence            99999998765555668899999999999999999999999999999999999999753     5789999999999999


Q ss_pred             HHHHHhC-Chhhhhh
Q 010136          502 ITFALQG-VRFFRNC  515 (517)
Q Consensus       502 i~~~l~~-~~~~~~~  515 (517)
                      |.++|++ |+.|..+
T Consensus       370 v~~~l~~~~~~~~~~  384 (386)
T 2qby_A          370 IVRSLIESDSRFADL  384 (386)
T ss_dssp             HHHHHHHHC------
T ss_pred             HHHHHhcCChhhhhh
Confidence            9999999 9988765

>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=100.00  E-value=7.1e-39  Score=328.50  Aligned_cols=353  Identities=21%  Similarity=0.287  Sum_probs=290.2

Q ss_pred             HHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHH-hcCCCCceEE
Q 010136          110 MSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAK-EAGLQQPEVF  188 (517)
Q Consensus       110 ~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~-~~~~~~~~~v  188 (517)
                      ++.++..|++.+.|+.++||+++++.+..++..++.+..+.+++|+||||||||++++.+++++..... +.+.+.+.++
T Consensus         6 i~~~~~~l~~~~~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~   85 (384)
T 2qby_B            6 IKNPKVFIDPLSVFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQA   85 (384)
T ss_dssp             -CCTTTTTCHHHHCSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEE
T ss_pred             ccccHhhcCCccCCCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEE
Confidence            445566788889999999999999999999999888877889999999999999999999999876432 1122126799


Q ss_pred             EEeCCCCC-CHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-chH-HHHHhcc
Q 010136          189 SINCTSLT-NTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAV-LHDLFML  265 (517)
Q Consensus       189 ~vn~~~~~-s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~-L~~l~~~  265 (517)
                      ++||.... ++..++..++.++.+......+......+..++..  . ...++ ||||||+|.+.... ++. ++.|+++
T Consensus        86 ~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~--l-~~~~~-vlilDEi~~l~~~~~~~~~l~~l~~~  161 (384)
T 2qby_B           86 YVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNG--T-RNIRA-IIYLDEVDTLVKRRGGDIVLYQLLRS  161 (384)
T ss_dssp             EEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHH--H-SSSCE-EEEEETTHHHHHSTTSHHHHHHHHTS
T ss_pred             EEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHH--h-ccCCC-EEEEECHHHhccCCCCceeHHHHhcC
Confidence            99999888 89999999999985433333333333444444431  1 12333 99999999998764 788 9999988


Q ss_pred             CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-hhccCCCChhHHHHHHHHHHHHh
Q 010136          266 TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-ELSYIVFQPQALELCARKVAAAS  344 (517)
Q Consensus       266 ~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-~~~~~~~~~~ai~~ia~~~~~~~  344 (517)
                      .    .++.+|+++|..++.+.+++++.+| +.. .+.|+||+.+++.+|+..++. ++....+++++++.+++.+....
T Consensus       162 ~----~~~~iI~~t~~~~~~~~l~~~l~sr-~~~-~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  235 (384)
T 2qby_B          162 D----ANISVIMISNDINVRDYMEPRVLSS-LGP-SVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEH  235 (384)
T ss_dssp             S----SCEEEEEECSSTTTTTTSCHHHHHT-CCC-EEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTC
T ss_pred             C----cceEEEEEECCCchHhhhCHHHHhc-CCC-eEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhcc
Confidence            6    6889999999877777889999998 544 999999999999999999987 45556889999999999776667


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHH
Q 010136          345 GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQH  424 (517)
Q Consensus       345 Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~  424 (517)
                      ||+|.|+++|+.|+.+|.  +..                            .|+.+||.+++.+...+.+...+.+|+.+
T Consensus       236 G~~r~a~~~l~~a~~~a~--~~~----------------------------~i~~~~v~~~~~~~~~~~~~~~~~~l~~~  285 (384)
T 2qby_B          236 GDARKAVNLLFRAAQLAS--GGG----------------------------IIRKEHVDKAIVDYEQERLIEAVKALPFH  285 (384)
T ss_dssp             CCHHHHHHHHHHHHHHTT--SSS----------------------------CCCHHHHHHHHHHHHHHHHHHHHHSSCHH
T ss_pred             CCHHHHHHHHHHHHHHhc--CCC----------------------------ccCHHHHHHHHHHHhcchHHHHHHcCCHH
Confidence            999999999999998876  222                            79999999999999887888889999999


Q ss_pred             HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCceeEEEeecCH
Q 010136          425 QQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKLKRVTLKADE  499 (517)
Q Consensus       425 ~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~~~~~l~~~~  499 (517)
                      ++.+|++++. ..      .-+++++.|..+|+.++..|++..++.++++.|+..|+|...     ++|+++.++|.+++
T Consensus       286 ~~~~l~al~~-~~------~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~~~~~~g~~g~~~~~~l~~~~  358 (384)
T 2qby_B          286 YKLALRSLIE-SE------DVMSAHKMYTDLCNKFKQKPLSYRRFSDIISELDMFGIVKIRIINRGRAGGVKKYALVEDK  358 (384)
T ss_dssp             HHHHHHHHHT-CC------BHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEEEEECCTTTTCCEEEEEESSS
T ss_pred             HHHHHHHHHH-hc------ccChHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCEEEEeccCCCCCceEEEEecCCH
Confidence            9999999885 11      117889999999999998999999999999999999999864     46889999999999


Q ss_pred             HHHHHHHhCC
Q 010136          500 SDITFALQGV  509 (517)
Q Consensus       500 ~~i~~~l~~~  509 (517)
                      ++|.++|+++
T Consensus       359 ~~v~~~l~~~  368 (384)
T 2qby_B          359 EKVLRALNET  368 (384)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999864

>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=100.00  E-value=7e-38  Score=321.48  Aligned_cols=356  Identities=18%  Similarity=0.239  Sum_probs=287.5

Q ss_pred             HHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCC--eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEE
Q 010136          113 VREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAG--SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI  190 (517)
Q Consensus       113 ~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~--~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~v  190 (517)
                      ++..|++++.|+.++||+++++.+..++...+.+..+.  +++|+||||||||++++.+++.+....      .+.++++
T Consensus         6 ~~~~l~~~~~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~------~~~~~~i   79 (389)
T 1fnn_A            6 DDSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT------TARFVYI   79 (389)
T ss_dssp             CGGGGSTTCCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC------CCEEEEE
T ss_pred             CHhhcCCccCCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc------CeeEEEE
Confidence            45678889999999999999999999999988776666  899999999999999999988764310      2579999


Q ss_pred             eCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC-C
Q 010136          191 NCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF-P  269 (517)
Q Consensus       191 n~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~-~  269 (517)
                      ||....+...++..++..++.... ..+......+..+.. . ......+.||||||+|.+   ....++.|+++... .
T Consensus        80 ~~~~~~~~~~~~~~l~~~l~~~~~-~~~~~~~~~~~~l~~-~-l~~~~~~~vlilDE~~~l---~~~~~~~L~~~~~~~~  153 (389)
T 1fnn_A           80 NGFIYRNFTAIIGEIARSLNIPFP-RRGLSRDEFLALLVE-H-LRERDLYMFLVLDDAFNL---APDILSTFIRLGQEAD  153 (389)
T ss_dssp             ETTTCCSHHHHHHHHHHHTTCCCC-SSCCCHHHHHHHHHH-H-HHHTTCCEEEEEETGGGS---CHHHHHHHHHHTTCHH
T ss_pred             eCccCCCHHHHHHHHHHHhCccCC-CCCCCHHHHHHHHHH-H-HhhcCCeEEEEEECcccc---chHHHHHHHHHHHhCC
Confidence            999999999999999998864322 122332332222221 1 112456789999999999   45666666666432 2


Q ss_pred             C---CcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh-hccCCCChhHHHHHHHHHHHH--
Q 010136          270 F---SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVAAA--  343 (517)
Q Consensus       270 ~---~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~-~~~~~~~~~ai~~ia~~~~~~--  343 (517)
                      .   .++.+|+++|..++.+.+.+++.+| +....+.|+||+.+++.+++..++.. +....+++++++.+++.++..  
T Consensus       154 ~~~~~~~~iI~~~~~~~~~~~l~~~~~~r-~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  232 (389)
T 1fnn_A          154 KLGAFRIALVIVGHNDAVLNNLDPSTRGI-MGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTP  232 (389)
T ss_dssp             HHSSCCEEEEEEESSTHHHHTSCHHHHHH-HTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSST
T ss_pred             CCCcCCEEEEEEECCchHHHHhCHHhhhc-CCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhccc
Confidence            2   5889999999877777788888888 66568999999999999999999863 334578999999998865444  


Q ss_pred             ----hCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhc
Q 010136          344 ----SGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIK  419 (517)
Q Consensus       344 ----~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~  419 (517)
                          .||+|.++++|+.|+.+|..++..                            .|+.+||..++.......+...+.
T Consensus       233 ~~~~~G~~r~~~~~l~~a~~~a~~~~~~----------------------------~i~~~~v~~~~~~~~~~~~~~~l~  284 (389)
T 1fnn_A          233 LDTNRGDARLAIDILYRSAYAAQQNGRK----------------------------HIAPEDVRKSSKEVLFGISEEVLI  284 (389)
T ss_dssp             TCTTSCCHHHHHHHHHHHHHHHHHTTCS----------------------------SCCHHHHHHHHHHHSCCCCHHHHH
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHHhCCC----------------------------CcCHHHHHHHHHHHhhhhHHHHHH
Confidence                799999999999999988765544                            799999999999999888999999


Q ss_pred             cCCHHHHHHHHHHHHHHh-cCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-------cCCcee
Q 010136          420 SLPQHQQILLCSAVKFFR-GGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-------RDDKLK  491 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~-~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-------~~~~~~  491 (517)
                      .|+.+++.+|++++.+.+ .+...++++++++.|..+|+..++.+++..+++++++.|++.|||...       ++|+++
T Consensus       285 ~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~  364 (389)
T 1fnn_A          285 GLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERPRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTT  364 (389)
T ss_dssp             HSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSSEEEEC---------CE
T ss_pred             cCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCCCCCcee
Confidence            999999999999998864 222278999999999999999999999999999999999999999873       347889


Q ss_pred             EEEeecCHHHHHHHHhCC
Q 010136          492 RVTLKADESDITFALQGV  509 (517)
Q Consensus       492 ~~~l~~~~~~i~~~l~~~  509 (517)
                      .|+|.+++++|.+++.++
T Consensus       365 ~~~l~~~~~~v~~~~~~~  382 (389)
T 1fnn_A          365 LISIGTEPLDTLEAVITK  382 (389)
T ss_dssp             EEECCSSCHHHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHH
Confidence            999999999999998775

>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=100.00  E-value=6.1e-35  Score=301.97  Aligned_cols=364  Identities=19%  Similarity=0.242  Sum_probs=280.6

Q ss_pred             HHHHhhcCcCCCCCCCCCcHHHHHHHHHHH-HHhhcc--CCCCeEEE--EcCCCCcHHHHHHHHHHHHHHHHHhcCCCCc
Q 010136          111 SAVREALHVSTAPSTIVCREDEQKKVLEFC-KKNLEE--EKAGSLYV--CGCPGTGKSLSMEKVQHYLVDWAKEAGLQQP  185 (517)
Q Consensus       111 ~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L-~~~l~~--~~~~~lli--~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~  185 (517)
                      +.++..|++++.|+.++||+++++.|..++ .....+  ..+.+++|  +|+||+|||++++.+++.+.......+. .+
T Consensus         9 ~~~~~~~~~~~~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~-~~   87 (412)
T 1w5s_A            9 FKDRRVFDENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGL-TV   87 (412)
T ss_dssp             BSCGGGGSTTCCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTC-CE
T ss_pred             hccHhhcCCccCCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCC-ce
Confidence            345677889999999999999999999999 887765  56778999  9999999999999999988654322222 25


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc---CchHHHHH
Q 010136          186 EVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR---DRAVLHDL  262 (517)
Q Consensus       186 ~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~---~~~~L~~l  262 (517)
                      .+++++|....+...++..++..++..... .+....+.+..+.. ... ...++.||||||+|++...   .++.++.+
T Consensus        88 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~-~l~-~~~~~~llvlDe~~~l~~~~~~~~~~l~~l  164 (412)
T 1w5s_A           88 KQAYVNAFNAPNLYTILSLIVRQTGYPIQV-RGAPALDILKALVD-NLY-VENHYLLVILDEFQSMLSSPRIAAEDLYTL  164 (412)
T ss_dssp             EEEEEEGGGCCSHHHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHH-HHH-HHTCEEEEEEESTHHHHSCTTSCHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHH-HHH-hcCCeEEEEEeCHHHHhhccCcchHHHHHH
Confidence            789999988888999999999999654221 12222222222222 111 2356899999999999764   56778777


Q ss_pred             hccCC-CC--C--CcEEEEEEECCCCcchhhc---ccccccCCCceEEEeCCCCHHHHHHHHHHHHh-hhccCCCChhHH
Q 010136          263 FMLTT-FP--F--SRFILIGIANAIDLADRFL---PRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-ELSYIVFQPQAL  333 (517)
Q Consensus       263 ~~~~~-~~--~--~~v~lI~ian~~~~~~~l~---~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-~~~~~~~~~~ai  333 (517)
                      +++.. ..  +  .++.+|++++..++.+.+.   +++.++ +.. .+.|+||+.+++.+++..++. ......++++++
T Consensus       165 ~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~-~~~-~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~  242 (412)
T 1w5s_A          165 LRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQ-IGF-KLHLPAYKSRELYTILEQRAELGLRDTVWEPRHL  242 (412)
T ss_dssp             HTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTT-CSE-EEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHH
T ss_pred             HHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhh-cCC-eeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHH
Confidence            76632 12  4  7899999898766666666   777787 544 499999999999999998876 333346889999


Q ss_pred             HHHHHHHHHHh---CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          334 ELCARKVAAAS---GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       334 ~~ia~~~~~~~---Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      +.+++.+...+   |++|.++.+|+.|+..|..++..                            .|+.+++..++....
T Consensus       243 ~~i~~~~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~----------------------------~i~~~~v~~~~~~~~  294 (412)
T 1w5s_A          243 ELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRD----------------------------SLSEDLVRKAVSENE  294 (412)
T ss_dssp             HHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCS----------------------------SCCHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHHHh
Confidence            99988655445   99999999999998877655433                            689999999998876


Q ss_pred             -cChhHHHhccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHH-HhcCCCCCChHHHHHHHHHHhhcCceeec---
Q 010136          411 -KSPVVDTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNIC-KTSLIPPVGTLEFFSMCRVLHDQGVLKVG---  485 (517)
Q Consensus       411 -~~~~~~~i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~-~~~~~~~~~~~~~~~~~~~L~~~glI~~~---  485 (517)
                       ...+...+..||.+++.+|.+++.+...+...++++++++.|..+| +..+.++++..++..+++.|++.|||...   
T Consensus       295 ~~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~  374 (412)
T 1w5s_A          295 AASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAKPSG  374 (412)
T ss_dssp             -----CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEECC-
T ss_pred             ccchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEeeccc
Confidence             5556677889999999999999877654556789999999999999 99988899999999999999999999764   


Q ss_pred             --cCCceeEEEee--cCHHHHHHHHhC
Q 010136          486 --RDDKLKRVTLK--ADESDITFALQG  508 (517)
Q Consensus       486 --~~~~~~~~~l~--~~~~~i~~~l~~  508 (517)
                        +.|+++.++|.  +++++|.++|++
T Consensus       375 ~~~~g~~~~~~l~~~~~~~~~~~~~~~  401 (412)
T 1w5s_A          375 RGMRGRTTLFRLAPHLPADRLIEVVDN  401 (412)
T ss_dssp             ------CCEEEECTTSCHHHHHHHHHH
T ss_pred             CCCCCceeEEEeCCCCCHHHHHHHHHH
Confidence              56789999999  999999999875

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.91  E-value=9.8e-25  Score=219.97  Aligned_cols=227  Identities=18%  Similarity=0.169  Sum_probs=168.4

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      ..++++.|.+++.++|.+.+.-.+.         -..+.++|||||||||||++|++++.++.          ..|+.++
T Consensus       179 v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~----------~~fi~v~  248 (437)
T 4b4t_I          179 ESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTS----------ATFLRIV  248 (437)
T ss_dssp             CCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHT----------CEEEEEE
T ss_pred             CcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhC----------CCEEEEE
Confidence            3445899999999999998765332         23467999999999999999999999875          5799999


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~  260 (517)
                      +..+.+.+.                 |. ....++.+|..   +....|+||||||+|.+...+           +..+.
T Consensus       249 ~s~l~sk~v-----------------Ge-sek~ir~lF~~---Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~  307 (437)
T 4b4t_I          249 GSELIQKYL-----------------GD-GPRLCRQIFKV---AGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTML  307 (437)
T ss_dssp             SGGGCCSSS-----------------SH-HHHHHHHHHHH---HHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHH
T ss_pred             HHHhhhccC-----------------ch-HHHHHHHHHHH---HHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHH
Confidence            988755432                 22 26678888873   345678999999999997653           12344


Q ss_pred             HHhcc--CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHH
Q 010136          261 DLFML--TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCA  337 (517)
Q Consensus       261 ~l~~~--~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia  337 (517)
                      .|+.+  .......++||++||   .++.+|+++.+.+.....|+|+.++.++..+||+..+..+.   ++++ .++.+|
T Consensus       308 ~LL~~lDg~~~~~~ViVIaATN---rpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~---l~~dvdl~~LA  381 (437)
T 4b4t_I          308 ELLNQLDGFDDRGDVKVIMATN---KIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN---LSEDVNLETLV  381 (437)
T ss_dssp             HHHHHHHHCCCSSSEEEEEEES---CSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC---BCSCCCHHHHH
T ss_pred             HHHHHhhCcCCCCCEEEEEeCC---ChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC---CCCcCCHHHHH
Confidence            44443  123456899999999   57889999987322356899999999999999998887652   2332 377788


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          338 RKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                      +.+..++|  ...-.+|+.|+..|.++++.                            .|+.+||..|+.++..+..
T Consensus       382 ~~T~GfSG--ADI~~l~~eA~~~Air~~~~----------------------------~It~eDf~~Al~rv~~~~~  428 (437)
T 4b4t_I          382 TTKDDLSG--ADIQAMCTEAGLLALRERRM----------------------------QVTAEDFKQAKERVMKNKV  428 (437)
T ss_dssp             HHCCSCCH--HHHHHHHHHHHHHHHHTTCS----------------------------CBCHHHHHHHHHHHHHHHC
T ss_pred             HhCCCCCH--HHHHHHHHHHHHHHHHcCCC----------------------------ccCHHHHHHHHHHHhCCCC
Confidence            76544444  33447899999999887655                            7999999999988765443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.91  E-value=3.1e-24  Score=215.97  Aligned_cols=222  Identities=18%  Similarity=0.176  Sum_probs=162.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhh---------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNL---------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l---------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +++.|.+++.++|.+.+.--+         .-..+.++|||||||||||++|++++.+++          ..|+.+++..
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~----------~~f~~v~~s~  217 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTD----------CKFIRVSGAE  217 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHT----------CEEEEEEGGG
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhC----------CCceEEEhHH
Confidence            356788888777777754322         123467999999999999999999999875          5799999988


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~  263 (517)
                      +.+.+.                 |. ....++.+|..   +....|+||||||+|.+...+           +..+..|+
T Consensus       218 l~sk~v-----------------Ge-se~~vr~lF~~---Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL  276 (405)
T 4b4t_J          218 LVQKYI-----------------GE-GSRMVRELFVM---AREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELL  276 (405)
T ss_dssp             GSCSST-----------------TH-HHHHHHHHHHH---HHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHH
T ss_pred             hhcccc-----------------ch-HHHHHHHHHHH---HHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHH
Confidence            755432                 33 36778888873   345678999999999997642           12344555


Q ss_pred             ccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          264 MLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       264 ~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      .+.  ......++|||+||   .++.+||++.+.+.....|+|+.++.++..+||+..+....  .-++-.++.+|+.+.
T Consensus       277 ~~lDg~~~~~~V~vIaATN---rpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~--l~~dvdl~~lA~~t~  351 (405)
T 4b4t_J          277 NQLDGFETSKNIKIIMATN---RLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMN--LTRGINLRKVAEKMN  351 (405)
T ss_dssp             HHHHTTTCCCCEEEEEEES---CSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSB--CCSSCCHHHHHHHCC
T ss_pred             HhhhccCCCCCeEEEeccC---ChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCC--CCccCCHHHHHHHCC
Confidence            441  12456899999999   57788999987322356999999999999999998877642  112223777887654


Q ss_pred             HHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          342 AASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      +++|  ...-.+|+.|+..|.++++.                            .|+.+||..|+.++..
T Consensus       352 G~SG--ADi~~l~~eA~~~Air~~~~----------------------------~vt~~Df~~Al~~v~~  391 (405)
T 4b4t_J          352 GCSG--ADVKGVCTEAGMYALRERRI----------------------------HVTQEDFELAVGKVMN  391 (405)
T ss_dssp             SCCH--HHHHHHHHHHHHHHHHTTCS----------------------------BCCHHHHHHHHHHHHH
T ss_pred             CCCH--HHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHHhC
Confidence            4444  23347899999998877655                            7999999999987643

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.90  E-value=1.3e-23  Score=214.77  Aligned_cols=226  Identities=14%  Similarity=0.137  Sum_probs=166.2

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      ..++++.|.+++.++|.+.+.-.+.         -..+.++|||||||||||++|++++.+++          ..++.++
T Consensus       178 v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~----------~~~~~v~  247 (437)
T 4b4t_L          178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIG----------ANFIFSP  247 (437)
T ss_dssp             SCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHT----------CEEEEEE
T ss_pred             CChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhC----------CCEEEEe
Confidence            3445788999999999888755332         23467999999999999999999999875          5799999


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~  260 (517)
                      +..+.+.+.                 |. ....++.+|..   +....|+||||||+|.+...+           ...+.
T Consensus       248 ~s~l~sk~~-----------------Ge-se~~ir~~F~~---A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~  306 (437)
T 4b4t_L          248 ASGIVDKYI-----------------GE-SARIIREMFAY---AKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLM  306 (437)
T ss_dssp             GGGTCCSSS-----------------SH-HHHHHHHHHHH---HHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHH
T ss_pred             hhhhccccc-----------------hH-HHHHHHHHHHH---HHhcCCceeeeecccccccccccCCCCcchHHHHHHH
Confidence            988755432                 22 26677788873   345678999999999997542           12344


Q ss_pred             HHhccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          261 DLFMLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       261 ~l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      .|+.+.  ......++||++||   .++.++|++.+++.....|+|+.++.++..+||+..+..+..  ..+..++.+|+
T Consensus       307 ~lL~~lDg~~~~~~vivI~ATN---rp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~--~~d~dl~~lA~  381 (437)
T 4b4t_L          307 ELLTQMDGFDNLGQTKIIMATN---RPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKK--TGEFDFEAAVK  381 (437)
T ss_dssp             HHHHHHHSSSCTTSSEEEEEES---STTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCB--CSCCCHHHHHH
T ss_pred             HHHHHhhcccCCCCeEEEEecC---CchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCC--CcccCHHHHHH
Confidence            444431  22346789999999   578899999886444679999999999999999988876421  12233677777


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      .+.+++|  ...-.+|+.|+..|.++++.                            .|+.+||.+|+.++...
T Consensus       382 ~t~G~sG--ADi~~l~~eA~~~air~~~~----------------------------~i~~~d~~~Al~~v~~~  425 (437)
T 4b4t_L          382 MSDGFNG--ADIRNCATEAGFFAIRDDRD----------------------------HINPDDLMKAVRKVAEV  425 (437)
T ss_dssp             TCCSCCH--HHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHHHHHHHT
T ss_pred             hCCCCCH--HHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHHHHhc
Confidence            5444443  33447899999998877655                            79999999999887654

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.90  E-value=8.6e-24  Score=215.99  Aligned_cols=224  Identities=16%  Similarity=0.143  Sum_probs=163.5

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .++++.|.+++.++|.+.+...+.         -..+.++|||||||||||++|++++.+++          ..++.+++
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~----------~~f~~v~~  248 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTN----------ATFLKLAA  248 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHT----------CEEEEEEG
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhC----------CCEEEEeh
Confidence            344678888888888877544332         23477999999999999999999999875          57999999


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~  261 (517)
                      ..+.+.+.                 |. ....++.+|..   +....|+||||||+|.+...+.           ..+..
T Consensus       249 s~l~~~~v-----------------Ge-se~~ir~lF~~---A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~  307 (434)
T 4b4t_M          249 PQLVQMYI-----------------GE-GAKLVRDAFAL---AKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLE  307 (434)
T ss_dssp             GGGCSSCS-----------------SH-HHHHHHHHHHH---HHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHH
T ss_pred             hhhhhccc-----------------ch-HHHHHHHHHHH---HHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHH
Confidence            88754332                 22 26677888873   2356789999999999976531           23444


Q ss_pred             HhccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHHH
Q 010136          262 LFMLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCAR  338 (517)
Q Consensus       262 l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia~  338 (517)
                      |+.+.  .....+++|||+||   .++.++|++.+++.....|+|+.++.++..+||+..+..+.   ++++ .++.+|+
T Consensus       308 lL~~ldg~~~~~~ViVIaaTN---rp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~---~~~dvdl~~lA~  381 (434)
T 4b4t_M          308 LLNQLDGFSSDDRVKVLAATN---RVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMT---TDDDINWQELAR  381 (434)
T ss_dssp             HHHHHTTSCSSCSSEEEEECS---SCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSC---BCSCCCHHHHHH
T ss_pred             HHHHhhccCCCCCEEEEEeCC---CchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCC---CCCcCCHHHHHH
Confidence            44442  12346799999999   57788999987422357999999999999999998887652   2222 3677777


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      .+.+++|  ...-.+|+.|+..|.++++.                            .|+.+||.+|+.++..+
T Consensus       382 ~t~G~sG--ADi~~l~~eA~~~a~r~~~~----------------------------~i~~~Df~~Al~~v~~~  425 (434)
T 4b4t_M          382 STDEFNG--AQLKAVTVEAGMIALRNGQS----------------------------SVKHEDFVEGISEVQAR  425 (434)
T ss_dssp             HCSSCCH--HHHHHHHHHHHHHHHHHTCS----------------------------SBCHHHHHHHHHSCSSS
T ss_pred             hCCCCCH--HHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHHhCC
Confidence            5544443  33447899999998877655                            79999999999987654

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.90  E-value=3.8e-23  Score=210.41  Aligned_cols=224  Identities=17%  Similarity=0.170  Sum_probs=162.4

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhh---------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNL---------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l---------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      ..++++.|.+++.++|.+.+.-.+         .-..+.++|||||||||||++|++++.+++          ..|+.++
T Consensus       206 vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~----------~~fi~vs  275 (467)
T 4b4t_H          206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTD----------ATFIRVI  275 (467)
T ss_dssp             CCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHT----------CEEEEEE
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccC----------CCeEEEE
Confidence            344567888888888887754322         124578999999999999999999999875          5799999


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~  260 (517)
                      +..+.+.+.                 |. ....++.+|..   +....|+||||||+|.+...+           +..+.
T Consensus       276 ~s~L~sk~v-----------------Ge-sek~ir~lF~~---Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~  334 (467)
T 4b4t_H          276 GSELVQKYV-----------------GE-GARMVRELFEM---ARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTML  334 (467)
T ss_dssp             GGGGCCCSS-----------------SH-HHHHHHHHHHH---HHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHH
T ss_pred             hHHhhcccC-----------------CH-HHHHHHHHHHH---HHhcCCceEeecccccccccccCcCCCccHHHHHHHH
Confidence            988755332                 22 26678888873   345678999999999998643           12333


Q ss_pred             HHhcc--CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          261 DLFML--TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       261 ~l~~~--~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      .++..  .......++||++||   .++.+++++.+.......|+|+.++.+++.+||+..+..+..  -.+-.++.+|+
T Consensus       335 ~lL~~lDg~~~~~~ViVIaATN---rpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l--~~dvdl~~LA~  409 (467)
T 4b4t_H          335 ELITQLDGFDPRGNIKVMFATN---RPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSV--ERGIRWELISR  409 (467)
T ss_dssp             HHHHHHHSSCCTTTEEEEEECS---CTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCB--CSSCCHHHHHH
T ss_pred             HHHHHhhccCCCCcEEEEeCCC---CcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCC--CCCCCHHHHHH
Confidence            34333  123456899999999   577889999873223579999999999999999988876521  11223677777


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      .+.+++|  ...-.+|+.|+..|.++++.                            .|+.+||..|++++.
T Consensus       410 ~T~GfSG--ADI~~l~~eAa~~Air~~~~----------------------------~it~~Df~~Al~kV~  451 (467)
T 4b4t_H          410 LCPNSTG--AELRSVCTEAGMFAIRARRK----------------------------VATEKDFLKAVDKVI  451 (467)
T ss_dssp             HCCSCCH--HHHHHHHHHHHHHHHHHTCS----------------------------SBCHHHHHHHHHHHH
T ss_pred             HCCCCCH--HHHHHHHHHHHHHHHHcCCC----------------------------ccCHHHHHHHHHHHh
Confidence            6544444  33347899999999887665                            799999999998864

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.89  E-value=5.8e-21  Score=191.93  Aligned_cols=271  Identities=14%  Similarity=0.146  Sum_probs=203.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLE-EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~-~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ++++|++..++.+..++..... +....+++|+||||||||++++++++.+.          ..++.++|........  
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~----------~~~~~~~~~~~~~~~~--   96 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMS----------ANIKTTAAPMIEKSGD--   96 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTT----------CCEEEEEGGGCCSHHH--
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhC----------CCeEEecchhccchhH--
Confidence            4799999999999999887654 34567899999999999999999987753          3689999977643322  


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------------
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------------  268 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------------  268 (517)
                                            +...+.     ....+.+|||||||.+....+..|+.+++....              
T Consensus        97 ----------------------~~~~~~-----~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~  149 (338)
T 3pfi_A           97 ----------------------LAAILT-----NLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIK  149 (338)
T ss_dssp             ----------------------HHHHHH-----TCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCC
T ss_pred             ----------------------HHHHHH-----hccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCcccccee
Confidence                                  333343     133457999999999987777777777765321              


Q ss_pred             -CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          269 -PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       269 -~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                       ...++.+|+++|.   ...+++.+.+| | ...+.|++++.+++..++...+.... ..+++++++.+++   ...|++
T Consensus       150 ~~~~~~~~i~atn~---~~~l~~~L~~R-~-~~~i~l~~~~~~e~~~il~~~~~~~~-~~~~~~~~~~l~~---~~~G~~  220 (338)
T 3pfi_A          150 IDLPKFTLIGATTR---AGMLSNPLRDR-F-GMQFRLEFYKDSELALILQKAALKLN-KTCEEKAALEIAK---RSRSTP  220 (338)
T ss_dssp             CCCCCCEEEEEESC---GGGSCHHHHTT-C-SEEEECCCCCHHHHHHHHHHHHHHTT-CEECHHHHHHHHH---TTTTCH
T ss_pred             cCCCCeEEEEeCCC---ccccCHHHHhh-c-CEEeeCCCcCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHH---HHCcCH
Confidence             1124889999995   45578889998 5 35899999999999999998876432 3678999999887   578999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHH
Q 010136          348 RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQI  427 (517)
Q Consensus       348 R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~  427 (517)
                      |.+.++++.++..+...+..                            .|+.+++..++.....+     ...+...++.
T Consensus       221 r~l~~~l~~~~~~a~~~~~~----------------------------~i~~~~~~~~~~~~~~~-----~~~l~~~e~~  267 (338)
T 3pfi_A          221 RIALRLLKRVRDFADVNDEE----------------------------IITEKRANEALNSLGVN-----ELGFDAMDLR  267 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTTCS----------------------------EECHHHHHHHHHHHTCC-----TTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcCC----------------------------ccCHHHHHHHHHHhCCc-----ccCCCHHHHH
Confidence            99999999998877654433                            69999999998875433     2357777788


Q ss_pred             HHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHH-HHhhcCceeeccCC
Q 010136          428 LLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCR-VLHDQGVLKVGRDD  488 (517)
Q Consensus       428 iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~-~L~~~glI~~~~~~  488 (517)
                      ++.+++..   +...++..++       ++.++   ++...+.+.++ .|.+.|+|....+|
T Consensus       268 ~l~~l~~~---~~~~~~~~~~-------a~~lg---~~~~tl~~~l~~~l~~~gli~~~~~g  316 (338)
T 3pfi_A          268 YLELLTAA---KQKPIGLASI-------AAALS---EDENTIEDVIEPYLLANGYIERTAKG  316 (338)
T ss_dssp             HHHHHHHS---CSCCBCHHHH-------HHHTT---CCHHHHHHTTHHHHHHTTSEEEETTE
T ss_pred             HHHHHHHh---cCCCchHHHH-------HHHhC---CCHHHHHHHHhHHHHHcCceecCCCc
Confidence            88888765   3344566555       66664   46778888888 99999999865444

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.88  E-value=1.7e-22  Score=206.26  Aligned_cols=223  Identities=14%  Similarity=0.141  Sum_probs=162.6

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .++++.|.+++.+.|.+.+...+.         -..+.+++||||||||||++|++++.+++          ..++.+++
T Consensus       170 ~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~----------~~~~~v~~  239 (428)
T 4b4t_K          170 TYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTK----------AAFIRVNG  239 (428)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHT----------CEEEEEEG
T ss_pred             CHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhC----------CCeEEEec
Confidence            345678999999888888754332         23467899999999999999999999875          57999999


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~  261 (517)
                      ..+.+.+.                 |. ....++.+|..   +....|+||||||+|.+...+           +..+..
T Consensus       240 ~~l~~~~~-----------------Ge-~e~~ir~lF~~---A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~  298 (428)
T 4b4t_K          240 SEFVHKYL-----------------GE-GPRMVRDVFRL---ARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIE  298 (428)
T ss_dssp             GGTCCSSC-----------------SH-HHHHHHHHHHH---HHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHH
T ss_pred             chhhcccc-----------------ch-hHHHHHHHHHH---HHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHH
Confidence            88754332                 22 26678888873   335678999999999998642           124455


Q ss_pred             HhccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeC-CCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          262 LFMLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFR-AYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       262 l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~-p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      |+.+.  -....+++||++||   .++.++|++.+.+.....|.|+ +++.++...||+..+.++.  .-++..++.+|+
T Consensus       299 lL~~ldg~~~~~~v~vI~aTN---~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~--l~~~~dl~~lA~  373 (428)
T 4b4t_K          299 LLTQMDGFDQSTNVKVIMATN---RADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMS--LAPEADLDSLII  373 (428)
T ss_dssp             HHHHHHHSCSSCSEEEEEEES---CSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSC--BCTTCCHHHHHH
T ss_pred             HHHHhhCCCCCCCEEEEEecC---ChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCC--CCcccCHHHHHH
Confidence            55441  12346799999999   5778899998742234589996 6899999999998887642  112333777887


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      .+.+++|  ...-.+|+.|+..|.++++.                            .|+.+||.+|+....
T Consensus       374 ~t~G~sg--adi~~l~~eA~~~a~r~~~~----------------------------~i~~~d~~~A~~~~~  415 (428)
T 4b4t_K          374 RNDSLSG--AVIAAIMQEAGLRAVRKNRY----------------------------VILQSDLEEAYATQV  415 (428)
T ss_dssp             HTTTCCH--HHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHHHHHS
T ss_pred             HCCCCCH--HHHHHHHHHHHHHHHHCCCC----------------------------CCCHHHHHHHHHHhh
Confidence            6554444  33447899999998887665                            799999999997754

>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=99.87  E-value=2e-20  Score=187.58  Aligned_cols=273  Identities=14%  Similarity=0.229  Sum_probs=198.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLE-EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~-~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +.++|++..++.+...+..... +....+++|+||||+||||+++.++..++          ..+.+.++........  
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~----------~~~~~~sg~~~~~~~~--   92 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ----------TNIHVTSGPVLVKQGD--   92 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT----------CCEEEEETTTCCSHHH--
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC----------CCEEEEechHhcCHHH--
Confidence            4578888888888777766432 23457899999999999999999998874          2455666655433222  


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------------
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------------  268 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------------  268 (517)
                                            +...+..     .....|++|||+|.+....++.|+..++....              
T Consensus        93 ----------------------l~~~~~~-----~~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~  145 (334)
T 1in4_A           93 ----------------------MAAILTS-----LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIR  145 (334)
T ss_dssp             ----------------------HHHHHHH-----CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC------------
T ss_pred             ----------------------HHHHHHH-----ccCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCccccccc
Confidence                                  2222221     11235899999999976556777765543210              


Q ss_pred             -CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCH
Q 010136          269 -PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDM  347 (517)
Q Consensus       269 -~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~  347 (517)
                       .-..+.++++++.   +..+.+.+++| |. ..+.|.+|+.+++.+||......+. ..++++++..+|+   ...|++
T Consensus       146 ~~l~~~~li~at~~---~~~Ls~~l~sR-~~-l~~~Ld~~~~~~l~~iL~~~~~~~~-~~~~~~~~~~ia~---~~~G~~  216 (334)
T 1in4_A          146 IDIQPFTLVGATTR---SGLLSSPLRSR-FG-IILELDFYTVKELKEIIKRAASLMD-VEIEDAAAEMIAK---RSRGTP  216 (334)
T ss_dssp             ---CCCEEEEEESC---GGGSCHHHHTT-CS-EEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHH---TSTTCH
T ss_pred             ccCCCeEEEEecCC---cccCCHHHHHh-cC-ceeeCCCCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHH---hcCCCh
Confidence             0124788887774   56788999999 64 4789999999999999998776432 4688999988887   578999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHH
Q 010136          348 RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQI  427 (517)
Q Consensus       348 R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~  427 (517)
                      |.|+++|+.+...|..++..                            .|+.+++.+|+.....+.     .+++.+.+.
T Consensus       217 R~a~~ll~~~~~~a~~~~~~----------------------------~It~~~v~~al~~~~~~~-----~~l~~~~~~  263 (334)
T 1in4_A          217 RIAIRLTKRVRDMLTVVKAD----------------------------RINTDIVLKTMEVLNIDD-----EGLDEFDRK  263 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHTCS----------------------------SBCHHHHHHHHHHHTCCT-----TCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHhCCCc-----CCCCHHHHH
Confidence            99999999999888776544                            799999999999875443     488999999


Q ss_pred             HHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCC
Q 010136          428 LLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDD  488 (517)
Q Consensus       428 iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~  488 (517)
                      +|.+++...+++  ++.+.       .+|...+..+.+..++.+.  .|..+|+|.....|
T Consensus       264 ~l~~~~~~~~~~--~~~~~-------~l~~~~~~~~~t~~~~~~~--~l~~~g~i~~~~~g  313 (334)
T 1in4_A          264 ILKTIIEIYRGG--PVGLN-------ALAASLGVEADTLSEVYEP--YLLQAGFLARTPRG  313 (334)
T ss_dssp             HHHHHHHHSTTC--CBCHH-------HHHHHHTSCHHHHHHHTHH--HHHHTTSEEEETTE
T ss_pred             HHHHHHHHhCCC--cchHH-------HHHHHhCCCcchHHHHHHH--HHHHcCCeeccccc
Confidence            999888765433  34443       5577777766666666665  89999999876333

>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=99.85  E-value=1.2e-20  Score=188.39  Aligned_cols=206  Identities=12%  Similarity=0.116  Sum_probs=147.1

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++++|.+...+.|.+.+...+.        ...+.+++|+||||||||++++++++++.          ..+++++|..
T Consensus        17 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~----------~~~~~v~~~~   86 (322)
T 3eie_A           17 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN----------STFFSVSSSD   86 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHT----------CEEEEEEHHH
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHC----------CCEEEEchHH
Confidence            35689999999999888743221        12356899999999999999999998864          4789999854


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~  263 (517)
                      +.+.+                  .......+..+|...   ....+.||||||||.|....           +..|...+
T Consensus        87 l~~~~------------------~g~~~~~~~~~f~~a---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l  145 (322)
T 3eie_A           87 LVSKW------------------MGESEKLVKQLFAMA---RENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQM  145 (322)
T ss_dssp             HHTTT------------------GGGHHHHHHHHHHHH---HHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHH
T ss_pred             Hhhcc------------------cchHHHHHHHHHHHH---HhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHh
Confidence            32111                  012245566666532   24467899999999997643           13344444


Q ss_pred             ccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          264 MLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       264 ~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                      +........++||+++|   .++.+++.+.+| |. ..+.|++++.+++.+|++..+.... ..+++..++.+++.+..+
T Consensus       146 ~~~~~~~~~v~vi~atn---~~~~ld~al~~R-f~-~~i~~~~p~~~~r~~il~~~~~~~~-~~~~~~~l~~la~~t~g~  219 (322)
T 3eie_A          146 NGVGNDSQGVLVLGATN---IPWQLDSAIRRR-FE-RRIYIPLPDLAARTTMFEINVGDTP-CVLTKEDYRTLGAMTEGY  219 (322)
T ss_dssp             GGGGTSCCCEEEEEEES---CGGGSCHHHHHH-CC-EEEECCCCCHHHHHHHHHHHHTTCC-CCCCHHHHHHHHHTTTTC
T ss_pred             ccccccCCceEEEEecC---ChhhCCHHHHcc-cC-eEEEeCCCCHHHHHHHHHHHhccCC-CCCCHHHHHHHHHHcCCC
Confidence            43333456899999999   467788999998 64 5899999999999999998887532 356788899888854322


Q ss_pred             hCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          344 SGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                        ..+..-.+|+.|+..|.++...
T Consensus       220 --sg~di~~l~~~a~~~a~r~~~~  241 (322)
T 3eie_A          220 --SGSDIAVVVKDALMQPIRKIQS  241 (322)
T ss_dssp             --CHHHHHHHHHHHTTHHHHHHHH
T ss_pred             --CHHHHHHHHHHHHHHHHHHHhh
Confidence              3455558999999888887665

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.85  E-value=3.4e-20  Score=188.51  Aligned_cols=264  Identities=14%  Similarity=0.145  Sum_probs=168.5

Q ss_pred             cCcCCCCCCCCCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          117 LHVSTAPSTIVCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       117 l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +.+.+.++.++|++...+.+...+.....+.. +.+++|+||||||||++++++++.+..        ...++.++|..+
T Consensus        37 ~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~--------~~~~~~~~~~~~  108 (368)
T 3uk6_A           37 LEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGP--------DTPFTAIAGSEI  108 (368)
T ss_dssp             SCBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCS--------SCCEEEEEGGGG
T ss_pred             cCcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcc--------cCCcccccchhh
Confidence            34455577899999998876655544333332 368999999999999999999998752        135788887552


Q ss_pred             C----CHHHHHHHHHHHhCCC----------------------------CCCCCCCCHHHHHHHHHHhh----hc--cCC
Q 010136          196 T----NTSEIFSKILLKLQPR----------------------------KKLNGSTSPLQYLQNLYSQK----LH--SSV  237 (517)
Q Consensus       196 ~----s~~~i~~~i~~~l~~~----------------------------~~~~~~~~~~~~l~~~~~~~----~~--~~~  237 (517)
                      .    ....++...+....+.                            .....+. ....++..+...    ..  ...
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~~~~~~~~~g~~~  187 (368)
T 3uk6_A          109 FSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGE-IKSEVREQINAKVAEWREEGKAE  187 (368)
T ss_dssp             SCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC--------CHHHHHHHHHHHHHHHHHTC--
T ss_pred             hhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccc-cHHHHHHHHHHHHHHhhhhcccc
Confidence            2    3333444333331110                            0000011 122333333221    00  011


Q ss_pred             CceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEEC--------CCCcchhhcccccccCCCceEEEeCCCCH
Q 010136          238 MKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIAN--------AIDLADRFLPRLQSMNCKPLVVTFRAYSK  309 (517)
Q Consensus       238 ~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian--------~~~~~~~l~~~l~sr~~~~~~i~f~p~~~  309 (517)
                      ..+.||||||+|.|....++.|+.+++..   ...++++++.+        +.+.+..+++.+.+| |  ..+.|+||+.
T Consensus       188 ~~~~vl~IDEi~~l~~~~~~~L~~~le~~---~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR-~--~~i~~~~~~~  261 (368)
T 3uk6_A          188 IIPGVLFIDEVHMLDIESFSFLNRALESD---MAPVLIMATNRGITRIRGTSYQSPHGIPIDLLDR-L--LIVSTTPYSE  261 (368)
T ss_dssp             -CBCEEEEESGGGSBHHHHHHHHHHTTCT---TCCEEEEEESCSEEECBTSSCEEETTCCHHHHTT-E--EEEEECCCCH
T ss_pred             ccCceEEEhhccccChHHHHHHHHHhhCc---CCCeeeeecccceeeeeccCCCCcccCCHHHHhh-c--cEEEecCCCH
Confidence            12579999999999876677777777653   33555555332        122356678899998 7  5689999999


Q ss_pred             HHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhh
Q 010136          310 DQIIRILQERLMELSYIVFQPQALELCARKVAAAS-GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAAS  388 (517)
Q Consensus       310 ~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~-Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  388 (517)
                      +++.+||..++... ...+++++++++++.   .. |++|.++++|+.|...|..++..                     
T Consensus       262 ~e~~~il~~~~~~~-~~~~~~~~l~~l~~~---~~~G~~r~~~~ll~~a~~~A~~~~~~---------------------  316 (368)
T 3uk6_A          262 KDTKQILRIRCEEE-DVEMSEDAYTVLTRI---GLETSLRYAIQLITAASLVCRKRKGT---------------------  316 (368)
T ss_dssp             HHHHHHHHHHHHHT-TCCBCHHHHHHHHHH---HHHSCHHHHHHHHHHHHHHHHHTTCS---------------------
T ss_pred             HHHHHHHHHHHHHc-CCCCCHHHHHHHHHH---hcCCCHHHHHHHHHHHHHHHHHhCCC---------------------
Confidence            99999999988743 246899999999884   34 99999999999999988776654                     


Q ss_pred             hhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHH
Q 010136          389 AFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILL  429 (517)
Q Consensus       389 ~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL  429 (517)
                             .|+.+||.+|+.......  ...+.+...++.+|
T Consensus       317 -------~It~~~v~~a~~~~~~~~--~~~~~~~~~~~~~~  348 (368)
T 3uk6_A          317 -------EVQVDDIKRVYSLFLDES--RSTQYMKEYQDAFL  348 (368)
T ss_dssp             -------SBCHHHHHHHHHHSBCHH--HHHHHHC-------
T ss_pred             -------CCCHHHHHHHHHHhcCHH--HHHHHHHHhhhhhh
Confidence                   799999999998754322  12233444444444

>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=99.84  E-value=5.1e-20  Score=186.04  Aligned_cols=206  Identities=13%  Similarity=0.128  Sum_probs=144.3

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      ..++++|.+...+.|...+...+.        ...+.+++|+||||||||++++++++++.          ..+++++|.
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~----------~~~~~v~~~  118 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN----------STFFSVSSS  118 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHT----------CEEEEEEHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC----------CCEEEeeHH
Confidence            345689999999988888643221        12356899999999999999999999874          478999886


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDL  262 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l  262 (517)
                      .+.+.          +       .+.. ...+..+|...   ....+.||||||+|.|....           ...|...
T Consensus       119 ~l~~~----------~-------~g~~-~~~~~~~f~~a---~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~  177 (355)
T 2qp9_X          119 DLVSK----------W-------MGES-EKLVKQLFAMA---RENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQ  177 (355)
T ss_dssp             HHHSC----------C----------C-HHHHHHHHHHH---HHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHH
T ss_pred             HHhhh----------h-------cchH-HHHHHHHHHHH---HHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHH
Confidence            43111          0       1222 45566666521   23467899999999997542           2233344


Q ss_pred             hccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          263 FMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       263 ~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      ++........++||+++|.   ++.+++.+.+| |. ..+.|++++.+++.+||..++.... ..+++..++.+++..  
T Consensus       178 l~~~~~~~~~v~vI~atn~---~~~ld~al~rR-f~-~~i~i~~P~~~~r~~il~~~l~~~~-~~~~~~~l~~la~~t--  249 (355)
T 2qp9_X          178 MNGVGNDSQGVLVLGATNI---PWQLDSAIRRR-FE-RRIYIPLPDLAARTTMFEINVGDTP-SVLTKEDYRTLGAMT--  249 (355)
T ss_dssp             HHHCC---CCEEEEEEESC---GGGSCHHHHHT-CC-EEEECCCCCHHHHHHHHHHHHTTSC-BCCCHHHHHHHHHHT--
T ss_pred             hhcccccCCCeEEEeecCC---cccCCHHHHcc-cC-EEEEeCCcCHHHHHHHHHHHHhhCC-CCCCHHHHHHHHHHc--
Confidence            4433334568999999994   67788999997 63 5899999999999999998887542 246788899998854  


Q ss_pred             HhC-CHHHHHHHHHHHHHHHHHHHHh
Q 010136          343 ASG-DMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       343 ~~G-d~R~al~ll~~A~~~a~~~~~~  367 (517)
                       .| ..+..-.+|+.|+..|.++...
T Consensus       250 -~G~sg~dl~~l~~~A~~~a~~~~~~  274 (355)
T 2qp9_X          250 -EGYSGSDIAVVVKDALMQPIRKIQS  274 (355)
T ss_dssp             -TTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence             44 4556668999999988877543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.84  E-value=2.7e-20  Score=182.41  Aligned_cols=222  Identities=18%  Similarity=0.213  Sum_probs=159.1

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      +.+++++|.+++++.|..++...+..         ..+.+++|+||||||||++++++++.+.          ..+++++
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~----------~~~~~v~   83 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN----------ATFIRVV   83 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTT----------CEEEEEE
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhC----------CCEEEEe
Confidence            45567999999999999987664332         4577899999999999999999988763          4789999


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~  260 (517)
                      |..+...+.                  ......+...|...   ....+.||||||+|.+..+.           +..|.
T Consensus        84 ~~~~~~~~~------------------~~~~~~~~~~~~~~---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~  142 (285)
T 3h4m_A           84 GSELVKKFI------------------GEGASLVKDIFKLA---KEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLM  142 (285)
T ss_dssp             GGGGCCCST------------------THHHHHHHHHHHHH---HHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHH
T ss_pred             hHHHHHhcc------------------chHHHHHHHHHHHH---HHcCCeEEEEECHHHhcccCccccCCccHHHHHHHH
Confidence            876533211                  11134455555421   23456899999999996432           35566


Q ss_pred             HHhccC--CCCCCcEEEEEEECCCCcchhhcccccc--cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHH
Q 010136          261 DLFMLT--TFPFSRFILIGIANAIDLADRFLPRLQS--MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELC  336 (517)
Q Consensus       261 ~l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~s--r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~i  336 (517)
                      .+++..  .....++.||+++|.   ++.+++.+.+  | | ...+.|++++.+++.+|+..++....  ...+..++.+
T Consensus       143 ~ll~~~~~~~~~~~~~vI~ttn~---~~~l~~~l~~~~R-f-~~~i~~~~p~~~~r~~il~~~~~~~~--~~~~~~~~~l  215 (285)
T 3h4m_A          143 QLLAEMDGFDARGDVKIIGATNR---PDILDPAILRPGR-F-DRIIEVPAPDEKGRLEILKIHTRKMN--LAEDVNLEEI  215 (285)
T ss_dssp             HHHHHHHTTCSSSSEEEEEECSC---GGGBCHHHHSTTS-E-EEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHH
T ss_pred             HHHHHhhCCCCCCCEEEEEeCCC---chhcCHHHcCCCc-C-CeEEEECCCCHHHHHHHHHHHHhcCC--CCCcCCHHHH
Confidence            666542  123468999999984   5677888887  5 4 35899999999999999998876542  2233346666


Q ss_pred             HHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          337 ARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       337 a~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      ++.   ..| ..+....+|+.|...|..++..                            .|+.+|+.+|+..+..
T Consensus       216 ~~~---~~g~~~~~i~~l~~~a~~~a~~~~~~----------------------------~I~~~d~~~al~~~~~  260 (285)
T 3h4m_A          216 AKM---TEGCVGAELKAICTEAGMNAIRELRD----------------------------YVTMDDFRKAVEKIME  260 (285)
T ss_dssp             HHH---CTTCCHHHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHHHHHHH
T ss_pred             HHH---cCCCCHHHHHHHHHHHHHHHHHhccC----------------------------cCCHHHHHHHHHHHHh
Confidence            664   334 4566667899998888776654                            7999999999988753

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.84  E-value=1.9e-19  Score=179.30  Aligned_cols=207  Identities=15%  Similarity=0.128  Sum_probs=147.4

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc------c--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE------E--EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~------~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+++.|.++..+.|.+.+...+.      +  ..+.+++|+||||||||++++++++++..         ..++++++..
T Consensus        11 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~---------~~~~~i~~~~   81 (322)
T 1xwi_A           11 WSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN---------STFFSISSSD   81 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS---------CEEEEEECCS
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC---------CcEEEEEhHH
Confidence            45689999998888887753222      1  23578999999999999999999988621         4789999987


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHH---h
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDL---F  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l---~  263 (517)
                      +.+.+                 .+.. ...+..+|...   ....+.||||||+|.+....+        ..+..+   +
T Consensus        82 l~~~~-----------------~g~~-~~~~~~lf~~a---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l  140 (322)
T 1xwi_A           82 LVSKW-----------------LGES-EKLVKNLFQLA---RENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQM  140 (322)
T ss_dssp             SCCSS-----------------CCSC-HHHHHHHHHHH---HHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHH
T ss_pred             HHhhh-----------------hhHH-HHHHHHHHHHH---HhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHH
Confidence            64321                 1233 56677777632   245678999999999975421        122223   3


Q ss_pred             ccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          264 MLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       264 ~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                      +........++||+++|.   ++.+++.+.+| |. ..+.|++++.++..+|++..+.... ..+++..++.+++.+.++
T Consensus       141 d~~~~~~~~v~vI~atn~---~~~ld~al~rR-f~-~~i~i~~P~~~~r~~il~~~l~~~~-~~l~~~~l~~la~~t~G~  214 (322)
T 1xwi_A          141 QGVGVDNDGILVLGATNI---PWVLDSAIRRR-FE-KRIYIPLPEPHARAAMFKLHLGTTQ-NSLTEADFRELGRKTDGY  214 (322)
T ss_dssp             HCSSSCCTTEEEEEEESC---TTTSCHHHHHT-CC-EEEECCCCCHHHHHHHHHHHHTTCC-BCCCHHHHHHHHHTCTTC
T ss_pred             hcccccCCCEEEEEecCC---cccCCHHHHhh-cC-eEEEeCCcCHHHHHHHHHHHHhcCC-CCCCHHHHHHHHHHcCCC
Confidence            322234578999999995   56788999988 63 5899999999999999998887542 246788888888753322


Q ss_pred             hCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          344 SGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                        ..+..-.+|+.|+..|.++...
T Consensus       215 --sgadl~~l~~~A~~~a~r~~~~  236 (322)
T 1xwi_A          215 --SGADISIIVRDALMQPVRKVQS  236 (322)
T ss_dssp             --CHHHHHHHHHHHHTHHHHHHHH
T ss_pred             --CHHHHHHHHHHHHHHHHHHHHh
Confidence              2445557899999888877653

>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=99.83  E-value=3.2e-19  Score=177.98  Aligned_cols=274  Identities=16%  Similarity=0.175  Sum_probs=196.7

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      .+.++|++..++.+..++...... ....+++|+||||||||++++++++.+.          ..+++++|........+
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~----------~~~~~~~~~~~~~~~~l   80 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG----------VNLRVTSGPAIEKPGDL   80 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHT----------CCEEEECTTTCCSHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhC----------CCEEEEeccccCChHHH
Confidence            457999999999999988765432 3457899999999999999999988763          36889999887554332


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC-------------
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF-------------  268 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~-------------  268 (517)
                                              ...|..    ....+.+|||||+|.+....+..|..+++....             
T Consensus        81 ------------------------~~~l~~----~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~  132 (324)
T 1hqc_A           81 ------------------------AAILAN----SLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTI  132 (324)
T ss_dssp             ------------------------HHHHTT----TCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCE
T ss_pred             ------------------------HHHHHH----hccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhcccccccccc
Confidence                                    222321    123456999999999987667777777664210             


Q ss_pred             --CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          269 --PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       269 --~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                        ....+.+|+++|.   ...+.+.+.+| +. ..+.|++++.+++..++...+.... ..+++++++.+++.   ..|+
T Consensus       133 ~~~~~~~~~i~~t~~---~~~~~~~l~~R-~~-~~i~l~~~~~~e~~~~l~~~~~~~~-~~~~~~~~~~l~~~---~~G~  203 (324)
T 1hqc_A          133 RLELPRFTLIGATTR---PGLITAPLLSR-FG-IVEHLEYYTPEELAQGVMRDARLLG-VRITEEAALEIGRR---SRGT  203 (324)
T ss_dssp             EEECCCCEEEEEESC---CSSCSCSTTTT-CS-CEEECCCCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHH---SCSC
T ss_pred             ccCCCCEEEEEeCCC---cccCCHHHHhc-cc-EEEecCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHH---ccCC
Confidence              1135789999995   35567888888 53 4899999999999999998876432 36889999988774   5799


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHH
Q 010136          347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQ  426 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k  426 (517)
                      +|.+.++++.+...+...+..                            .|+.+++..++......     ...++..++
T Consensus       204 ~r~l~~~l~~~~~~a~~~~~~----------------------------~i~~~~~~~~~~~~~~~-----~~~l~~~e~  250 (324)
T 1hqc_A          204 MRVAKRLFRRVRDFAQVAGEE----------------------------VITRERALEALAALGLD-----ELGLEKRDR  250 (324)
T ss_dssp             HHHHHHHHHHHTTTSTTTSCS----------------------------CCCHHHHHHHHHHHTCC-----TTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCC----------------------------CCCHHHHHHHHHHhccc-----ccCCCHHHH
Confidence            999999998887655432222                            68999999988775432     246888888


Q ss_pred             HHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHH-HhhcCceeeccCC
Q 010136          427 ILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRV-LHDQGVLKVGRDD  488 (517)
Q Consensus       427 ~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~-L~~~glI~~~~~~  488 (517)
                      .++.+++....  ...++...+       ++.++   ++...++..+.. |.+.|+|.....|
T Consensus       251 ~~i~~~~~~~~--g~~~~~~~~-------a~~lg---i~~~tl~~~l~~~~i~~~li~~~~~g  301 (324)
T 1hqc_A          251 EILEVLILRFG--GGPVGLATL-------ATALS---EDPGTLEEVHEPYLIRQGLLKRTPRG  301 (324)
T ss_dssp             HHHHHHHHHSC--SSCCCHHHH-------HHHTT---SCHHHHHHHTHHHHHHTTSEEEETTE
T ss_pred             HHHHHHHHHhc--CCCchHHHH-------HHHhC---CCHHHHHHHHhHHHHHhcchhcCCcc
Confidence            88887765432  223455444       55554   466777776555 8899999755433

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.83  E-value=1.9e-19  Score=184.40  Aligned_cols=235  Identities=17%  Similarity=0.166  Sum_probs=154.3

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++++|++..++.|..++.....        ...+.++||+||||||||++|++++.++.          ..+++++|..
T Consensus       114 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~----------~~~~~v~~~~  183 (389)
T 3vfd_A          114 FDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN----------ATFFNISAAS  183 (389)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTT----------CEEEEECSCC
T ss_pred             hHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhc----------CcEEEeeHHH
Confidence            45799999999999998754332        22467999999999999999999987753          4799999988


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------h---HHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------A---VLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~---~L~~l~  263 (517)
                      +.+.+.                 +.. ...+..+|...   ....+.||||||||.|.....        .   .|...+
T Consensus       184 l~~~~~-----------------g~~-~~~~~~~~~~a---~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l  242 (389)
T 3vfd_A          184 LTSKYV-----------------GEG-EKLVRALFAVA---RELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEF  242 (389)
T ss_dssp             C------------------------C-HHHHHHHHHHH---HHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHH
T ss_pred             hhcccc-----------------chH-HHHHHHHHHHH---HhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHh
Confidence            755332                 222 34455566522   234568999999999954321        1   222222


Q ss_pred             c-cCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          264 M-LTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       264 ~-~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      + .......+++||+++|.   ++.+++.+.+| |. ..+.|++++.+++.+||...+... ...++++.++.+++.   
T Consensus       243 ~~~~~~~~~~v~vI~atn~---~~~l~~~l~~R-~~-~~i~i~~p~~~~r~~il~~~~~~~-~~~l~~~~~~~la~~---  313 (389)
T 3vfd_A          243 DGVQSAGDDRVLVMGATNR---PQELDEAVLRR-FI-KRVYVSLPNEETRLLLLKNLLCKQ-GSPLTQKELAQLARM---  313 (389)
T ss_dssp             HHHC-----CEEEEEEESC---GGGCCHHHHTT-CC-EEEECCCCCHHHHHHHHHHHHTTS-CCCSCHHHHHHHHHH---
T ss_pred             hcccccCCCCEEEEEecCC---chhcCHHHHcC-cc-eEEEcCCcCHHHHHHHHHHHHHhc-CCCCCHHHHHHHHHH---
Confidence            2 22234568999999994   66788999998 63 479999999999999999887643 236788888888774   


Q ss_pred             HhCCHHHHH-HHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          343 ASGDMRKAL-SVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       343 ~~Gd~R~al-~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      ..|..+.++ .+|+.|+..+.++........      ....          ....|+.+||..++..+..+.
T Consensus       314 ~~g~~~~~l~~L~~~a~~~~~rel~~~~~~~------~~~~----------~~~~i~~~d~~~al~~~~~s~  369 (389)
T 3vfd_A          314 TDGYSGSDLTALAKDAALGPIRELKPEQVKN------MSAS----------EMRNIRLSDFTESLKKIKRSV  369 (389)
T ss_dssp             TTTCCHHHHHHHHHHHTTHHHHTSCCC---C------CSSS----------CCCCCCHHHHHHHHHHCCCSS
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHhhhhhhhhc------cchh----------hcCCcCHHHHHHHHHHcCCCC
Confidence            566655444 677888877665432100000      0000          011699999999998876653

>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=99.82  E-value=1.5e-19  Score=174.70  Aligned_cols=223  Identities=14%  Similarity=0.132  Sum_probs=145.8

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhcc--------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEE--------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~--------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      ..++++|.++..+.+.+++......        ..+.+++|+||||||||++++++++++.          ..+++++|.
T Consensus         4 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~----------~~~~~~~~~   73 (262)
T 2qz4_A            4 SFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQ----------VPFLAMAGA   73 (262)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHT----------CCEEEEETT
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhC----------CCEEEechH
Confidence            3567899999999888876542211        3466899999999999999999998763          468999998


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc------------CchHHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR------------DRAVLHD  261 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~------------~~~~L~~  261 (517)
                      .+.+.+                  .......+..+|....   ...+.||||||+|.+...            .+..|..
T Consensus        74 ~~~~~~------------------~~~~~~~~~~~~~~a~---~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~  132 (262)
T 2qz4_A           74 EFVEVI------------------GGLGAARVRSLFKEAR---ARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQ  132 (262)
T ss_dssp             TTSSSS------------------TTHHHHHHHHHHHHHH---HTCSEEEEEECC-------------------CHHHHH
T ss_pred             HHHhhc------------------cChhHHHHHHHHHHHH---hcCCeEEEEeCcchhhccccccccCccchhHHHHHHH
Confidence            764321                  1112344555565321   235789999999999532            2445566


Q ss_pred             HhccC--CCCCCcEEEEEEECCCCcchhhcccccc--cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHH
Q 010136          262 LFMLT--TFPFSRFILIGIANAIDLADRFLPRLQS--MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELC  336 (517)
Q Consensus       262 l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~s--r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~i  336 (517)
                      ++...  .....++++|+++|.   ++.+++.+.+  | | ...+.|++++.++..+|++..+..... ..+.+ .++.+
T Consensus       133 ll~~~~~~~~~~~~~vi~~tn~---~~~ld~~l~~~~R-~-~~~i~i~~p~~~~r~~il~~~~~~~~~-~~~~~~~~~~l  206 (262)
T 2qz4_A          133 LLVEMDGMGTTDHVIVLASTNR---ADILDGALMRPGR-L-DRHVFIDLPTLQERREIFEQHLKSLKL-TQSSTFYSQRL  206 (262)
T ss_dssp             HHHHHHTCCTTCCEEEEEEESC---GGGGGSGGGSTTS-C-CEEEECCSCCHHHHHHHHHHHHHHTTC-CBTHHHHHHHH
T ss_pred             HHHHhhCcCCCCCEEEEecCCC---hhhcCHHHhcCCc-C-CeEEEeCCcCHHHHHHHHHHHHHhCCC-CcchhhHHHHH
Confidence            65542  123458999999994   6677888887  6 5 368999999999999999998875432 22222 24555


Q ss_pred             HHHHHHHhCC-HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          337 ARKVAAASGD-MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       337 a~~~~~~~Gd-~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      ++.   ..|. .+....+|+.|+..|..++..                            .|+.+|+..|+.++..+
T Consensus       207 ~~~---~~g~~~~~l~~l~~~a~~~a~~~~~~----------------------------~i~~~d~~~a~~~~~~~  252 (262)
T 2qz4_A          207 AEL---TPGFSGADIANICNEAALHAAREGHT----------------------------SVHTLNFEYAVERVLAG  252 (262)
T ss_dssp             HHT---CTTCCHHHHHHHHHHHHTC------------------------------------CCBCCHHHHHHHHHHH
T ss_pred             HHH---CCCCCHHHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHHHhccC
Confidence            553   3442 456667888888877766554                            79999999999887543

>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=99.82  E-value=1.7e-18  Score=172.32  Aligned_cols=273  Identities=17%  Similarity=0.240  Sum_probs=183.8

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++|++..++.+..++..    +..++++|+||||+|||++++.+++.+.....     ...++++++....+...+ .
T Consensus        21 ~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~~~~~~~i-~   90 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKD----GNMPHMIISGMPGIGKTTSVHCLAHELLGRSY-----ADGVLELNASDDRGIDVV-R   90 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHS----CCCCCEEEECSTTSSHHHHHHHHHHHHHGGGH-----HHHEEEECTTSCCSHHHH-H
T ss_pred             HHHHCCHHHHHHHHHHHHc----CCCCeEEEECcCCCCHHHHHHHHHHHhcCCcc-----cCCEEEecCccccChHHH-H
Confidence            5789999998888777653    45556999999999999999999998753110     035889998775443332 1


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                      .+                   +..+......-...++.||||||+|.+....++.|..+++.+   ...+.+|+++|.  
T Consensus        91 ~~-------------------~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~---~~~~~~il~~~~--  146 (323)
T 1sxj_B           91 NQ-------------------IKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELY---SNSTRFAFACNQ--  146 (323)
T ss_dssp             TH-------------------HHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHT---TTTEEEEEEESC--
T ss_pred             HH-------------------HHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhcc---CCCceEEEEeCC--
Confidence            11                   111111000001234789999999999776666677776653   346777777884  


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                       ...+.+.+.+| +  ..+.|.|++.+++.+++..++... ...+++++++.+++   ...||+|.|+++++.+...   
T Consensus       147 -~~~l~~~l~sr-~--~~i~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~l~~---~~~G~~r~a~~~l~~~~~~---  215 (323)
T 1sxj_B          147 -SNKIIEPLQSQ-C--AILRYSKLSDEDVLKRLLQIIKLE-DVKYTNDGLEAIIF---TAEGDMRQAINNLQSTVAG---  215 (323)
T ss_dssp             -GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHH-TCCBCHHHHHHHHH---HHTTCHHHHHHHHHHHHHH---
T ss_pred             -hhhchhHHHhh-c--eEEeecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHHhc---
Confidence             56778899998 6  599999999999999999887642 23678999988877   4689999999999876521   


Q ss_pred             HHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHHHHHHH-HHhcCCCC
Q 010136          364 EMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVK-FFRGGKKD  442 (517)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL~al~~-l~~~~~~~  442 (517)
                        ..                            .|+.++|.+++.......+.+.+.. ... ..++..+.. +..   ..
T Consensus       216 --~~----------------------------~i~~~~v~~~~~~~~~~~i~~~~~~-~~~-~~~l~~l~~dl~~---~g  260 (323)
T 1sxj_B          216 --HG----------------------------LVNADNVFKIVDSPHPLIVKKMLLA-SNL-EDSIQILRTDLWK---KG  260 (323)
T ss_dssp             --HS----------------------------SBCHHHHHHHHTSCCHHHHHHHHSC-SSH-HHHHHHHHHTTTT---TT
T ss_pred             --CC----------------------------CcCHHHHHHHHCCCCHHHHHHHHhc-CCH-HHHHHHHHHHHHH---cC
Confidence              12                            5888888888765544444455555 222 234443443 332   23


Q ss_pred             ccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhh
Q 010136          443 MTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHD  478 (517)
Q Consensus       443 ~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~  478 (517)
                      .+..++...|..++..+.  ..+...+..+++.|.+
T Consensus       261 ~~~~~i~~~l~~~~~~l~--~~~~~~l~~~l~~l~~  294 (323)
T 1sxj_B          261 YSSIDIVTTSFRVTKNLA--QVKESVRLEMIKEIGL  294 (323)
T ss_dssp             CCHHHHHHHHHHHHHTCT--TSCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcc--cCCHHHHHHHHHHHHH
Confidence            577788888888887653  2455556666655544

>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=99.82  E-value=1.5e-18  Score=162.72  Aligned_cols=208  Identities=20%  Similarity=0.266  Sum_probs=154.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++|++++++.+..++..    ...++++|+||||||||++++.+++.+....    . ...++.++|....+...+..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~----~-~~~~~~~~~~~~~~~~~~~~   87 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVER----KNIPHLLFSGPPGTGKTATAIALARDLFGEN----W-RDNFIEMNASDERGIDVVRH   87 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHT----TCCCCEEEECSTTSSHHHHHHHHHHHHHGGG----G-GGGEEEEETTCTTCHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhC----CCCCeEEEECCCCCCHHHHHHHHHHHHhccc----c-ccceEEeccccccChHHHHH
Confidence            4689999999988888764    3455699999999999999999998875321    1 13588999987655444322


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                      .+                    ...... .......+.||||||+|.+....++.|..+++..   ...+.+|+++|.  
T Consensus        88 ~~--------------------~~~~~~-~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~---~~~~~~i~~~~~--  141 (226)
T 2chg_A           88 KI--------------------KEFART-APIGGAPFKIIFLDEADALTADAQAALRRTMEMY---SKSCRFILSCNY--  141 (226)
T ss_dssp             HH--------------------HHHHTS-CCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHT---TTTEEEEEEESC--
T ss_pred             HH--------------------HHHhcc-cCCCccCceEEEEeChhhcCHHHHHHHHHHHHhc---CCCCeEEEEeCC--
Confidence            22                    111110 0011356789999999999776667777777653   346777888884  


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                       ...+.+.+.+| +  ..+.|+|++.+++.+++..++.... ..+++++++.+++   ...|++|.++++++.++..+  
T Consensus       142 -~~~~~~~l~~r-~--~~i~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~l~~---~~~g~~r~l~~~l~~~~~~~--  211 (226)
T 2chg_A          142 -VSRIIEPIQSR-C--AVFRFKPVPKEAMKKRLLEICEKEG-VKITEDGLEALIY---ISGGDFRKAINALQGAAAIG--  211 (226)
T ss_dssp             -GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHH---HHTTCHHHHHHHHHHHHHTC--
T ss_pred             -hhhcCHHHHHh-C--ceeecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HcCCCHHHHHHHHHHHHhcC--
Confidence             46678888888 6  5899999999999999998876432 3588999988876   57899999999999887543  


Q ss_pred             HHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHH
Q 010136          364 EMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS  407 (517)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~  407 (517)
                         .                            .|+.+||.+++.
T Consensus       212 ---~----------------------------~I~~~~v~~~~~  224 (226)
T 2chg_A          212 ---E----------------------------VVDADTIYQITA  224 (226)
T ss_dssp             ---S----------------------------CBCHHHHHHHHH
T ss_pred             ---c----------------------------eecHHHHHHHhc
Confidence               2                            799999999875

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.81  E-value=1.4e-18  Score=167.51  Aligned_cols=220  Identities=15%  Similarity=0.177  Sum_probs=156.7

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      ..++++|.+...+.+...+.....        ...+.+++|+||||||||+++++++..+.          ..+++++|.
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~----------~~~~~i~~~   79 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK----------VPFFTISGS   79 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT----------CCEEEECSC
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC----------CCEEEEeHH
Confidence            446799999999888877654221        12366899999999999999999988763          358999998


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHDL  262 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~l  262 (517)
                      .+.+.+                 .+.. ...+..+|...   ....+.++||||+|.+....+           ..+..+
T Consensus        80 ~~~~~~-----------------~~~~-~~~~~~~~~~a---~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~l  138 (257)
T 1lv7_A           80 DFVEMF-----------------VGVG-ASRVRDMFEQA---KKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQM  138 (257)
T ss_dssp             SSTTSC-----------------CCCC-HHHHHHHHHHH---HTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHH
T ss_pred             HHHHHh-----------------hhhh-HHHHHHHHHHH---HHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHH
Confidence            764321                 1222 45566666532   234578999999999976432           233444


Q ss_pred             hccC--CCCCCcEEEEEEECCCCcchhhcccccc--cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHH
Q 010136          263 FMLT--TFPFSRFILIGIANAIDLADRFLPRLQS--MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCA  337 (517)
Q Consensus       263 ~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~s--r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia  337 (517)
                      +...  .....++++|+++|.   ++.+++++.+  | | ...+.|++++.++..+|++..+...   .+.++ .+..++
T Consensus       139 l~~l~~~~~~~~~~vI~~tn~---~~~l~~~l~r~~r-f-~~~i~i~~P~~~~r~~il~~~~~~~---~l~~~~~~~~la  210 (257)
T 1lv7_A          139 LVEMDGFEGNEGIIVIAATNR---PDVLDPALLRPGR-F-DRQVVVGLPDVRGREQILKVHMRRV---PLAPDIDAAIIA  210 (257)
T ss_dssp             HHHHHTCCSSSCEEEEEEESC---TTTSCGGGGSTTS-S-CEEEECCCCCHHHHHHHHHHHHTTS---CBCTTCCHHHHH
T ss_pred             HHHhhCcccCCCEEEEEeeCC---chhCCHHHcCCCc-C-CeEEEeCCCCHHHHHHHHHHHHhcC---CCCccccHHHHH
Confidence            3321  123467999999995   4567788877  4 4 3589999999999999999887654   23333 355665


Q ss_pred             HHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          338 RKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       338 ~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      .   ...| +.|...++|+.|...|..++..                            .|+.+|+.+|+..+..
T Consensus       211 ~---~~~G~~~~dl~~l~~~a~~~a~~~~~~----------------------------~i~~~~~~~a~~~~~~  254 (257)
T 1lv7_A          211 R---GTPGFSGADLANLVNEAALFAARGNKR----------------------------VVSMVEFEKAKDKIMM  254 (257)
T ss_dssp             H---TCTTCCHHHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHHHHHTT
T ss_pred             H---HcCCCCHHHHHHHHHHHHHHHHHhCCC----------------------------cccHHHHHHHHHHHhc
Confidence            5   4678 8999999999999888776544                            7999999999988653

>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=99.81  E-value=7.8e-19  Score=183.42  Aligned_cols=133  Identities=13%  Similarity=0.168  Sum_probs=105.2

Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC----------CCcchhhcccccccCCCceEEEeCCCCHH
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA----------IDLADRFLPRLQSMNCKPLVVTFRAYSKD  310 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~----------~~~~~~l~~~l~sr~~~~~~i~f~p~~~~  310 (517)
                      .|+||||+|.|....++.|+..++.+   ..++++++ +|.          +..+..+.+.++|| |  ..+.|+||+.+
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~---~~~~~il~-tn~~~~~i~~~~~~~~~~~l~~~i~sR-~--~~~~~~~~~~~  369 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESS---IAPIVIFA-SNRGNCVIRGTEDITSPHGIPLDLLDR-V--MIIRTMLYTPQ  369 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTST---TCCEEEEE-ECCSEEECBTTSSCEEETTCCHHHHTT-E--EEEECCCCCHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhcc---CCCEEEEe-cCCccccccccccccccccCChhHHhh-c--ceeeCCCCCHH
Confidence            59999999999876677777777654   33454444 432          33566788999999 7  56899999999


Q ss_pred             HHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhh
Q 010136          311 QIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAF  390 (517)
Q Consensus       311 e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  390 (517)
                      ++.+||..++... ...+++++++++++..  ..|++|.|+.+|+.|..+|..++..                       
T Consensus       370 e~~~iL~~~~~~~-~~~~~~~~~~~i~~~a--~~g~~r~a~~ll~~a~~~A~~~~~~-----------------------  423 (456)
T 2c9o_A          370 EMKQIIKIRAQTE-GINISEEALNHLGEIG--TKTTLRYSVQLLTPANLLAKINGKD-----------------------  423 (456)
T ss_dssp             HHHHHHHHHHHHH-TCCBCHHHHHHHHHHH--HHSCHHHHHHTHHHHHHHHHHTTCS-----------------------
T ss_pred             HHHHHHHHHHHHh-CCCCCHHHHHHHHHHc--cCCCHHHHHHHHHHHHHHHhhcCCC-----------------------
Confidence            9999999988632 2468999999998842  2699999999999999999877765                       


Q ss_pred             hccCccccHHHHHHHHHHhcc
Q 010136          391 EFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       391 ~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                           .|+.+||.+|+.-+..
T Consensus       424 -----~v~~~~v~~~~~~~~d  439 (456)
T 2c9o_A          424 -----SIEKEHVEEISELFYD  439 (456)
T ss_dssp             -----SBCHHHHHHHHHHSCC
T ss_pred             -----ccCHHHHHHHHHHhcC
Confidence                 8999999999877643

>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=99.80  E-value=2e-19  Score=178.11  Aligned_cols=238  Identities=17%  Similarity=0.209  Sum_probs=159.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc----------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLE----------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~----------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      +.++|++..++.+...+.....          ...+.+++|+||||||||++++++++.+.          ..+++++|.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~----------~~~~~i~~~   84 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN----------APFIKVEAT   84 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT----------CCEEEEEGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC----------CCEEEEcch
Confidence            3589999999999988766321          23577999999999999999999998873          368999998


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh--hccCCCceEEEEEeCcchhcccC------------chHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK--LHSSVMKMMLIIADELDYLITRD------------RAVL  259 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~vI~iDEiD~L~~~~------------~~~L  259 (517)
                      .+....                ..+......+..++...  .......+.||||||+|.+....            ++.|
T Consensus        85 ~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~L  148 (310)
T 1ofh_A           85 KFTEVG----------------YVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDL  148 (310)
T ss_dssp             GGSSCC----------------SGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHH
T ss_pred             hcccCC----------------ccCccHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHH
Confidence            764310                00111112233333310  00001235799999999998765            5667


Q ss_pred             HHHhccCC-------CCCCcEEEEEEECC-CCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh--------
Q 010136          260 HDLFMLTT-------FPFSRFILIGIANA-IDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL--------  323 (517)
Q Consensus       260 ~~l~~~~~-------~~~~~v~lI~ian~-~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~--------  323 (517)
                      ..+++...       ....++++|+++|. ...+..+++.+.+| |. ..+.|+||+.+++.+|+..++..+        
T Consensus       149 l~~le~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~~~l~~R-~~-~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~  226 (310)
T 1ofh_A          149 LPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGR-LP-IRVELTALSAADFERILTEPHASLTEQYKALM  226 (310)
T ss_dssp             HHHHHCCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHHT-CC-EEEECCCCCHHHHHHHHHSSTTCHHHHHHHHH
T ss_pred             HHHhcCCeEecccccccCCcEEEEEcCCcccCCcccCCHHHHhh-CC-ceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHH
Confidence            77665421       12347888887653 22456788999999 64 579999999999999998422100        


Q ss_pred             --c--cCCCChhHHHHHHHHHHHH-----hCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccC
Q 010136          324 --S--YIVFQPQALELCARKVAAA-----SGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFN  394 (517)
Q Consensus       324 --~--~~~~~~~ai~~ia~~~~~~-----~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  394 (517)
                        .  ...+++++++++++.....     .|++|.+.++|+.++..+..+.....        +..              
T Consensus       227 ~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~~--------~~~--------------  284 (310)
T 1ofh_A          227 ATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASDMN--------GQT--------------  284 (310)
T ss_dssp             HHTTCEEEECHHHHHHHHHHHHHHHHHSCCCTTHHHHHHHHHHSHHHHHHGGGCT--------TCE--------------
T ss_pred             HhcCCeeccCHHHHHHHHHHhhhhcccccccCcHHHHHHHHHHHHhhhcCCcccc--------CCE--------------
Confidence              1  1258999999999865433     69999999999998765443322100        000              


Q ss_pred             ccccHHHHHHHHHHhcc
Q 010136          395 SQVRVDHMAVALSNTFK  411 (517)
Q Consensus       395 ~~Vt~~~v~~a~~~~~~  411 (517)
                      ..|+.+||.+++.....
T Consensus       285 ~~i~~~~v~~~l~~~~~  301 (310)
T 1ofh_A          285 VNIDAAYVADALGEVVE  301 (310)
T ss_dssp             EEECHHHHHHHTCSSSS
T ss_pred             EEEeeHHHHHHHHhhhh
Confidence            05999999999876543

>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=99.80  E-value=4.1e-18  Score=171.88  Aligned_cols=214  Identities=16%  Similarity=0.184  Sum_probs=146.6

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |...|.|   +.++|+++.++.+..+    +..+..++++|+||||||||++++.+++.+......    ...++++++.
T Consensus        27 ~~~k~~p~~~~~i~g~~~~~~~l~~~----l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~----~~~~~~~~~~   98 (353)
T 1sxj_D           27 WVEKYRPKNLDEVTAQDHAVTVLKKT----LKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLM----KSRILELNAS   98 (353)
T ss_dssp             HHHHTCCSSTTTCCSCCTTHHHHHHH----TTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHH----TTSEEEECSS
T ss_pred             HHHhcCCCCHHHhhCCHHHHHHHHHH----HhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCccc----ccceEEEccc
Confidence            3344554   5799999987766666    444555679999999999999999999998642111    1468899998


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcE
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRF  273 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v  273 (517)
                      .......+ ......+....... ... .     ...   ......+.||||||+|.+....++.|..+++...   ...
T Consensus        99 ~~~~~~~~-~~~~~~~~~~~~~~-~~~-~-----~~~---~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~---~~~  164 (353)
T 1sxj_D           99 DERGISIV-REKVKNFARLTVSK-PSK-H-----DLE---NYPCPPYKIIILDEADSMTADAQSALRRTMETYS---GVT  164 (353)
T ss_dssp             SCCCHHHH-TTHHHHHHHSCCCC-CCT-T-----HHH---HSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT---TTE
T ss_pred             cccchHHH-HHHHHHHhhhcccc-cch-h-----hcc---cCCCCCceEEEEECCCccCHHHHHHHHHHHHhcC---CCc
Confidence            76544332 11111111000000 000 0     000   0112355799999999998777788888877642   345


Q ss_pred             EEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHH
Q 010136          274 ILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSV  353 (517)
Q Consensus       274 ~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~l  353 (517)
                      .+|.++|.   +..+.+.+.+| +  ..+.|.|++.+++..++..++... ...+++++++++++   ...||+|.++++
T Consensus       165 ~~il~~~~---~~~l~~~l~sR-~--~~i~~~~~~~~~~~~~l~~~~~~~-~~~i~~~~l~~l~~---~~~G~~r~~~~~  234 (353)
T 1sxj_D          165 RFCLICNY---VTRIIDPLASQ-C--SKFRFKALDASNAIDRLRFISEQE-NVKCDDGVLERILD---ISAGDLRRGITL  234 (353)
T ss_dssp             EEEEEESC---GGGSCHHHHHH-S--EEEECCCCCHHHHHHHHHHHHHTT-TCCCCHHHHHHHHH---HTSSCHHHHHHH
T ss_pred             eEEEEeCc---hhhCcchhhcc-C--ceEEeCCCCHHHHHHHHHHHHHHh-CCCCCHHHHHHHHH---HcCCCHHHHHHH
Confidence            56667774   56688999998 6  589999999999999999887532 23689999999987   467999999999


Q ss_pred             HHHHHHHHH
Q 010136          354 CRSAIEILE  362 (517)
Q Consensus       354 l~~A~~~a~  362 (517)
                      ++.++..+.
T Consensus       235 l~~~~~~~~  243 (353)
T 1sxj_D          235 LQSASKGAQ  243 (353)
T ss_dssp             HHHTHHHHH
T ss_pred             HHHHHHhcC
Confidence            998886654

>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=99.80  E-value=8.5e-19  Score=177.33  Aligned_cols=234  Identities=15%  Similarity=0.112  Sum_probs=157.2

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++++|++..++.|.+.+...+.        ...+.+++|+||||||||++++++++++.          ..+++++|..
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~----------~~~~~i~~~~  152 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG----------ATFFSISASS  152 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTT----------CEEEEEEGGG
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcC----------CeEEEEehHH
Confidence            35789999999999988765321        23567899999999999999999988753          4799999976


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc------------hHHHHH
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR------------AVLHDL  262 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~------------~~L~~l  262 (517)
                      +.+.+.                 + .....+..+|...   ....+.||||||||.|.....            ..|..+
T Consensus       153 l~~~~~-----------------g-~~~~~~~~~~~~a---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l  211 (357)
T 3d8b_A          153 LTSKWV-----------------G-EGEKMVRALFAVA---RCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQL  211 (357)
T ss_dssp             GCCSST-----------------T-HHHHHHHHHHHHH---HHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHH
T ss_pred             hhcccc-----------------c-hHHHHHHHHHHHH---HhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHH
Confidence            543211                 1 1234455555421   234578999999999975421            223333


Q ss_pred             hccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          263 FMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       263 ~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      .........+++||+++|.   ++.+++.+.+| |. ..+.|+.++.++..+|+...+.... ..++++.++.+++.+  
T Consensus       212 ~~~~~~~~~~v~vI~atn~---~~~l~~~l~~R-f~-~~i~i~~p~~~~r~~il~~~~~~~~-~~l~~~~l~~la~~t--  283 (357)
T 3d8b_A          212 DGATTSSEDRILVVGATNR---PQEIDEAARRR-LV-KRLYIPLPEASARKQIVINLMSKEQ-CCLSEEEIEQIVQQS--  283 (357)
T ss_dssp             HC----CCCCEEEEEEESC---GGGBCHHHHTT-CC-EEEECCCCCHHHHHHHHHHHHHTSC-BCCCHHHHHHHHHHT--
T ss_pred             hcccccCCCCEEEEEecCC---hhhCCHHHHhh-Cc-eEEEeCCcCHHHHHHHHHHHHhhcC-CCccHHHHHHHHHHc--
Confidence            3233334568999999995   56788899988 63 5899999999999999998876432 357888899988854  


Q ss_pred             HhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          343 ASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       343 ~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                       .| ..+....+|+.|+..+.++.......      ....          .....|+.+||..|+..+..+
T Consensus       284 -~G~s~~dl~~l~~~a~~~~ir~l~~~~~~------~~~~----------~~~~~i~~~d~~~al~~~~ps  337 (357)
T 3d8b_A          284 -DAFSGADMTQLCREASLGPIRSLQTADIA------TITP----------DQVRPIAYIDFENAFRTVRPS  337 (357)
T ss_dssp             -TTCCHHHHHHHHHHHHTHHHHHCCC--------------------------CCCBCHHHHHHHHHHHGGG
T ss_pred             -CCCCHHHHHHHHHHHHHHHHHHhhhhhhc------cccc----------cccCCcCHHHHHHHHHhcCCC
Confidence             44 34455578899887766543210000      0000          001269999999999888764

>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=99.80  E-value=3.1e-19  Score=176.34  Aligned_cols=247  Identities=18%  Similarity=0.208  Sum_probs=153.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .++++|.++.++.|.+++...+.         -..+.+++|+||||||||+++++++.++.          ..+++++|.
T Consensus        14 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~----------~~~i~v~~~   83 (301)
T 3cf0_A           14 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ----------ANFISIKGP   83 (301)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTT----------CEEEEECHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhC----------CCEEEEEhH
Confidence            34689999999999888764321         13467899999999999999999998763          468899875


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDL  262 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l  262 (517)
                      .+      +.    .+.       +.. ...+..+|...   ....+.||||||+|.+....           ...+..+
T Consensus        84 ~l------~~----~~~-------g~~-~~~~~~~f~~a---~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~l  142 (301)
T 3cf0_A           84 EL------LT----MWF-------GES-EANVREIFDKA---RQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQI  142 (301)
T ss_dssp             HH------HH----HHH-------TTC-TTHHHHHHHHH---HHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHH
T ss_pred             HH------Hh----hhc-------Cch-HHHHHHHHHHH---HhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHH
Confidence            42      11    111       111 23355556532   23457899999999986431           1233333


Q ss_pred             hccC--CCCCCcEEEEEEECCCCcchhhcccccc--cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          263 FMLT--TFPFSRFILIGIANAIDLADRFLPRLQS--MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       263 ~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~s--r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      +.+.  .....+++||++||.   ++.+++.+.+  | | ...|.|++++.+++.+|++..+....  ...+..++.++.
T Consensus       143 L~~l~~~~~~~~v~vi~atn~---~~~ld~al~r~gR-f-~~~i~i~~p~~~~r~~il~~~l~~~~--~~~~~~~~~la~  215 (301)
T 3cf0_A          143 LTEMDGMSTKKNVFIIGATNR---PDIIDPAILRPGR-L-DQLIYIPLPDEKSRVAILKANLRKSP--VAKDVDLEFLAK  215 (301)
T ss_dssp             HHHHHSSCTTSSEEEEEEESC---GGGSCGGGGSTTS-S-CEEEECCCCCHHHHHHHHHHHHTTSC--BCSSCCHHHHHH
T ss_pred             HHHhhcccCCCCEEEEEecCC---ccccChHHhcCCc-c-ceEEecCCcCHHHHHHHHHHHHccCC--CCccchHHHHHH
Confidence            3321  123468999999994   6678888887  5 5 36899999999999999998887542  112333566666


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhh-hhccCccccHHHHHHHHHHhccCh
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASA-FEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      ....++|  +..-++|++|+..|..+............ . ..+.  .... .......|+.+||..|+..+..+.
T Consensus       216 ~~~g~sg--~dl~~l~~~a~~~a~~~~~~~~~~~~~~~-~-~~~~--~~~~~~~~~~~~v~~~~~~~al~~~~~s~  285 (301)
T 3cf0_A          216 MTNGFSG--ADLTEICQRACKLAIRESIESEIRRERER-Q-TNPS--AMEVEEDDPVPEIRRDHFEEAMRFARRSV  285 (301)
T ss_dssp             TCSSCCH--HHHHHHHHHHHHHHHHHHHHHHC------------------------CCCBCHHHHHHHHTTCCCSS
T ss_pred             HcCCCCH--HHHHHHHHHHHHHHHHHHHHhhhhhhhhc-c-cccc--cccccccccCCccCHHHHHHHHHHcCCCC
Confidence            4333333  35557899998888766543211100000 0 0000  0000 001113699999999999887654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.80  E-value=2.1e-18  Score=178.82  Aligned_cols=208  Identities=16%  Similarity=0.220  Sum_probs=147.1

Q ss_pred             CCCCCcHHHH---HHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          124 STIVCREDEQ---KKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       124 ~~l~gRe~e~---~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      ++++|++..+   ..|...+.    .+...+++|+||||||||++++.+++.+.          ..++.+++.... ...
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~----~~~~~~vLL~GppGtGKTtlAr~ia~~~~----------~~f~~l~a~~~~-~~~   90 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIE----AGHLHSMILWGPPGTGKTTLAEVIARYAN----------ADVERISAVTSG-VKE   90 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHH----HTCCCEEEEECSTTSSHHHHHHHHHHHTT----------CEEEEEETTTCC-HHH
T ss_pred             HHhCCcHHHHhchHHHHHHHH----cCCCcEEEEECCCCCcHHHHHHHHHHHhC----------CCeEEEEeccCC-HHH
Confidence            5789999877   45555544    35568999999999999999999998763          468899986542 222


Q ss_pred             HHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEEC
Q 010136          201 IFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIAN  280 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian  280 (517)
                      +                    .+.+......   .....+.||||||||.|....|+.|...++.     ..+++|++++
T Consensus        91 i--------------------r~~~~~a~~~---~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-----~~v~lI~att  142 (447)
T 3pvs_A           91 I--------------------REAIERARQN---RNAGRRTILFVDEVHRFNKSQQDAFLPHIED-----GTITFIGATT  142 (447)
T ss_dssp             H--------------------HHHHHHHHHH---HHTTCCEEEEEETTTCC------CCHHHHHT-----TSCEEEEEES
T ss_pred             H--------------------HHHHHHHHHh---hhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-----CceEEEecCC
Confidence            1                    1111111110   0134568999999999988777777777754     4578888774


Q ss_pred             CCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHHHhCCHHHHHHHH
Q 010136          281 AIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL------SYIVFQPQALELCARKVAAASGDMRKALSVC  354 (517)
Q Consensus       281 ~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll  354 (517)
                      . +....+.+.+.+| +  .++.|.+++.+++..++...+...      ....+++++++.+++.   ..||+|.++++|
T Consensus       143 ~-n~~~~l~~aL~sR-~--~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~---~~Gd~R~lln~L  215 (447)
T 3pvs_A          143 E-NPSFELNSALLSR-A--RVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAEL---VNGDARRALNTL  215 (447)
T ss_dssp             S-CGGGSSCHHHHTT-E--EEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHH---HCSCHHHHHHHH
T ss_pred             C-CcccccCHHHhCc-e--eEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHH---CCCCHHHHHHHH
Confidence            3 3445678999998 6  689999999999999999988642      2246899999999884   789999999999


Q ss_pred             HHHHHHHHHH--HHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHh
Q 010136          355 RSAIEILEAE--MRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNT  409 (517)
Q Consensus       355 ~~A~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~  409 (517)
                      +.++..+...  +..                            .||.++|.+++...
T Consensus       216 e~a~~~a~~~~~~~~----------------------------~It~e~v~~~l~~~  244 (447)
T 3pvs_A          216 EMMADMAEVDDSGKR----------------------------VLKPELLTEIAGER  244 (447)
T ss_dssp             HHHHHHSCBCTTSCE----------------------------ECCHHHHHHHHTCC
T ss_pred             HHHHHhcccccCCCC----------------------------ccCHHHHHHHHhhh
Confidence            9998765321  111                            68999999888765

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.79  E-value=1.7e-18  Score=170.63  Aligned_cols=235  Identities=16%  Similarity=0.134  Sum_probs=156.9

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++++|.+..++.+...+.....        ...+.+++|+||||||||++++++++++.          ..+++++|..
T Consensus        20 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~----------~~~~~i~~~~   89 (297)
T 3b9p_A           20 WTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECS----------ATFLNISAAS   89 (297)
T ss_dssp             GGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTT----------CEEEEEESTT
T ss_pred             HHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhC----------CCeEEeeHHH
Confidence            35789999999999888754321        23467999999999999999999988763          4789999977


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hH---HHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AV---LHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~---L~~l~  263 (517)
                      +...+                  .......+..+|...   ....+.||||||+|.+....+        ..   |...+
T Consensus        90 l~~~~------------------~~~~~~~~~~~~~~~---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l  148 (297)
T 3b9p_A           90 LTSKY------------------VGDGEKLVRALFAVA---RHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEF  148 (297)
T ss_dssp             TSSSS------------------CSCHHHHHHHHHHHH---HHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHH
T ss_pred             Hhhcc------------------cchHHHHHHHHHHHH---HHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHH
Confidence            64321                  112244555555421   234578999999999976432        12   22222


Q ss_pred             cc-CC-CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          264 ML-TT-FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       264 ~~-~~-~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      +. .. ....++++|+++|.   ++.+++.+.+| |. ..+.|++++.++...|+...+.... ..+++++++.+++.  
T Consensus       149 ~~~~~~~~~~~v~vi~~tn~---~~~l~~~l~~R-~~-~~i~~~~p~~~~r~~il~~~~~~~~-~~~~~~~~~~la~~--  220 (297)
T 3b9p_A          149 DGLPGNPDGDRIVVLAATNR---PQELDEAALRR-FT-KRVYVSLPDEQTRELLLNRLLQKQG-SPLDTEALRRLAKI--  220 (297)
T ss_dssp             HHCC------CEEEEEEESC---GGGBCHHHHHH-CC-EEEECCCCCHHHHHHHHHHHHGGGS-CCSCHHHHHHHHHH--
T ss_pred             hcccccCCCCcEEEEeecCC---hhhCCHHHHhh-CC-eEEEeCCcCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHH--
Confidence            22 21 12357999999994   56788888888 64 5899999999999999998876542 35788888888874  


Q ss_pred             HHhCCHHHHH-HHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          342 AASGDMRKAL-SVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       342 ~~~Gd~R~al-~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                       ..|..+.++ .+|+.|+..+.++........      ...          .....|+.+||..|+..+..+.
T Consensus       221 -~~g~~~~~l~~l~~~a~~~a~r~~~~~~~~~------~~~----------~~~~~i~~~d~~~a~~~~~~s~  276 (297)
T 3b9p_A          221 -TDGYSGSDLTALAKDAALEPIRELNVEQVKC------LDI----------SAMRAITEQDFHSSLKRIRRSV  276 (297)
T ss_dssp             -TTTCCHHHHHHHHHHHTTHHHHTCC--------------C----------CCCCCCCHHHHHHHTTSCCCSS
T ss_pred             -cCCCCHHHHHHHHHHHHHHHHHHHhhhhccc------ccc----------cccCCcCHHHHHHHHHHcCCCC
Confidence             466655555 788888877766532110000      000          0011699999999998876553

>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=99.79  E-value=1.3e-18  Score=180.83  Aligned_cols=208  Identities=15%  Similarity=0.148  Sum_probs=142.8

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+++++|.+...+.|...+...+.        ...+.+++|+||||||||++++++++++.         ...+++++|.
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~---------~~~~~~v~~~  202 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN---------NSTFFSISSS  202 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC---------SSEEEEECCC
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC---------CCCEEEEeHH
Confidence            345789999999888887643211        12457899999999999999999998762         1478999998


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--------chHHHHHhcc
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--------RAVLHDLFML  265 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--------~~~L~~l~~~  265 (517)
                      .+.+.+.                 +.. ...+..+|...   ....+.||||||||.+....        ..++..++.+
T Consensus       203 ~l~~~~~-----------------g~~-~~~~~~~f~~a---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~  261 (444)
T 2zan_A          203 DLVSKWL-----------------GES-EKLVKNLFQLA---RENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQ  261 (444)
T ss_dssp             --------------------------C-CCTHHHHHHHH---HHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTT
T ss_pred             HHHhhhc-----------------chH-HHHHHHHHHHH---HHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHH
Confidence            7643221                 111 12244455421   23467899999999996542        1344445544


Q ss_pred             C---CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          266 T---TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       266 ~---~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      .   ......++||+++|.   ++.+++.+.+| |. ..+.|++++.+++..|+...+.... ..+++..++.+++.+.+
T Consensus       262 l~~~~~~~~~v~vI~atn~---~~~ld~al~rR-f~-~~i~i~~P~~~~r~~il~~~l~~~~-~~l~~~~l~~la~~t~G  335 (444)
T 2zan_A          262 MQGVGVDNDGILVLGATNI---PWVLDSAIRRR-FE-KRIYIPLPEAHARAAMFRLHLGSTQ-NSLTEADFQELGRKTDG  335 (444)
T ss_dssp             TTCSSCCCSSCEEEEEESC---GGGSCHHHHTT-CC-EEEECCCCCHHHHHHHHHHHHTTSC-EECCHHHHHHHHHHTTT
T ss_pred             HhCcccCCCCEEEEecCCC---ccccCHHHHhh-cc-eEEEeCCcCHHHHHHHHHHHHhcCC-CCCCHHHHHHHHHHcCC
Confidence            2   224578999999994   67788999998 63 5899999999999999998886542 24678889999885433


Q ss_pred             HhCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          343 ASGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                      +  ..+..-.+|+.|+..|.++...
T Consensus       336 ~--sgadl~~l~~~a~~~a~r~~~~  358 (444)
T 2zan_A          336 Y--SGADISIIVRDALMQPVRKVQS  358 (444)
T ss_dssp             C--CHHHHHHHHHHHHTHHHHHHHH
T ss_pred             C--CHHHHHHHHHHHHHHHHHHHHh
Confidence            2  3455557899999888877654

>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=99.79  E-value=5.3e-18  Score=169.27  Aligned_cols=187  Identities=19%  Similarity=0.203  Sum_probs=135.9

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|+++.++.+..++..   +..+..++++||||||||++++++++.+.          ..++++|+.... ...+ .
T Consensus        26 ~~ivg~~~~~~~l~~~l~~---~~~~~~~L~~G~~G~GKT~la~~la~~l~----------~~~~~i~~~~~~-~~~i-~   90 (324)
T 3u61_B           26 DECILPAFDKETFKSITSK---GKIPHIILHSPSPGTGKTTVAKALCHDVN----------ADMMFVNGSDCK-IDFV-R   90 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHT---TCCCSEEEECSSTTSSHHHHHHHHHHHTT----------EEEEEEETTTCC-HHHH-H
T ss_pred             HHHhCcHHHHHHHHHHHHc---CCCCeEEEeeCcCCCCHHHHHHHHHHHhC----------CCEEEEcccccC-HHHH-H
Confidence            5799999998888887763   23345667788899999999999988873          479999987753 2221 1


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc-ccCchHHHHHhccCCCCCCcEEEEEEECCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI-TRDRAVLHDLFMLTTFPFSRFILIGIANAI  282 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~-~~~~~~L~~l~~~~~~~~~~v~lI~ian~~  282 (517)
                                         ..+.....  .....+.+.||||||+|.+. ...++.|..+++..   ...+.+|+++|. 
T Consensus        91 -------------------~~~~~~~~--~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~---~~~~~iI~~~n~-  145 (324)
T 3u61_B           91 -------------------GPLTNFAS--AASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAY---SSNCSIIITANN-  145 (324)
T ss_dssp             -------------------THHHHHHH--BCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHH---GGGCEEEEEESS-
T ss_pred             -------------------HHHHHHHh--hcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhC---CCCcEEEEEeCC-
Confidence                               11222221  11123467899999999998 66677888877653   246778888995 


Q ss_pred             CcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh------hccCCCCh-hHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          283 DLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME------LSYIVFQP-QALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       283 ~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~------~~~~~~~~-~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                        ...+.+++.+| |  ..+.|++++.+++.+|+...+..      .....+++ ++++.+++   ...||+|.|++.++
T Consensus       146 --~~~l~~~l~sR-~--~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~---~~~gd~R~a~~~L~  217 (324)
T 3u61_B          146 --IDGIIKPLQSR-C--RVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVK---KNFPDFRKTIGELD  217 (324)
T ss_dssp             --GGGSCTTHHHH-S--EEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHH---HTCSCTTHHHHHHH
T ss_pred             --ccccCHHHHhh-C--cEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHH---hCCCCHHHHHHHHH
Confidence              55788999999 7  68999999999977665554321      12346777 99999887   47899999999998


Q ss_pred             HHH
Q 010136          356 SAI  358 (517)
Q Consensus       356 ~A~  358 (517)
                      .+.
T Consensus       218 ~~~  220 (324)
T 3u61_B          218 SYS  220 (324)
T ss_dssp             HHG
T ss_pred             HHh
Confidence            876

>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=99.79  E-value=1.3e-20  Score=205.67  Aligned_cols=247  Identities=18%  Similarity=0.209  Sum_probs=130.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          124 STIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +.+.|.++..+.|.+.+.-.+.         ...+.++|||||||||||+++++++.+++          ..++.+++..
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~----------~~f~~v~~~~  546 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ----------ANFISIKGPE  546 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTT----------CEEEECCHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhC----------CceEEeccch
Confidence            3455555555555444332111         12466899999999999999999998865          4688877655


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~l~  263 (517)
                      +.+.+                 .|.+ .+.++.+|..   ++...|+||||||||.+...+           ..++.+|+
T Consensus       547 l~s~~-----------------vGes-e~~vr~lF~~---Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL  605 (806)
T 3cf2_A          547 LLTMW-----------------FGES-EANVREIFDK---ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQIL  605 (806)
T ss_dssp             HHTTT-----------------CSSC-HHHHHHHHHH---HHTTCSEEEECSCGGGCC--------------CHHHHHHH
T ss_pred             hhccc-----------------cchH-HHHHHHHHHH---HHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHH
Confidence            42222                 2444 7889999983   346678999999999997542           12344444


Q ss_pred             ccC--CCCCCcEEEEEEECCCCcchhhcccccc--cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          264 MLT--TFPFSRFILIGIANAIDLADRFLPRLQS--MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       264 ~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~s--r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      .+.  ......|+|||+||   .++.+++++.+  | | ...|+|+.++.+++.+||+..+.+.+  .-.+-.++.+|+.
T Consensus       606 ~~mdg~~~~~~V~vi~aTN---~p~~lD~AllRpgR-f-d~~i~v~lPd~~~R~~il~~~l~~~~--~~~~~dl~~la~~  678 (806)
T 3cf2_A          606 TEMDGMSTKKNVFIIGATN---RPDIIDPAILRPGR-L-DQLIYIPLPDEKSRVAILKANLRKSP--VAKDVDLEFLAKM  678 (806)
T ss_dssp             HHHHSSCSSSSEEEECC-C---CSSSSCHHHHSTTT-S-CCEEEC-----CHHHHTTTTTSSCC----CCC---------
T ss_pred             HHHhCCCCCCCEEEEEeCC---CchhCCHhHcCCCc-c-eEEEEECCcCHHHHHHHHHHHhcCCC--CCCCCCHHHHHHh
Confidence            431  12346799999999   57778999987  5 5 46999999999999999997776542  1223347888888


Q ss_pred             HHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          340 VAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       340 ~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                      +..++| |+.   .+|+.|+..|.++..............  .+.. .........+.|+++||.+|+.++..+..
T Consensus       679 t~g~SGadi~---~l~~~A~~~a~r~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~i~~~df~~al~~~~pSvs  748 (806)
T 3cf2_A          679 TNGFSGADLT---EICQRACKLAIRESIESEIRRERERQT--NPSA-MEVEEDDPVPEIRRDHFEEAMRFARRSVS  748 (806)
T ss_dssp             -------CHH---HHHHHHHHHHHHHHHC--------------------------CCC----CCTTTC--------
T ss_pred             CCCCCHHHHH---HHHHHHHHHHHHHHHHhhhhhhhhhcc--Cccc-cccccccccCccCHHHHHHHHHhCCCCCC
Confidence            877776 666   689999998887765422110000000  0000 00000111236999999999988887653

>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=99.78  E-value=1.1e-19  Score=198.45  Aligned_cols=208  Identities=17%  Similarity=0.202  Sum_probs=146.9

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      ..+++.|.++++++|.+.+.-.+.         -..+.++|||||||||||+++++++++++          ..+++|+|
T Consensus       202 ~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg----------~~~~~v~~  271 (806)
T 3cf2_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG----------AFFFLING  271 (806)
T ss_dssp             CGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTT----------CEEEEEEH
T ss_pred             ChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC----------CeEEEEEh
Confidence            345789999999999888754332         12467999999999999999999998764          57999998


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHHhc
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDLFM  264 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l~~  264 (517)
                      ..+.+.+                  .......++.+|..   +....|+||||||+|.|.....        ..+.+|+.
T Consensus       272 ~~l~sk~------------------~gese~~lr~lF~~---A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~  330 (806)
T 3cf2_A          272 PEIMSKL------------------AGESESNLRKAFEE---AEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLT  330 (806)
T ss_dssp             HHHHSSC------------------TTHHHHHHHHHHHH---HTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHT
T ss_pred             HHhhccc------------------chHHHHHHHHHHHH---HHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHH
Confidence            6542211                  12236778888873   3567899999999999986421        34445544


Q ss_pred             cC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          265 LT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       265 ~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      +.  .....+|+||++||.   ++.+++.+++.......|.|+.++.++..+||+..+.+..  .-++..++.+|+.+..
T Consensus       331 ~mdg~~~~~~V~VIaaTN~---~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~--~~~dvdl~~lA~~T~G  405 (806)
T 3cf2_A          331 LMDGLKQRAHVIVMAATNR---PNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMK--LADDVDLEQVANETHG  405 (806)
T ss_dssp             HHHHCCGGGCEEEEEECSS---TTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSE--ECTTCCHHHHHHHCCS
T ss_pred             HHhcccccCCEEEEEecCC---hhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCC--CCcccCHHHHHHhcCC
Confidence            41  123467999999995   6778899988322356999999999999999997776542  1223346777775443


Q ss_pred             HhCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          343 ASGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                      ++|  ...-.+|++|...|..+...
T Consensus       406 fsg--aDL~~Lv~eA~~~A~~r~~~  428 (806)
T 3cf2_A          406 HVG--ADLAALCSEAALQAIRKKMD  428 (806)
T ss_dssp             CCH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             CCH--HHHHHHHHHHHHHHHHhccc
Confidence            333  33446889988887766544

>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=99.78  E-value=4.3e-19  Score=185.69  Aligned_cols=242  Identities=18%  Similarity=0.169  Sum_probs=159.9

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      ..+.++|.+.+++.|.+++...+.         ...+.++||+||||||||++++++++++.          ..++++||
T Consensus       202 ~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~----------~~fv~vn~  271 (489)
T 3hu3_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG----------AFFFLING  271 (489)
T ss_dssp             CGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCS----------SEEEEEEH
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhC----------CCEEEEEc
Confidence            446799999999999998765422         24567899999999999999999987752          47999998


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~  261 (517)
                      ..+.+.          +        .......+...|...   ....+.+|||||||.|....+           ..|..
T Consensus       272 ~~l~~~----------~--------~g~~~~~~~~~f~~A---~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~  330 (489)
T 3hu3_A          272 PEIMSK----------L--------AGESESNLRKAFEEA---EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLT  330 (489)
T ss_dssp             HHHHTS----------C--------TTHHHHHHHHHHHHH---HHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHH
T ss_pred             hHhhhh----------h--------cchhHHHHHHHHHHH---HhcCCcEEEecchhhhccccccccchHHHHHHHHHHH
Confidence            553211          1        011244566666632   244578999999999987532           22444


Q ss_pred             HhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          262 LFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       262 l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      +++.. .....++||+++|.   ++.+++.+.++......+.|++++.++..+||+.++..+.  ...+..++.+++.  
T Consensus       331 ~ld~~-~~~~~v~vIaaTn~---~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~--l~~~~~l~~la~~--  402 (489)
T 3hu3_A          331 LMDGL-KQRAHVIVMAATNR---PNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMK--LADDVDLEQVANE--  402 (489)
T ss_dssp             HHHHS-CTTSCEEEEEEESC---GGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSC--BCTTCCHHHHHHT--
T ss_pred             Hhhcc-ccCCceEEEEecCC---ccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCC--CcchhhHHHHHHH--
Confidence            44432 24568999999995   5668889988422245899999999999999998887542  2233345666663  


Q ss_pred             HHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          342 AASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       342 ~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                       ..| ..+..-.+|+.|+..|.++.....+...     ...+.      .......|+++||.+|+..+..+..
T Consensus       403 -t~g~s~~dL~~L~~~A~~~a~r~~~~~i~~~~-----~~~~~------~~~~~~~vt~edf~~Al~~~~ps~~  464 (489)
T 3hu3_A          403 -THGHVGADLAALCSEAALQAIRKKMDLIDLED-----ETIDA------EVMNSLAVTMDDFRWALSQSNPSAL  464 (489)
T ss_dssp             -CTTCCHHHHHHHHHHHHHHHHHTTTTTCCTTC-----SSCCH------HHHHHCCBCHHHHHHHHTSHHHHHH
T ss_pred             -ccCCcHHHHHHHHHHHHHHHHHhccccccccc-----cccch------hhcccCcCCHHHHHHHHHhCCchhh
Confidence             344 3455557889999888776543111000     00000      0000116999999999988776543

>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=99.78  E-value=5.3e-18  Score=176.00  Aligned_cols=222  Identities=15%  Similarity=0.170  Sum_probs=154.8

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      ..++++|.++.++++.+.+.....        ...+.+++|+||||||||+++++++.++.          ..+++++|.
T Consensus        14 ~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~----------~~f~~is~~   83 (476)
T 2ce7_A           14 TFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEAN----------VPFFHISGS   83 (476)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHT----------CCEEEEEGG
T ss_pred             CHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcC----------CCeeeCCHH
Confidence            445789999998888887654321        12356899999999999999999998763          468999998


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHDL  262 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~l  262 (517)
                      .+...+.                 + .....++.+|...   ....|+||||||+|.+....+           ..+..|
T Consensus        84 ~~~~~~~-----------------g-~~~~~~r~lf~~A---~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~L  142 (476)
T 2ce7_A           84 DFVELFV-----------------G-VGAARVRDLFAQA---KAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQL  142 (476)
T ss_dssp             GTTTCCT-----------------T-HHHHHHHHHHHHH---HHTCSEEEEEETGGGTCCC---------CHHHHHHHHH
T ss_pred             HHHHHHh-----------------c-ccHHHHHHHHHHH---HhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHH
Confidence            7643211                 1 1244566666632   234689999999999976432           244555


Q ss_pred             hccCC--CCCCcEEEEEEECCCCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          263 FMLTT--FPFSRFILIGIANAIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       263 ~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      +.+..  .....++||+++|.   ++.+++.+.+. +| ...|.|++++.+++.+|++..+....  ..++..++.+++ 
T Consensus       143 L~~ld~~~~~~~viVIaaTn~---~~~Ld~allR~gRF-d~~i~i~~Pd~~~R~~Il~~~~~~~~--l~~~v~l~~la~-  215 (476)
T 2ce7_A          143 LVEMDGFDSKEGIIVMAATNR---PDILDPALLRPGRF-DKKIVVDPPDMLGRKKILEIHTRNKP--LAEDVNLEIIAK-  215 (476)
T ss_dssp             HHHHHHSCGGGTEEEEEEESC---GGGSCGGGGSTTSS-CEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHH-
T ss_pred             HHHHhccCCCCCEEEEEecCC---hhhhchhhcccCcc-eeEeecCCCCHHHHHHHHHHHHHhCC--CcchhhHHHHHH-
Confidence            54321  12457999999995   56677887762 15 45899999999999999998877542  122223666665 


Q ss_pred             HHHHhCCH-HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          340 VAAASGDM-RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       340 ~~~~~Gd~-R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                        ...|.. +...++|..|+..|..++..                            .|+.+|+..|+..+..
T Consensus       216 --~t~G~sgadL~~lv~~Aal~A~~~~~~----------------------------~I~~~dl~~al~~v~~  258 (476)
T 2ce7_A          216 --RTPGFVGADLENLVNEAALLAAREGRD----------------------------KITMKDFEEAIDRVIA  258 (476)
T ss_dssp             --TCTTCCHHHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHHHHHC-
T ss_pred             --hcCCCcHHHHHHHHHHHHHHHHHcCCC----------------------------eecHHHHHHHHHHHhc
Confidence              456654 67778999998887765443                            7999999999988764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.78  E-value=1.7e-18  Score=171.52  Aligned_cols=210  Identities=15%  Similarity=0.124  Sum_probs=147.5

Q ss_pred             CCCCcHHHHHHHHHHHHHhhc-----------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLE-----------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~-----------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .++|.++..+.|..++.....           ...+.+++|+||||||||++++++++.+....   ......++++++.
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~---~~~~~~~~~~~~~  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLG---YVRKGHLVSVTRD  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTT---SSSSCCEEEECGG
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcC---CcCCCcEEEEcHH
Confidence            479999999999888765321           33456899999999999999999999987521   1122368899986


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc------CchHHHHHhccCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR------DRAVLHDLFMLTT  267 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~------~~~~L~~l~~~~~  267 (517)
                      .+.+...                 + .....+...|...      .+.||||||+|.|...      ....+..|+.+..
T Consensus       109 ~l~~~~~-----------------g-~~~~~~~~~~~~~------~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~  164 (309)
T 3syl_A          109 DLVGQYI-----------------G-HTAPKTKEVLKRA------MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVME  164 (309)
T ss_dssp             GTCCSST-----------------T-CHHHHHHHHHHHH------TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHH
T ss_pred             Hhhhhcc-----------------c-ccHHHHHHHHHhc------CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHh
Confidence            6532111                 1 1244456666521      2359999999999633      2333344443322


Q ss_pred             CCCCcEEEEEEECCCC--cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH----
Q 010136          268 FPFSRFILIGIANAID--LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVA----  341 (517)
Q Consensus       268 ~~~~~v~lI~ian~~~--~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~----  341 (517)
                      ....++.+|+++|..+  ....++|.+.+| |. ..+.|++|+.+++..|+...+.... ..+++++++.+++.+.    
T Consensus       165 ~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R-~~-~~i~~~~~~~~~~~~il~~~l~~~~-~~~~~~~~~~l~~~~~~~~~  241 (309)
T 3syl_A          165 NNRDDLVVILAGYADRMENFFQSNPGFRSR-IA-HHIEFPDYSDEELFEIAGHMLDDQN-YQMTPEAETALRAYIGLRRN  241 (309)
T ss_dssp             HCTTTCEEEEEECHHHHHHHHHHSTTHHHH-EE-EEEEECCCCHHHHHHHHHHHHHHTT-CEECHHHHHHHHHHHHHHTT
T ss_pred             cCCCCEEEEEeCChHHHHHHHhhCHHHHHh-CC-eEEEcCCcCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHhcc
Confidence            2345778888887532  222346899998 53 6999999999999999999887532 4789999999988765    


Q ss_pred             -HHhCCHHHHHHHHHHHHHHHHHH
Q 010136          342 -AASGDMRKALSVCRSAIEILEAE  364 (517)
Q Consensus       342 -~~~Gd~R~al~ll~~A~~~a~~~  364 (517)
                       ...|++|.+.++++.|+..+...
T Consensus       242 ~~~~gn~r~l~~~l~~a~~~~~~r  265 (309)
T 3syl_A          242 QPHFANARSIRNALDRARLRQANR  265 (309)
T ss_dssp             SSSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHHH
Confidence             45689999999999998655443

>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=99.78  E-value=1.2e-17  Score=165.99  Aligned_cols=199  Identities=19%  Similarity=0.254  Sum_probs=139.9

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |...|.|   ++++|++..++.+..++    ..+..++++|+||||||||++++.+++.+.....     ...++++||.
T Consensus         7 ~~~k~~p~~~~~~~g~~~~~~~l~~~l----~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~   77 (319)
T 2chq_A            7 WVEKYRPRTLDEVVGQDEVIQRLKGYV----ERKNIPHLLFSGPPGTGKTATAIALARDLFGENW-----RDNFIEMNAS   77 (319)
T ss_dssp             TTTTTSCSSGGGSCSCHHHHHHHHTTT----TTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCH-----HHHCEEEETT
T ss_pred             HHHhcCCCCHHHHhCCHHHHHHHHHHH----hCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcc-----cCCeEEEeCc
Confidence            4445555   47899999887766664    3455567999999999999999999998742100     0257889987


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcE
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRF  273 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v  273 (517)
                      .......+                    ...+...... .......+.||||||+|.+....++.|..+++.   +...+
T Consensus        78 ~~~~~~~~--------------------~~~~~~~~~~-~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~---~~~~~  133 (319)
T 2chq_A           78 DERGIDVV--------------------RHKIKEFART-APIGGAPFKIIFLDEADALTADAQAALRRTMEM---YSKSC  133 (319)
T ss_dssp             STTCTTTS--------------------SHHHHHHHHS-CCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSS---SSSSE
T ss_pred             cccChHHH--------------------HHHHHHHHhc-CCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHh---cCCCC
Confidence            64321110                    1222222210 111124578999999999976545555444443   44678


Q ss_pred             EEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHH
Q 010136          274 ILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSV  353 (517)
Q Consensus       274 ~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~l  353 (517)
                      .+|+++|.   ...+.+.+.+| +  ..+.|.|++.+++.+++..++.... ..+++++++.+++   ...||+|.+++.
T Consensus       134 ~~i~~~~~---~~~l~~~l~sr-~--~~i~~~~~~~~~~~~~l~~~~~~~~-~~i~~~~l~~l~~---~~~G~~r~~~~~  203 (319)
T 2chq_A          134 RFILSCNY---VSRIIEPIQSR-C--AVFRFKPVPKEAMKKRLLEICEKEG-VKITEDGLEALIY---ISGGDFRKAINA  203 (319)
T ss_dssp             EEEEEESC---GGGSCHHHHTT-C--EEEECCCCCHHHHHHHHHHHHHTTC-CCBCHHHHHHHHH---TTTTCHHHHHHH
T ss_pred             eEEEEeCC---hhhcchHHHhh-C--eEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HcCCCHHHHHHH
Confidence            88888885   55778899998 6  5999999999999999998876432 3689999999886   568999999999


Q ss_pred             HHHHH
Q 010136          354 CRSAI  358 (517)
Q Consensus       354 l~~A~  358 (517)
                      ++.+.
T Consensus       204 l~~~~  208 (319)
T 2chq_A          204 LQGAA  208 (319)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98765

>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=99.77  E-value=1.6e-17  Score=165.82  Aligned_cols=231  Identities=14%  Similarity=0.236  Sum_probs=151.0

Q ss_pred             hcCcCCCCCCCC-CcHHHHHHHHHHHHHhhccC--CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          116 ALHVSTAPSTIV-CREDEQKKVLEFCKKNLEEE--KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       116 ~l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~~~--~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .|.+.+.+++++ |.....  ....+...+...  .+.+++|+||||||||++++.+++.+...    +   ..+++++|
T Consensus         3 ~l~~~~~f~~fv~g~~~~~--a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~----~---~~~~~i~~   73 (324)
T 1l8q_A            3 FLNPKYTLENFIVGEGNRL--AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR----G---YRVIYSSA   73 (324)
T ss_dssp             CCCTTCCSSSCCCCTTTHH--HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT----T---CCEEEEEH
T ss_pred             CCCCCCCcccCCCCCcHHH--HHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC----C---CEEEEEEH
Confidence            356677777776 543322  122233333332  45789999999999999999999987642    1   46899998


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcc--cCchHHHHHhccCCCCC
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLIT--RDRAVLHDLFMLTTFPF  270 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~--~~~~~L~~l~~~~~~~~  270 (517)
                      ..+      ...+...+..       .. ...+...+.        .+.||||||+|.+..  ..++.|..+++..... 
T Consensus        74 ~~~------~~~~~~~~~~-------~~-~~~~~~~~~--------~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~-  130 (324)
T 1l8q_A           74 DDF------AQAMVEHLKK-------GT-INEFRNMYK--------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLL-  130 (324)
T ss_dssp             HHH------HHHHHHHHHH-------TC-HHHHHHHHH--------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHT-
T ss_pred             HHH------HHHHHHHHHc-------Cc-HHHHHHHhc--------CCCEEEEcCcccccCChHHHHHHHHHHHHHHHC-
Confidence            543      2233333310       00 222222222        257999999999976  3456666666542212 


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCCC-ceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNCK-PLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRK  349 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~~-~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~  349 (517)
                      ...+++++++.......+++++.+| +. ...+.|+| +.+++.+|+..++.... ..+++++++++++.   . ||+|.
T Consensus       131 ~~~iii~~~~~~~~l~~l~~~L~sR-~~~~~~i~l~~-~~~e~~~il~~~~~~~~-~~l~~~~l~~l~~~---~-g~~r~  203 (324)
T 1l8q_A          131 EKQIILASDRHPQKLDGVSDRLVSR-FEGGILVEIEL-DNKTRFKIIKEKLKEFN-LELRKEVIDYLLEN---T-KNVRE  203 (324)
T ss_dssp             TCEEEEEESSCGGGCTTSCHHHHHH-HHTSEEEECCC-CHHHHHHHHHHHHHHTT-CCCCHHHHHHHHHH---C-SSHHH
T ss_pred             CCeEEEEecCChHHHHHhhhHhhhc-ccCceEEEeCC-CHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHh---C-CCHHH
Confidence            2345555444433333578899998 52 25799999 99999999998886432 47899999999884   4 99999


Q ss_pred             HHHHHHHHHHHH---HH-HHHhhhhccccccccccchhhhhhhhhhccCccc-cHHHHHHHHHHhccCh
Q 010136          350 ALSVCRSAIEIL---EA-EMRESVSKMNSASAEQGLFDQQAASAFEFFNSQV-RVDHMAVALSNTFKSP  413 (517)
Q Consensus       350 al~ll~~A~~~a---~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V-t~~~v~~a~~~~~~~~  413 (517)
                      +.+++..++...   .. ....                            .| +.+++.+++.+.+...
T Consensus       204 l~~~l~~~~~~~~~~l~~~~~~----------------------------~i~t~~~i~~~~~~~~~~~  244 (324)
T 1l8q_A          204 IEGKIKLIKLKGFEGLERKERK----------------------------ERDKLMQIVEFVANYYAVK  244 (324)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHH----------------------------HHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHcCHHHhcccccc----------------------------CCCCHHHHHHHHHHHhCCC
Confidence            999998877651   00 1111                            68 9999999999887654

>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=99.76  E-value=1.1e-17  Score=168.10  Aligned_cols=192  Identities=21%  Similarity=0.281  Sum_probs=136.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++|++..++.|..++.    .+..++++|+||||||||++++.+++.+.....     ...+.++|+........+. 
T Consensus        25 ~~~~g~~~~~~~L~~~i~----~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~-----~~~~~~~~~~~~~~~~~ir-   94 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVD----EGKLPHLLFYGPPGTGKTSTIVALAREIYGKNY-----SNMVLELNASDDRGIDVVR-   94 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHH----TTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSH-----HHHEEEECTTSCCSHHHHH-
T ss_pred             HHhcCcHHHHHHHHHHHh----cCCCceEEEECCCCCCHHHHHHHHHHHHcCCCc-----cceEEEEcCcccccHHHHH-
Confidence            357888887766665544    455566999999999999999999998753110     0357888887654433221 


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                                         +.+..+... ...-.....|++|||+|.+....++.|..+++.+   .....+|+++|   
T Consensus        95 -------------------~~i~~~~~~-~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~---~~~~~~il~~n---  148 (340)
T 1sxj_C           95 -------------------NQIKDFAST-RQIFSKGFKLIILDEADAMTNAAQNALRRVIERY---TKNTRFCVLAN---  148 (340)
T ss_dssp             -------------------THHHHHHHB-CCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHT---TTTEEEEEEES---
T ss_pred             -------------------HHHHHHHhh-cccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcC---CCCeEEEEEec---
Confidence                               111111110 0001123689999999999877778888887764   24566777788   


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      ....+.+.+.|| |  ..+.|.+++.+++.+++...+... ...+++++++.+++   .+.||+|+++++++.+.
T Consensus       149 ~~~~i~~~i~sR-~--~~~~~~~l~~~~~~~~l~~~~~~~-~~~i~~~~~~~i~~---~s~G~~r~~~~~l~~~~  216 (340)
T 1sxj_C          149 YAHKLTPALLSQ-C--TRFRFQPLPQEAIERRIANVLVHE-KLKLSPNAEKALIE---LSNGDMRRVLNVLQSCK  216 (340)
T ss_dssp             CGGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHTT-TCCBCHHHHHHHHH---HHTTCHHHHHHHTTTTT
T ss_pred             CccccchhHHhh-c--eeEeccCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHH
Confidence            466788999999 7  689999999999999999887432 13688999998887   47899999999997664

>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=99.76  E-value=1.4e-17  Score=165.90  Aligned_cols=192  Identities=20%  Similarity=0.262  Sum_probs=139.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|++..++.+..++..    +..++++|+||||||||++++.+++.+.....     ...+++++|........+  
T Consensus        25 ~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~-----~~~~~~~~~~~~~~~~~~--   93 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKT----GSMPHLLFAGPPGVGKTTAALALARELFGENW-----RHNFLELNASDERGINVI--   93 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHH----TCCCEEEEESCTTSSHHHHHHHHHHHHHGGGH-----HHHEEEEETTCHHHHHTT--
T ss_pred             HHhhCCHHHHHHHHHHHHc----CCCCeEEEECcCCCCHHHHHHHHHHHhcCCcc-----cCceEEeeccccCchHHH--
Confidence            5799999999888877654    45567999999999999999999998753210     024788888653211111  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                                        ...+...... .......+.||||||+|.+....++.|..+++..   ...+.+|+++|.  
T Consensus        94 ------------------~~~~~~~~~~-~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~---~~~~~~i~~~~~--  149 (327)
T 1iqp_A           94 ------------------REKVKEFART-KPIGGASFKIIFLDEADALTQDAQQALRRTMEMF---SSNVRFILSCNY--  149 (327)
T ss_dssp             ------------------HHHHHHHHHS-CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHT---TTTEEEEEEESC--
T ss_pred             ------------------HHHHHHHHhh-CCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhc---CCCCeEEEEeCC--
Confidence                              1112222210 0001245689999999999877777888877763   346677777884  


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                       +..+.+.+.+| +  ..+.|+|++.+++..++..++... ...+++++++.+++   ...||+|.++++++.+.
T Consensus       150 -~~~l~~~l~sr-~--~~~~~~~l~~~~~~~~l~~~~~~~-~~~~~~~~~~~l~~---~~~g~~r~~~~~l~~~~  216 (327)
T 1iqp_A          150 -SSKIIEPIQSR-C--AIFRFRPLRDEDIAKRLRYIAENE-GLELTEEGLQAILY---IAEGDMRRAINILQAAA  216 (327)
T ss_dssp             -GGGSCHHHHHT-E--EEEECCCCCHHHHHHHHHHHHHTT-TCEECHHHHHHHHH---HHTTCHHHHHHHHHHHH
T ss_pred             -ccccCHHHHhh-C--cEEEecCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHHH---HCCCCHHHHHHHHHHHH
Confidence             55678888888 6  589999999999999999887642 23588999999887   46899999999998765

>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=99.76  E-value=8.5e-18  Score=178.24  Aligned_cols=205  Identities=18%  Similarity=0.253  Sum_probs=138.8

Q ss_pred             cCCCC---CCCCCcHHHHHHHHHHHHHhhcc-------------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC
Q 010136          119 VSTAP---STIVCREDEQKKVLEFCKKNLEE-------------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL  182 (517)
Q Consensus       119 ~~~~p---~~l~gRe~e~~~l~~~L~~~l~~-------------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~  182 (517)
                      +.|.|   ++++|++.+++.+..++..+...             +...+++|+||||||||+++++++++++        
T Consensus        31 ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~--------  102 (516)
T 1sxj_A           31 VKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG--------  102 (516)
T ss_dssp             HHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT--------
T ss_pred             cccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC--------
Confidence            34455   57999999999999999875422             1356899999999999999999998873        


Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh--hccCCCceEEEEEeCcchhcccCc---h
Q 010136          183 QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK--LHSSVMKMMLIIADELDYLITRDR---A  257 (517)
Q Consensus       183 ~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~vI~iDEiD~L~~~~~---~  257 (517)
                        +.++++||....+...+...+...+. ...          +..+|...  .......+.||||||+|.+....+   .
T Consensus       103 --~~~i~in~s~~~~~~~~~~~i~~~~~-~~~----------~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~  169 (516)
T 1sxj_A          103 --YDILEQNASDVRSKTLLNAGVKNALD-NMS----------VVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVG  169 (516)
T ss_dssp             --CEEEEECTTSCCCHHHHHHTGGGGTT-BCC----------STTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHH
T ss_pred             --CCEEEEeCCCcchHHHHHHHHHHHhc-ccc----------HHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHH
Confidence              57999999998776543222211111 000          00111100  011245678999999999987766   3


Q ss_pred             HHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHH
Q 010136          258 VLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCA  337 (517)
Q Consensus       258 ~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia  337 (517)
                      .|..+++.   ....+  |+++|+....  ..+.+.++ +  ..+.|++++.+++.++|...+... ...+++++++.++
T Consensus       170 ~L~~~l~~---~~~~i--Ili~~~~~~~--~l~~l~~r-~--~~i~f~~~~~~~~~~~L~~i~~~~-~~~i~~~~l~~la  238 (516)
T 1sxj_A          170 QLAQFCRK---TSTPL--ILICNERNLP--KMRPFDRV-C--LDIQFRRPDANSIKSRLMTIAIRE-KFKLDPNVIDRLI  238 (516)
T ss_dssp             HHHHHHHH---CSSCE--EEEESCTTSS--TTGGGTTT-S--EEEECCCCCHHHHHHHHHHHHHHH-TCCCCTTHHHHHH
T ss_pred             HHHHHHHh---cCCCE--EEEEcCCCCc--cchhhHhc-e--EEEEeCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            44444443   23344  4445654321  23455555 5  689999999999999998776532 2358899999988


Q ss_pred             HHHHHHhCCHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      +   ...||+|.++++++.+.
T Consensus       239 ~---~s~GdiR~~i~~L~~~~  256 (516)
T 1sxj_A          239 Q---TTRGDIRQVINLLSTIS  256 (516)
T ss_dssp             H---HTTTCHHHHHHHHTHHH
T ss_pred             H---HcCCcHHHHHHHHHHHH
Confidence            7   46899999999997654

>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=99.75  E-value=4.3e-17  Score=154.64  Aligned_cols=207  Identities=20%  Similarity=0.195  Sum_probs=134.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||+.+++.+..++..   +..+..++|+||||+|||++++.+++.+....        .+....|....+.    .
T Consensus        23 ~~~~g~~~~~~~l~~~l~~---~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~--------~~~~~~~~~~~~~----~   87 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSL---GRIHHAYLFSGTRGVGKTSIARLLAKGLNCET--------GITATPCGVCDNC----R   87 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHH---TCCCSEEEEECSTTSCHHHHHHHHHHHHHCTT--------CSCSSCCSCSHHH----H
T ss_pred             HHHhCcHHHHHHHHHHHHc---CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCC--------CCCCCCCcccHHH----H
Confidence            4689999999999888765   22345799999999999999999998875311        0111111111000    0


Q ss_pred             HHHHHhCCCC-C-CCCCCCHHHHHHHHHHhhh-ccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEEC
Q 010136          204 KILLKLQPRK-K-LNGSTSPLQYLQNLYSQKL-HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIAN  280 (517)
Q Consensus       204 ~i~~~l~~~~-~-~~~~~~~~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian  280 (517)
                      .+........ . ..........+..++.... .....++.+|||||+|.+....++.|..+++..   ...+.+|+++|
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~---~~~~~~i~~t~  164 (250)
T 1njg_A           88 EIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP---PEHVKFLLATT  164 (250)
T ss_dssp             HHHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSC---CTTEEEEEEES
T ss_pred             HHhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcC---CCceEEEEEeC
Confidence            0000000000 0 0000111333444444211 112345789999999998665556666666542   35678888888


Q ss_pred             CCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          281 AIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       281 ~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      .   ...+.+.+.+| +  ..+.|+|++.+++.+++..++... ...+++++++.+++   ...|++|.+.++|+.|+
T Consensus       165 ~---~~~~~~~l~~r-~--~~i~l~~l~~~e~~~~l~~~~~~~-~~~~~~~~~~~l~~---~~~G~~~~~~~~~~~~~  232 (250)
T 1njg_A          165 D---PQKLPVTILSR-C--LQFHLKALDVEQIRHQLEHILNEE-HIAHEPRALQLLAR---AAEGSLRDALSLTDQAI  232 (250)
T ss_dssp             C---GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHT-TCCBCHHHHHHHHH---HHTTCHHHHHHHHHHHH
T ss_pred             C---hHhCCHHHHHH-h--hhccCCCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHH
Confidence            5   45567778887 5  699999999999999999888642 23678888888877   46899999999999885

>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=99.75  E-value=3.4e-18  Score=162.59  Aligned_cols=198  Identities=17%  Similarity=0.156  Sum_probs=136.8

Q ss_pred             HHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC
Q 010136          137 LEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN  216 (517)
Q Consensus       137 ~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~  216 (517)
                      ...+..+.......+++|+||||||||++++.+++.+...    +   ..++++++..+....                 
T Consensus        40 ~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~----~---~~~~~~~~~~~~~~~-----------------   95 (242)
T 3bos_A           40 IGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL----E---RRSFYIPLGIHASIS-----------------   95 (242)
T ss_dssp             HHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEEEGGGGGGSC-----------------
T ss_pred             HHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEEEHHHHHHHH-----------------
Confidence            3344444444567899999999999999999999987642    2   468888886542110                 


Q ss_pred             CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCCcEEEEEEECCC-Ccchhhccccc
Q 010136          217 GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFSRFILIGIANAI-DLADRFLPRLQ  293 (517)
Q Consensus       217 ~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~~v~lI~ian~~-~~~~~l~~~l~  293 (517)
                               ...+.     ....+.+|||||+|.+....  ++.|+.+++..... ..+.+|.++|.. +....+++++.
T Consensus        96 ---------~~~~~-----~~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~-~~~~ii~~~~~~~~~~~~~~~~l~  160 (242)
T 3bos_A           96 ---------TALLE-----GLEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQ-KRGSLIVSASASPMEAGFVLPDLV  160 (242)
T ss_dssp             ---------GGGGT-----TGGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHH-CSCEEEEEESSCTTTTTCCCHHHH
T ss_pred             ---------HHHHH-----hccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHc-CCCeEEEEcCCCHHHHHHhhhhhh
Confidence                     00111     12345799999999997665  66677776543211 223244445532 12223457788


Q ss_pred             ccCC-CceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 010136          294 SMNC-KPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKM  372 (517)
Q Consensus       294 sr~~-~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~  372 (517)
                      +| + ....+.|++++.+++.+++..++.... ..+++++++++++   ...||+|.+.++++.+...|..++.      
T Consensus       161 ~r-~~~~~~i~l~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~l~~---~~~g~~r~l~~~l~~~~~~a~~~~~------  229 (242)
T 3bos_A          161 SR-MHWGLTYQLQPMMDDEKLAALQRRAAMRG-LQLPEDVGRFLLN---RMARDLRTLFDVLDRLDKASMVHQR------  229 (242)
T ss_dssp             HH-HHHSEEEECCCCCGGGHHHHHHHHHHHTT-CCCCHHHHHHHHH---HTTTCHHHHHHHHHHHHHHHHHHTC------
T ss_pred             hH-hhcCceEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HccCCHHHHHHHHHHHHHHHHHhCC------
Confidence            77 4 236899999999999999998886432 3688999999887   4689999999999999887754332      


Q ss_pred             ccccccccchhhhhhhhhhccCccccHHHHHHHHH
Q 010136          373 NSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS  407 (517)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~  407 (517)
                                             .|+.++|.+++.
T Consensus       230 -----------------------~It~~~v~~~l~  241 (242)
T 3bos_A          230 -----------------------KLTIPFVKEMLR  241 (242)
T ss_dssp             -----------------------CCCHHHHHHHHT
T ss_pred             -----------------------CCcHHHHHHHhh
Confidence                                   699999998874

>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=99.73  E-value=1.2e-17  Score=162.35  Aligned_cols=199  Identities=14%  Similarity=0.151  Sum_probs=133.1

Q ss_pred             CCCCCCCCcHHHHHHHHHH---HHHhhc---cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          121 TAPSTIVCREDEQKKVLEF---CKKNLE---EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~---L~~~l~---~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      ++++.++|++..++.+...   +...+.   ...+.+++|+||||||||++++++++.+.          ..+++++|..
T Consensus        30 ~~~~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~----------~~~~~i~~~~   99 (272)
T 1d2n_A           30 YIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN----------FPFIKICSPD   99 (272)
T ss_dssp             TCTTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT----------CSEEEEECGG
T ss_pred             HHhcCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhC----------CCEEEEeCHH
Confidence            3456788998888888774   343443   34567899999999999999999998753          4688898864


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc------Cc----hHHHHHhc
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR------DR----AVLHDLFM  264 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~------~~----~~L~~l~~  264 (517)
                      ...             +.    ........+...|...   ....+.+|||||+|.|...      .+    +.|..+++
T Consensus       100 ~~~-------------g~----~~~~~~~~~~~~~~~~---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~  159 (272)
T 1d2n_A          100 KMI-------------GF----SETAKCQAMKKIFDDA---YKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLK  159 (272)
T ss_dssp             GCT-------------TC----CHHHHHHHHHHHHHHH---HTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTT
T ss_pred             Hhc-------------CC----chHHHHHHHHHHHHHH---HhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhc
Confidence            110             00    0000123455555521   1345789999999998432      22    33444444


Q ss_pred             cCCCCCCcEEEEEEECCCCcchhhcc-cccccCCCceEEEeCCCCH-HHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          265 LTTFPFSRFILIGIANAIDLADRFLP-RLQSMNCKPLVVTFRAYSK-DQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       265 ~~~~~~~~v~lI~ian~~~~~~~l~~-~l~sr~~~~~~i~f~p~~~-~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      .......++++|+++|.   ++.+++ .+.+| | ...|.|++++. +++..++...      ..+++++++.+++.+.+
T Consensus       160 ~~~~~~~~~~ii~ttn~---~~~l~~~~l~~r-f-~~~i~~p~l~~r~~i~~i~~~~------~~~~~~~~~~l~~~~~g  228 (272)
T 1d2n_A          160 KAPPQGRKLLIIGTTSR---KDVLQEMEMLNA-F-STTIHVPNIATGEQLLEALELL------GNFKDKERTTIAQQVKG  228 (272)
T ss_dssp             CCCSTTCEEEEEEEESC---HHHHHHTTCTTT-S-SEEEECCCEEEHHHHHHHHHHH------TCSCHHHHHHHHHHHTT
T ss_pred             CccCCCCCEEEEEecCC---hhhcchhhhhcc-c-ceEEcCCCccHHHHHHHHHHhc------CCCCHHHHHHHHHHhcC
Confidence            33335568889999995   444555 56676 5 36899999987 7777777642      35788999999885433


Q ss_pred             H--hCCHHHHHHHHHHHHHH
Q 010136          343 A--SGDMRKALSVCRSAIEI  360 (517)
Q Consensus       343 ~--~Gd~R~al~ll~~A~~~  360 (517)
                      +  .|++|.++++++.|...
T Consensus       229 ~~~~g~ir~l~~~l~~a~~~  248 (272)
T 1d2n_A          229 KKVWIGIKKLLMLIEMSLQM  248 (272)
T ss_dssp             SEEEECHHHHHHHHHHHTTS
T ss_pred             CCccccHHHHHHHHHHHhhh
Confidence            2  44899999999888643

>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=99.73  E-value=1.7e-17  Score=172.18  Aligned_cols=233  Identities=15%  Similarity=0.189  Sum_probs=154.4

Q ss_pred             hhcCcCCCCCCCC-CcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          115 EALHVSTAPSTIV-CREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       115 ~~l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      ..|.+.+.+++++ |.....  ....+........ .++++|+||||||||++++++++.+....     +...+++++|
T Consensus        96 ~~l~~~~tfd~fv~g~~n~~--a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~-----~~~~v~~v~~  168 (440)
T 2z4s_A           96 TPLNPDYTFENFVVGPGNSF--AYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNE-----PDLRVMYITS  168 (440)
T ss_dssp             CCCCTTCSGGGCCCCTTTHH--HHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHC-----CSSCEEEEEH
T ss_pred             cCCCCCCChhhcCCCCchHH--HHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhC-----CCCeEEEeeH
Confidence            4577777888777 655443  2233333333322 67899999999999999999999876431     1246899988


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcc--cCchHHHHHhccCCCCC
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLIT--RDRAVLHDLFMLTTFPF  270 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~--~~~~~L~~l~~~~~~~~  270 (517)
                      ..+      ...+...+...       . ...+...+       ...+.||||||+|.+..  ..++.|+.+++..... 
T Consensus       169 ~~~------~~~~~~~~~~~-------~-~~~~~~~~-------~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~-  226 (440)
T 2z4s_A          169 EKF------LNDLVDSMKEG-------K-LNEFREKY-------RKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDS-  226 (440)
T ss_dssp             HHH------HHHHHHHHHTT-------C-HHHHHHHH-------TTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTT-
T ss_pred             HHH------HHHHHHHHHcc-------c-HHHHHHHh-------cCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHC-
Confidence            653      23333333211       1 22222222       11457999999999986  3466677766543222 


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCC-CceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNC-KPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRK  349 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~-~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~  349 (517)
                      ...+||++.+.......+++++.+| | ....+.|.+++.+++.+||..++... ...+++++++++++   ...||+|.
T Consensus       227 ~~~iIitt~~~~~~l~~l~~~L~sR-~~~g~~i~l~~p~~e~r~~iL~~~~~~~-~~~i~~e~l~~la~---~~~gn~R~  301 (440)
T 2z4s_A          227 GKQIVICSDREPQKLSEFQDRLVSR-FQMGLVAKLEPPDEETRKSIARKMLEIE-HGELPEEVLNFVAE---NVDDNLRR  301 (440)
T ss_dssp             TCEEEEEESSCGGGCSSCCHHHHHH-HHSSBCCBCCCCCHHHHHHHHHHHHHHH-TCCCCTTHHHHHHH---HCCSCHHH
T ss_pred             CCeEEEEECCCHHHHHHHHHHHHhh-ccCCeEEEeCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---hcCCCHHH
Confidence            3445554333333233477889888 4 23478999999999999999888643 23688999999987   46899999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          350 ALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       350 al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      +..+|..+...|...+.                             .|+.+++.+++....
T Consensus       302 l~~~L~~~~~~a~~~~~-----------------------------~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          302 LRGAIIKLLVYKETTGK-----------------------------EVDLKEAILLLKDFI  333 (440)
T ss_dssp             HHHHHHHHHHHHHHSSS-----------------------------CCCHHHHHHHTSTTT
T ss_pred             HHHHHHHHHHHHHHhCC-----------------------------CCCHHHHHHHHHHHh
Confidence            99999999887764332                             478888888776654

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.73  E-value=2.2e-16  Score=158.01  Aligned_cols=227  Identities=12%  Similarity=0.159  Sum_probs=159.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++|+++.++.+...+..      +.+++|+||||||||++++++++.+.          ..++.++|.....+..++.
T Consensus        27 ~~i~g~~~~~~~l~~~l~~------~~~vll~G~pGtGKT~la~~la~~~~----------~~~~~i~~~~~~~~~~l~g   90 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICT------GGHILLEGVPGLAKTLSVNTLAKTMD----------LDFHRIQFTPDLLPSDLIG   90 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHH------TCCEEEESCCCHHHHHHHHHHHHHTT----------CCEEEEECCTTCCHHHHHE
T ss_pred             cceeCcHHHHHHHHHHHHc------CCeEEEECCCCCcHHHHHHHHHHHhC----------CCeEEEecCCCCChhhcCC
Confidence            4689999988777776554      46899999999999999999988763          3578889876655554321


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFIL  275 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~l  275 (517)
                      ...  + ..   ..+.         +.  .....-...||||||+|.+....+..|..+++...        ....++++
T Consensus        91 ~~~--~-~~---~~~~---------~~--~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~v  153 (331)
T 2r44_A           91 TMI--Y-NQ---HKGN---------FE--VKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLV  153 (331)
T ss_dssp             EEE--E-ET---TTTE---------EE--EEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEE
T ss_pred             cee--e-cC---CCCc---------eE--eccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEE
Confidence            110  0 00   0000         00  00000012599999999998777777777766421        12346788


Q ss_pred             EEEECCCCcchh--hcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---------------------ccCCCChhH
Q 010136          276 IGIANAIDLADR--FLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---------------------SYIVFQPQA  332 (517)
Q Consensus       276 I~ian~~~~~~~--l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---------------------~~~~~~~~a  332 (517)
                      |+++|..+....  +++++.+| |. ..+.|.+++.++..+||+.++...                     ....+++++
T Consensus       154 iat~np~~~~~~~~l~~~l~~R-f~-~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~  231 (331)
T 2r44_A          154 LATQNPVEQEGTYPLPEAQVDR-FM-MKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESL  231 (331)
T ss_dssp             EEEECTTCCSCCCCCCHHHHTT-SS-EEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHH
T ss_pred             EEecCCCcccCcccCCHHHHhh-ee-EEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHH
Confidence            888886553333  78899998 63 379999999999999999876531                     134578889


Q ss_pred             HHHHHHHHHHH--hC---------------CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCc
Q 010136          333 LELCARKVAAA--SG---------------DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNS  395 (517)
Q Consensus       333 i~~ia~~~~~~--~G---------------d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  395 (517)
                      ++++++.+...  .|               ++|.++.+++.|..+|..+++.                            
T Consensus       232 ~~~i~~~~~~~r~~~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~----------------------------  283 (331)
T 2r44_A          232 EKYIIELVFATRFPAEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNNRD----------------------------  283 (331)
T ss_dssp             HHHHHHHHHHHHSGGGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCS----------------------------
T ss_pred             HHHHHHHHHHHhccccccccccccccccCcChhHHHHHHHHHHHHHHHcCCC----------------------------
Confidence            99988765432  22               5999999999999888877665                            


Q ss_pred             cccHHHHHHHHHHhccCh
Q 010136          396 QVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       396 ~Vt~~~v~~a~~~~~~~~  413 (517)
                      .|+.+||.+|+..+....
T Consensus       284 ~v~~~dv~~~~~~vl~~r  301 (331)
T 2r44_A          284 YVLPEDIKEVAYDILNHR  301 (331)
T ss_dssp             BCCHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHHHHhHhh
Confidence            799999999999887655

>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=99.72  E-value=1.2e-16  Score=162.28  Aligned_cols=205  Identities=20%  Similarity=0.208  Sum_probs=134.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|++.+++.+...+..   +..+..++|+||||||||++++.+++.+.....        .....|....+    +.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~---~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~--------~~~~~~~~~~~----~~   80 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSL---GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETG--------ITATPCGVCDN----CR   80 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHH---TCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTC--------SCSSCCSSSHH----HH
T ss_pred             hhccCcHHHHHHHHHHHHh---CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCC--------CCCCCCcccHH----HH
Confidence            4699999999988888764   223456899999999999999999988753110        01111211110    00


Q ss_pred             HHHHHhCCC-----CCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          204 KILLKLQPR-----KKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       204 ~i~~~l~~~-----~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      .+.......     .....+.   +.++.++... ......++.||||||+|.+....++.|..+++.   +...+.+|+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~---~~~~~~~Il  154 (373)
T 1jr3_A           81 EIEQGRFVDLIEIDAASRTKV---EDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEE---PPEHVKFLL  154 (373)
T ss_dssp             HHHTSCCSSCEEEETTCSCCS---SCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHS---CCSSEEEEE
T ss_pred             HHhccCCCceEEecccccCCH---HHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhc---CCCceEEEE
Confidence            111000000     0000011   1122333211 111234568999999999976666777777655   345788888


Q ss_pred             EECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHH
Q 010136          278 IANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSA  357 (517)
Q Consensus       278 ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A  357 (517)
                      +++.   ...+.+.+.+| +  ..+.|.|++.+++.+++..++.... ..+++++++.+++   ...||+|.++++++.+
T Consensus       155 ~~~~---~~~l~~~l~sr-~--~~i~~~~l~~~~~~~~l~~~~~~~~-~~~~~~a~~~l~~---~~~G~~r~~~~~l~~~  224 (373)
T 1jr3_A          155 ATTD---PQKLPVTILSR-C--LQFHLKALDVEQIRHQLEHILNEEH-IAHEPRALQLLAR---AAEGSLRDALSLTDQA  224 (373)
T ss_dssp             EESC---GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHH---HSSSCHHHHHHHHHHH
T ss_pred             EeCC---hHhCcHHHHhh-e--eEeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH---HCCCCHHHHHHHHHHH
Confidence            8884   45677888888 6  7999999999999999998886432 3678999998877   4689999999999887


Q ss_pred             HH
Q 010136          358 IE  359 (517)
Q Consensus       358 ~~  359 (517)
                      +.
T Consensus       225 ~~  226 (373)
T 1jr3_A          225 IA  226 (373)
T ss_dssp             HH
T ss_pred             HH
Confidence            63

>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=99.72  E-value=4.9e-20  Score=178.92  Aligned_cols=226  Identities=16%  Similarity=0.166  Sum_probs=144.3

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhh--------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNL--------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l--------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      +.+++++|.+..++.+...+....        ....+.+++|+||||||||++++++++++.          ..+++++|
T Consensus         8 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~----------~~~~~v~~   77 (268)
T 2r62_A            8 VRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAH----------VPFFSMGG   77 (268)
T ss_dssp             CCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHT----------CCCCCCCS
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhC----------CCEEEech
Confidence            445678999998888888765321        113356799999999999999999998763          35778888


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc------------hHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR------------AVLH  260 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~------------~~L~  260 (517)
                      ..+.+...          +..    .    ..+..+|...   ....+.||||||+|.|.....            ..+.
T Consensus        78 ~~~~~~~~----------~~~----~----~~~~~~~~~a---~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~  136 (268)
T 2r62_A           78 SSFIEMFV----------GLG----A----SRVRDLFETA---KKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLN  136 (268)
T ss_dssp             CTTTTSCS----------SSC----S----SSSSTTHHHH---HHSCSCEEEESCGGGTTC----------CCCSCSSTT
T ss_pred             HHHHHhhc----------chH----H----HHHHHHHHHH---HhcCCeEEEEeChhhhcccccccccCCCchhHHHHHH
Confidence            76543210          100    0    0112223211   123467999999999975421            2233


Q ss_pred             HHhcc---CCCCCCcEEEEEEECCCCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHH
Q 010136          261 DLFML---TTFPFSRFILIGIANAIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELC  336 (517)
Q Consensus       261 ~l~~~---~~~~~~~v~lI~ian~~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~i  336 (517)
                      .++..   .......++||+++|.   ++.+++.+.++ +|. ..+.|++++.+++.+||+..+..+.  ..++..++.+
T Consensus       137 ~ll~~l~~~~~~~~~v~vi~ttn~---~~~ld~~l~r~~Rf~-~~i~i~~p~~~~r~~il~~~~~~~~--~~~~~~~~~l  210 (268)
T 2r62_A          137 QLLAEMDGFGSENAPVIVLAATNR---PEILDPALMRPGRFD-RQVLVDKPDFNGRVEILKVHIKGVK--LANDVNLQEV  210 (268)
T ss_dssp             TTTTTTTCSSCSCSCCEEEECBSC---CTTSCGGGGSSSSSC-CCCBCCCCCTTTHHHHHHHHTSSSC--CCSSCCTTTT
T ss_pred             HHHHHhhCcccCCCCEEEEEecCC---chhcCHhHcCCCCCC-eEEEecCcCHHHHHHHHHHHHhcCC--CCCccCHHHH
Confidence            34333   2223456899999995   45577787773 143 5899999999999999998876542  2223335556


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          337 ARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       337 a~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                      ++.....  ..|...++|+.|...|..++..                            .|+.+|+..|+..+..+.
T Consensus       211 a~~~~g~--~g~dl~~l~~~a~~~a~~~~~~----------------------------~i~~~~~~~a~~~~~~~~  257 (268)
T 2r62_A          211 AKLTAGL--AGADLANIINEAALLAGRNNQK----------------------------EVRQQHLKEAVERGIAGL  257 (268)
T ss_dssp             TSSSCSS--CHHHHHHHHHHHHHTTSSSCCC----------------------------SCCHHHHHTSCTTCCCCC
T ss_pred             HHHcCCC--CHHHHHHHHHHHHHHHHHhccC----------------------------CcCHHHHHHHHHHHhhcc
Confidence            5532222  2366667888888776543332                            699999999988776554

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.71  E-value=5.9e-17  Score=169.16  Aligned_cols=223  Identities=13%  Similarity=0.130  Sum_probs=151.8

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      +.+++++|.++...++.+.+.....        ...+.+++|+||||||||+++++++..+.          ..+++++|
T Consensus        28 ~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~----------~~~i~i~g   97 (499)
T 2dhr_A           28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR----------VPFITASG   97 (499)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT----------CCEEEEEG
T ss_pred             CCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC----------CCEEEEeh
Confidence            3456789999988888877654321        11255799999999999999999988753          36899999


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~  261 (517)
                      ..+...+.                 + .....+..+|..   .....+.|+||||||.+....+           ..+..
T Consensus        98 ~~~~~~~~-----------------g-~~~~~v~~lfq~---a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~  156 (499)
T 2dhr_A           98 SDFVEMFV-----------------G-VGAARVRDLFET---AKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQ  156 (499)
T ss_dssp             GGGTSSCT-----------------T-HHHHHHHHHTTT---SSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHH
T ss_pred             hHHHHhhh-----------------h-hHHHHHHHHHHH---HHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHH
Confidence            76533110                 1 113445666652   1234578999999999865321           33445


Q ss_pred             HhccC--CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhH-HHHHHH
Q 010136          262 LFMLT--TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQA-LELCAR  338 (517)
Q Consensus       262 l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~a-i~~ia~  338 (517)
                      ++...  ......+++|+++|.   ++.+++++.++......|.|++++.+++.+||+..+..+   .+++++ +..+|.
T Consensus       157 LL~~Ldg~~~~~~viviAatn~---p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~---~l~~dv~l~~lA~  230 (499)
T 2dhr_A          157 LLVEMDGFEKDTAIVVMAATNR---PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK---PLAEDVDLALLAK  230 (499)
T ss_dssp             HHHHGGGCCSSCCCEEEECCSC---GGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSS---CCCCSSTTHHHHT
T ss_pred             HHHHhcccccCccEEEEEecCC---hhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcC---CCChHHHHHHHHH
Confidence            54331  123356788888885   555888988853234699999999999999998766543   344333 667766


Q ss_pred             HHHHHhCCH-HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          339 KVAAASGDM-RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       339 ~~~~~~Gd~-R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                         ...|.. |..-++|.+|+..|.+++..                            .|+++|+.+|+..+..
T Consensus       231 ---~t~G~~gadL~~lv~~Aa~~A~~~~~~----------------------------~It~~dl~~al~~v~~  273 (499)
T 2dhr_A          231 ---RTPGFVGADLENLLNEAALLAAREGRR----------------------------KITMKDLEEAADRVMM  273 (499)
T ss_dssp             ---TSCSCCHHHHHHHHHHHHHHHTTTCCS----------------------------SCCSHHHHHHHHHHTT
T ss_pred             ---hcCCCCHHHHHHHHHHHHHHHHHhCCC----------------------------ccCHHHHHHHHHHHhc
Confidence               456765 77778999998777654433                            6888888888887654

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.69  E-value=1.2e-16  Score=158.36  Aligned_cols=223  Identities=16%  Similarity=0.181  Sum_probs=152.2

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc----CC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEE----EK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT  198 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~----~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~  198 (517)
                      ..++|++..++.+...+.....+    .. ..+++|+||||||||++++.+++.+....       ..+++++|..+...
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~-------~~~~~~~~~~~~~~   89 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE-------EAMIRIDMTEYMEK   89 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCG-------GGEEEEEGGGCCST
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCC-------cceEEeeccccccc
Confidence            35789999999999998876432    11 34799999999999999999999875311       35899999877654


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCC--------C
Q 010136          199 SEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFP--------F  270 (517)
Q Consensus       199 ~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~--------~  270 (517)
                      ... ..+   ++ ......+......+...+.      .....||||||+|.+....+..|..+++.....        -
T Consensus        90 ~~~-~~l---~g-~~~~~~~~~~~~~~~~~~~------~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~  158 (311)
T 4fcw_A           90 HAV-SRL---IG-APPGYVGYEEGGQLTEAVR------RRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDF  158 (311)
T ss_dssp             THH-HHH---HC-CCTTSTTTTTCCHHHHHHH------HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEEC
T ss_pred             ccH-HHh---cC-CCCccccccccchHHHHHH------hCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEEC
Confidence            321 122   21 1111111111123444443      223469999999999877778888877653211        1


Q ss_pred             CcEEEEEEECCC---------------Cc--------chhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh----
Q 010136          271 SRFILIGIANAI---------------DL--------ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL----  323 (517)
Q Consensus       271 ~~v~lI~ian~~---------------~~--------~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~----  323 (517)
                      .++++|+++|..               ++        ...+.+.+.+| | ...+.|.|++.+++..|+...+..+    
T Consensus       159 ~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R-~-~~~~~~~p~~~~~~~~i~~~~l~~~~~~~  236 (311)
T 4fcw_A          159 RNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNR-L-DEIVVFRPLTKEQIRQIVEIQMSYLRARL  236 (311)
T ss_dssp             TTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTT-C-SEEEECCCCCHHHHHHHHHHHTHHHHHHH
T ss_pred             CCcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHhc-C-CeEEEeCCCCHHHHHHHHHHHHHHHHHHH
Confidence            367799999962               11        34567888888 5 3589999999999999999877532    


Q ss_pred             ----ccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH
Q 010136          324 ----SYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR  366 (517)
Q Consensus       324 ----~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~  366 (517)
                          ....+++++++.+++......|++|...++++.++..+..+..
T Consensus       237 ~~~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i  283 (311)
T 4fcw_A          237 AEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKI  283 (311)
T ss_dssp             HTTTCEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHHHHHHHH
T ss_pred             HhCCcEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHHHHHHHH
Confidence                1246899999999874322268999999999888876655443

>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=99.68  E-value=5e-16  Score=149.38  Aligned_cols=219  Identities=13%  Similarity=0.131  Sum_probs=142.1

Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          120 STAPSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       120 ~~~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      .+.+++++|.++...++.......-.        -..+.+++|+||||||||++++.++..+.          ..+++++
T Consensus        12 ~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~----------~~~i~~~   81 (254)
T 1ixz_A           12 KVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR----------VPFITAS   81 (254)
T ss_dssp             SCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT----------CCEEEEE
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC----------CCEEEee
Confidence            34456788988887777666543211        12245699999999999999999987753          2578887


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~  260 (517)
                      +..+          ....        .......+..+|...   ....+.++|+||+|.+.....           ..+.
T Consensus        82 ~~~~----------~~~~--------~~~~~~~i~~~~~~~---~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~  140 (254)
T 1ixz_A           82 GSDF----------VEMF--------VGVGAARVRDLFETA---KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLN  140 (254)
T ss_dssp             HHHH----------HHSC--------TTHHHHHHHHHHHHH---TTSSSEEEEEETHHHHHC---------CHHHHHHHH
T ss_pred             HHHH----------HHHH--------hhHHHHHHHHHHHHH---HhcCCeEEEehhhhhhhcccCccccccchHHHHHHH
Confidence            6431          1100        011133455556521   234568999999998864321           2233


Q ss_pred             HHhcc-C-CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHH
Q 010136          261 DLFML-T-TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCA  337 (517)
Q Consensus       261 ~l~~~-~-~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia  337 (517)
                      .++.. . ......+++++++|.   ++.+++.+.++......+.|++++.++..+||+..+.++   .+.++ .+..++
T Consensus       141 ~ll~~l~g~~~~~~~i~~a~t~~---p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~---~~~~~~~~~~la  214 (254)
T 1ixz_A          141 QLLVEMDGFEKDTAIVVMAATNR---PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK---PLAEDVDLALLA  214 (254)
T ss_dssp             HHHHHHHTCCTTCCEEEEEEESC---GGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTS---CBCTTCCHHHHH
T ss_pred             HHHHHHhCCCCCCCEEEEEccCC---chhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCC---CCCcccCHHHHH
Confidence            33322 1 122346788888885   566889998853234699999999999999999776654   33333 367776


Q ss_pred             HHHHHHhCCH-HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHH
Q 010136          338 RKVAAASGDM-RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVAL  406 (517)
Q Consensus       338 ~~~~~~~Gd~-R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~  406 (517)
                      +   ...|.. |...++|+.|...|..++..                            .|+++|+.+|+
T Consensus       215 ~---~~~G~~~~dl~~~~~~a~~~a~~~~~~----------------------------~I~~~dl~~a~  253 (254)
T 1ixz_A          215 K---RTPGFVGADLENLLNEAALLAAREGRR----------------------------KITMKDLEEAA  253 (254)
T ss_dssp             H---TCTTCCHHHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHT
T ss_pred             H---HcCCCCHHHHHHHHHHHHHHHHHhcCC----------------------------CcCHHHHHHHh
Confidence            6   345643 67778999998887765433                            69999998875

>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=99.67  E-value=4.8e-15  Score=148.36  Aligned_cols=189  Identities=13%  Similarity=0.185  Sum_probs=127.4

Q ss_pred             CCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC--------------CCceEEEEe
Q 010136          127 VCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL--------------QQPEVFSIN  191 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~--------------~~~~~v~vn  191 (517)
                      +-+++.++.+...    +..++ +..++|+||||+|||++++.+++.+.......+.              ..+.+.+++
T Consensus         5 pw~~~~~~~l~~~----i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~   80 (334)
T 1a5t_A            5 PWLRPDFEKLVAS----YQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLA   80 (334)
T ss_dssp             GGGHHHHHHHHHH----HHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEEC
T ss_pred             CchHHHHHHHHHH----HHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEe
Confidence            3445544444444    44444 4459999999999999999999988632110000              002234444


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhh-ccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCC
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL-HSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPF  270 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~  270 (517)
                      ....                     ......+.++.++.... ....++..|+||||+|.|....++.|...++.   +.
T Consensus        81 ~~~~---------------------~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEe---p~  136 (334)
T 1a5t_A           81 PEKG---------------------KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEE---PP  136 (334)
T ss_dssp             CCTT---------------------CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTS---CC
T ss_pred             cccc---------------------CCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcC---CC
Confidence            3200                     00111333444443211 11234578999999999987767777777765   34


Q ss_pred             CcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHH
Q 010136          271 SRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKA  350 (517)
Q Consensus       271 ~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~a  350 (517)
                      .++++|+++|.   ++.+.+.++|| |  ..+.|++++.+++.++|..+.      .+++++++.+++   .+.||+|.|
T Consensus       137 ~~~~~Il~t~~---~~~l~~ti~SR-c--~~~~~~~~~~~~~~~~L~~~~------~~~~~~~~~l~~---~s~G~~r~a  201 (334)
T 1a5t_A          137 AETWFFLATRE---PERLLATLRSR-C--RLHYLAPPPEQYAVTWLSREV------TMSQDALLAALR---LSAGSPGAA  201 (334)
T ss_dssp             TTEEEEEEESC---GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHC------CCCHHHHHHHHH---HTTTCHHHH
T ss_pred             CCeEEEEEeCC---hHhCcHHHhhc-c--eeeeCCCCCHHHHHHHHHHhc------CCCHHHHHHHHH---HcCCCHHHH
Confidence            57888888885   57789999999 7  689999999999999998764      568888888876   578999999


Q ss_pred             HHHHHHHH
Q 010136          351 LSVCRSAI  358 (517)
Q Consensus       351 l~ll~~A~  358 (517)
                      +++++.+.
T Consensus       202 ~~~l~~~~  209 (334)
T 1a5t_A          202 LALFQGDN  209 (334)
T ss_dssp             HHTTSSHH
T ss_pred             HHHhccch
Confidence            99987654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.66  E-value=7.2e-16  Score=150.34  Aligned_cols=218  Identities=13%  Similarity=0.134  Sum_probs=142.0

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhc--------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLE--------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~--------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      +.+++++|.++..+++.......-.        -..+.+++|+||||||||++++.++..+.          ..++++++
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~----------~~~i~~~~  106 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR----------VPFITASG  106 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT----------CCEEEEEH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC----------CCEEEecH
Confidence            4456788998888777766543211        11245699999999999999999987753          35788887


Q ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHHH
Q 010136          193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLHD  261 (517)
Q Consensus       193 ~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~~  261 (517)
                      ..+          ....        .......+..+|...   ....+.++|+||+|.+....           ...+..
T Consensus       107 ~~~----------~~~~--------~~~~~~~i~~~~~~~---~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~  165 (278)
T 1iy2_A          107 SDF----------VEMF--------VGVGAARVRDLFETA---KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQ  165 (278)
T ss_dssp             HHH----------HHST--------TTHHHHHHHHHHHHH---HTSCSEEEEEETHHHHHCC--------CHHHHHHHHH
T ss_pred             HHH----------HHHH--------hhHHHHHHHHHHHHH---HhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHH
Confidence            432          1100        001133455555521   12356899999999886431           123334


Q ss_pred             Hhcc-C-CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChh-HHHHHHH
Q 010136          262 LFML-T-TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQ-ALELCAR  338 (517)
Q Consensus       262 l~~~-~-~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~-ai~~ia~  338 (517)
                      ++.. . ......+++++++|.   ++.+++.+.++......+.|++++.+++.+||+..+...   .++++ .+..++.
T Consensus       166 ll~~lsgg~~~~~~i~~a~t~~---p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~---~~~~~~~~~~la~  239 (278)
T 1iy2_A          166 LLVEMDGFEKDTAIVVMAATNR---PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK---PLAEDVDLALLAK  239 (278)
T ss_dssp             HHHHHTTCCTTCCEEEEEEESC---TTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTS---CBCTTCCHHHHHH
T ss_pred             HHHHHhCCCCCCCEEEEEecCC---chhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccC---CCCcccCHHHHHH
Confidence            4332 1 112345788888885   455788888742234599999999999999999877653   33333 3666666


Q ss_pred             HHHHHhCCH-HHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHH
Q 010136          339 KVAAASGDM-RKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVAL  406 (517)
Q Consensus       339 ~~~~~~Gd~-R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~  406 (517)
                         ...|.. |....+|+.|+..|..++..                            .|+++|+.+|+
T Consensus       240 ---~~~G~~~~dl~~l~~~a~~~a~~~~~~----------------------------~I~~~dl~~a~  277 (278)
T 1iy2_A          240 ---RTPGFVGADLENLLNEAALLAAREGRR----------------------------KITMKDLEEAA  277 (278)
T ss_dssp             ---TCTTCCHHHHHHHHHHHHHHHHHTTCC----------------------------SBCHHHHHHHT
T ss_pred             ---HcCCCCHHHHHHHHHHHHHHHHHhCCC----------------------------CcCHHHHHHHh
Confidence               456655 56667899998887765443                            69999998875

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.66  E-value=1.7e-15  Score=147.04  Aligned_cols=212  Identities=16%  Similarity=0.113  Sum_probs=130.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+.+++|+||||||||+++++++..+.          ..++++++..+.+.+.                 + .....+..
T Consensus        43 ~~~GvlL~Gp~GtGKTtLakala~~~~----------~~~i~i~g~~l~~~~~-----------------~-~~~~~i~~   94 (274)
T 2x8a_A           43 TPAGVLLAGPPGCGKTLLAKAVANESG----------LNFISVKGPELLNMYV-----------------G-ESERAVRQ   94 (274)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHHTT----------CEEEEEETTTTCSSTT-----------------H-HHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHcC----------CCEEEEEcHHHHhhhh-----------------h-HHHHHHHH
Confidence            355699999999999999999988653          3689999887644221                 0 01334555


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccC--------chHHHHHhcc-C-CCCCCcEEEEEEECCCCcchhhcccccc--c
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRD--------RAVLHDLFML-T-TFPFSRFILIGIANAIDLADRFLPRLQS--M  295 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~--------~~~L~~l~~~-~-~~~~~~v~lI~ian~~~~~~~l~~~l~s--r  295 (517)
                      +|...   ....+.++|+||+|.+....        ...+..++.. . ......+++++++|.   ++.+++.+.+  |
T Consensus        95 vf~~a---~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~---p~~LD~al~r~gR  168 (274)
T 2x8a_A           95 VFQRA---KNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNR---PDIIDPAILRPGR  168 (274)
T ss_dssp             HHHHH---HHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESC---GGGSCHHHHSTTS
T ss_pred             HHHHH---HhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCC---hhhCCHhhcCccc
Confidence            55521   12357899999999986431        1223333322 1 123356888899995   6667888887  4


Q ss_pred             CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCC-ChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 010136          296 NCKPLVVTFRAYSKDQIIRILQERLMELSYIVF-QPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMN  373 (517)
Q Consensus       296 ~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~-~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~  373 (517)
                       | ...|.|+.++.++..+||+..+.......+ .+..++.+|.... ..| .....-.+|++|+..|.++.........
T Consensus       169 -f-d~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~-~~g~sgadl~~l~~~a~~~a~~~~~~~~~~~~  245 (274)
T 2x8a_A          169 -L-DKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLR-CDCYTGADLSALVREASICALRQEMARQKSGN  245 (274)
T ss_dssp             -S-CEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSG-GGSCCHHHHHHHHHHHHHHHHHHHC-------
T ss_pred             -C-CeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhc-cCCcCHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence             5 469999999999999999977643211122 2333566665321 112 2334446889998877665322110000


Q ss_pred             cccccccchhhhhhhhhhccCccccHHHHHHHHHHhccCh
Q 010136          374 SASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       374 ~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                         ..              ....|+++||.+|+..+..+.
T Consensus       246 ---~~--------------~~~~i~~~df~~al~~~~ps~  268 (274)
T 2x8a_A          246 ---EK--------------GELKVSHKHFEEAFKKVRSSI  268 (274)
T ss_dssp             ---------------------CCBCHHHHHHHHTTCCCCC
T ss_pred             ---cc--------------cCCeecHHHHHHHHHHhcCCC
Confidence               00              011699999999999987764

>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=99.65  E-value=2.6e-15  Score=151.51  Aligned_cols=213  Identities=16%  Similarity=0.204  Sum_probs=134.6

Q ss_pred             cCcCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC----------
Q 010136          117 LHVSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ----------  183 (517)
Q Consensus       117 l~~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~----------  183 (517)
                      |...|.|   ++++|++..++.+..++.   ..+..++++|+||+|+|||++++.+++.+....  .|..          
T Consensus         4 w~~kyrP~~~~~~vg~~~~~~~l~~~~~---~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~--~g~i~~~~~~~~~~   78 (354)
T 1sxj_E            4 WVDKYRPKSLNALSHNEELTNFLKSLSD---QPRDLPHLLLYGPNGTGKKTRCMALLESIFGPG--VYRLKIDVRQFVTA   78 (354)
T ss_dssp             CTTTTCCCSGGGCCSCHHHHHHHHTTTT---CTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTT--CCC-----------
T ss_pred             chhccCCCCHHHhcCCHHHHHHHHHHHh---hCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCC--CCeEEecceeeccc
Confidence            4556666   468999987665555431   445556699999999999999999998763210  0000          


Q ss_pred             -----------CceEEEEeCCCCCCH-HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccC-CCceEEEEEeCcch
Q 010136          184 -----------QPEVFSINCTSLTNT-SEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSS-VMKMMLIIADELDY  250 (517)
Q Consensus       184 -----------~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~vI~iDEiD~  250 (517)
                                 ...++++++...... ......+...+.......      ..+  .+     .. ..++.||||||++.
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~------~~~--~l-----s~l~~~~~vlilDE~~~  145 (354)
T 1sxj_E           79 SNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD------FQD--SK-----DGLAHRYKCVIINEANS  145 (354)
T ss_dssp             -------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC-------------------------CCEEEEEECTTS
T ss_pred             ccccceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhcccc------ccc--cc-----cccCCCCeEEEEeCccc
Confidence                       001333443221100 001122222221100000      000  00     01 23567999999999


Q ss_pred             hcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCC-
Q 010136          251 LITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQ-  329 (517)
Q Consensus       251 L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~-  329 (517)
                      |....++.|..+++...   ....+|.+++.   +..+.+.+.|| |  ..+.|+|++.+++.++|...+... ...++ 
T Consensus       146 L~~~~~~~L~~~le~~~---~~~~~Il~t~~---~~~l~~~l~sR-~--~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~  215 (354)
T 1sxj_E          146 LTKDAQAALRRTMEKYS---KNIRLIMVCDS---MSPIIAPIKSQ-C--LLIRCPAPSDSEISTILSDVVTNE-RIQLET  215 (354)
T ss_dssp             SCHHHHHHHHHHHHHST---TTEEEEEEESC---SCSSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHH-TCEECC
T ss_pred             cCHHHHHHHHHHHHhhc---CCCEEEEEeCC---HHHHHHHHHhh-c--eEEecCCcCHHHHHHHHHHHHHHc-CCCCCc
Confidence            87666777888777642   35677777885   44577889998 7  799999999999999999887642 23578 


Q ss_pred             hhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          330 PQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       330 ~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      +++++.+++   ...||+|.|+++++.+...
T Consensus       216 ~~~l~~i~~---~~~G~~r~a~~~l~~~~~~  243 (354)
T 1sxj_E          216 KDILKRIAQ---ASNGNLRVSLLMLESMALN  243 (354)
T ss_dssp             SHHHHHHHH---HHTTCHHHHHHHHTHHHHT
T ss_pred             HHHHHHHHH---HcCCCHHHHHHHHHHHHHh
Confidence            899999887   4689999999999987643

>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=99.64  E-value=1.2e-15  Score=155.32  Aligned_cols=212  Identities=16%  Similarity=0.162  Sum_probs=135.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhhc--------------------------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLE--------------------------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAK  178 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~--------------------------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~  178 (517)
                      .++|++...+.|...+.....                          .....+++|+||||||||++++++++.+.    
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~----   97 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD----   97 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTT----
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhC----
Confidence            478999999888877732111                          12356899999999999999999998763    


Q ss_pred             hcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhh-ccCCCceEEEEEeCcchhccc---
Q 010136          179 EAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL-HSSVMKMMLIIADELDYLITR---  254 (517)
Q Consensus       179 ~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~---  254 (517)
                            ..++.++|..+....-                .+......+...+.... ......+.||||||+|.+...   
T Consensus        98 ------~~~~~~~~~~~~~~~~----------------~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~  155 (376)
T 1um8_A           98 ------IPIAISDATSLTEAGY----------------VGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSEN  155 (376)
T ss_dssp             ------CCEEEEEGGGCC------------------------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC------
T ss_pred             ------CCEEEecchhhhhcCc----------------CCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCC
Confidence                  3689999987642110                01111223344433100 000123569999999999876   


Q ss_pred             -----------CchHHHHHhccCC------------------CCCCcEEEEEEECCCCc---------------------
Q 010136          255 -----------DRAVLHDLFMLTT------------------FPFSRFILIGIANAIDL---------------------  284 (517)
Q Consensus       255 -----------~~~~L~~l~~~~~------------------~~~~~v~lI~ian~~~~---------------------  284 (517)
                                 .++.|..+++...                  ...+++++|+++|..++                     
T Consensus       156 ~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~  235 (376)
T 1um8_A          156 RSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMS  235 (376)
T ss_dssp             --------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCC
T ss_pred             CceecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhh
Confidence                       4567777776321                  11256788887773111                     


Q ss_pred             -----------------chhhcccccccCCCceEEEeCCCCHHHHHHHHHH----HHh----hh----ccCCCChhHHHH
Q 010136          285 -----------------ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE----RLM----EL----SYIVFQPQALEL  335 (517)
Q Consensus       285 -----------------~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~----rl~----~~----~~~~~~~~ai~~  335 (517)
                                       ...+.|.+.+| +. ..+.|+|++.+++..|+..    .+.    .+    ....++++++++
T Consensus       236 ~~~~~~~~~~~~~~~l~~~~~~p~l~~R-~~-~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  313 (376)
T 1um8_A          236 KKEQEAILHLVQTHDLVTYGLIPELIGR-LP-VLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKE  313 (376)
T ss_dssp             TTTTTTSGGGCCHHHHHHTTCCHHHHTT-CC-EEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHH
T ss_pred             ccchhHHHhhcCHHHHhhcCCChHHhcC-CC-ceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHH
Confidence                             11245677777 54 5899999999999999962    111    11    123589999999


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Q 010136          336 CARKVAAASGDMRKALSVCRSAIEILEAE  364 (517)
Q Consensus       336 ia~~~~~~~Gd~R~al~ll~~A~~~a~~~  364 (517)
                      +++......|++|.+.+++..++..+..+
T Consensus       314 l~~~~~~~~~~~R~L~~~le~~~~~~~~~  342 (376)
T 1um8_A          314 IAQLALERKTGARGLRAIIEDFCLDIMFD  342 (376)
T ss_dssp             HHHHHHHTTCTGGGHHHHHHHHHHHHHHT
T ss_pred             HHHHhcccccCcHHHHHHHHHHHHHHHhh
Confidence            99865444599999999999888765543

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.62  E-value=1.5e-13  Score=137.85  Aligned_cols=287  Identities=14%  Similarity=0.127  Sum_probs=165.6

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC----
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT----  196 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~----  196 (517)
                      ..|+.++||+++++.|..++..      ++.++|+|++|+|||++++.+++.+            .+++++|....    
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~------~~~v~i~G~~G~GKT~Ll~~~~~~~------------~~~~~~~~~~~~~~~   70 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLEN------YPLTLLLGIRRVGKSSLLRAFLNER------------PGILIDCRELYAERG   70 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHH------CSEEEEECCTTSSHHHHHHHHHHHS------------SEEEEEHHHHHHTTT
T ss_pred             CChHhcCChHHHHHHHHHHHhc------CCeEEEECCCcCCHHHHHHHHHHHc------------CcEEEEeeccccccc
Confidence            3566899999999999988765      2789999999999999999987653            26888886542    


Q ss_pred             --CHHHHHHHHHHHhCCC---------------CCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcc----c
Q 010136          197 --NTSEIFSKILLKLQPR---------------KKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLIT----R  254 (517)
Q Consensus       197 --s~~~i~~~i~~~l~~~---------------~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~----~  254 (517)
                        +...++..+...+...               .... .... ...+...+....  ...++.+|||||+|++..    .
T Consensus        71 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~--~~~~~~vlvlDe~~~~~~~~~~~  147 (350)
T 2qen_A           71 HITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLS-LREVFRELNDLG--EELGEFIVAFDEAQYLRFYGSRG  147 (350)
T ss_dssp             CBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCC-HHHHHHHHHHHH--HHHSCEEEEEETGGGGGGBTTTT
T ss_pred             CCCHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccch-HHHHHHHHHHHH--hccCCEEEEEeCHHHHhccCccc
Confidence              5666777777665420               0000 0112 222333332111  111278999999999975    2


Q ss_pred             Cch---HHHHHhccCCCCCCcEEEEEEECCCCcchhh------cccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhcc
Q 010136          255 DRA---VLHDLFMLTTFPFSRFILIGIANAIDLADRF------LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSY  325 (517)
Q Consensus       255 ~~~---~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l------~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~  325 (517)
                      ...   .|..+.+..    .++.+|.++....+...+      ...+..+ . ...+.+.|++.++..+++...+.... 
T Consensus       148 ~~~~~~~L~~~~~~~----~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~-~-~~~i~l~pl~~~e~~~~l~~~~~~~~-  220 (350)
T 2qen_A          148 GKELLALFAYAYDSL----PNLKIILTGSEVGLLHDFLKITDYESPLYGR-I-AGEVLVKPFDKDTSVEFLKRGFREVN-  220 (350)
T ss_dssp             THHHHHHHHHHHHHC----TTEEEEEEESSHHHHHHHHCTTCTTSTTTTC-C-CEEEECCCCCHHHHHHHHHHHHHTTT-
T ss_pred             hhhHHHHHHHHHHhc----CCeEEEEECCcHHHHHHHHhhcCCCCccccC-c-cceeeCCCCCHHHHHHHHHHHHHHcC-
Confidence            222   333333322    255566555532211221      1122223 2 35899999999999999987765321 


Q ss_pred             CCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHH
Q 010136          326 IVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVA  405 (517)
Q Consensus       326 ~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a  405 (517)
                      ..++++.+..+.+   .+.|.+.....++...+.   .....                            .+..+.+..+
T Consensus       221 ~~~~~~~~~~i~~---~tgG~P~~l~~~~~~~~~---~~~~~----------------------------~~~~~~~~~~  266 (350)
T 2qen_A          221 LDVPENEIEEAVE---LLDGIPGWLVVFGVEYLR---NGDFG----------------------------RAMKRTLEVA  266 (350)
T ss_dssp             CCCCHHHHHHHHH---HHTTCHHHHHHHHHHHHH---HCCHH----------------------------HHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH---HhCCCHHHHHHHHHHHhc---cccHh----------------------------HHHHHHHHHH
Confidence            2466776666654   467777654444443221   00000                            0111111111


Q ss_pred             HHHhccChhHHHhccC---CHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCce
Q 010136          406 LSNTFKSPVVDTIKSL---PQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVL  482 (517)
Q Consensus       406 ~~~~~~~~~~~~i~~L---~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI  482 (517)
                      ...+     ...+..+   +..++.+|.+++.    +  .++..++.+.+..   ..+  .++..++..+++.|++.|||
T Consensus       267 ~~~~-----~~~l~~l~~~~~~~~~~l~~la~----g--~~~~~~l~~~~~~---~~~--~~~~~~~~~~l~~L~~~gli  330 (350)
T 2qen_A          267 KGLI-----MGELEELRRRSPRYVDILRAIAL----G--YNRWSLIRDYLAV---KGT--KIPEPRLYALLENLKKMNWI  330 (350)
T ss_dssp             HHHH-----HHHHHHHHHHCHHHHHHHHHHHT----T--CCSHHHHHHHHHH---TTC--CCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHH-----HHHHHHHHhCChhHHHHHHHHHh----C--CCCHHHHHHHHHH---HhC--CCCHHHHHHHHHHHHhCCCE
Confidence            1111     1112222   7888888887763    2  2567766553322   221  45778899999999999999


Q ss_pred             eec
Q 010136          483 KVG  485 (517)
Q Consensus       483 ~~~  485 (517)
                      ...
T Consensus       331 ~~~  333 (350)
T 2qen_A          331 VEE  333 (350)
T ss_dssp             EEE
T ss_pred             Eec
Confidence            753

>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=99.61  E-value=4.7e-15  Score=149.30  Aligned_cols=143  Identities=21%  Similarity=0.217  Sum_probs=106.2

Q ss_pred             eEEEEEeCcchhcccCchHHHHHhccC-----CCC-----CCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCC-C
Q 010136          240 MMLIIADELDYLITRDRAVLHDLFMLT-----TFP-----FSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAY-S  308 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~~~~L~~l~~~~-----~~~-----~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~-~  308 (517)
                      ..||||||+|.+....++.|..+++..     ...     ..++++|+++|..+  ..+++.+.+| |. ..+.|+++ +
T Consensus       145 ~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~--~~l~~~L~~R-~~-~~~~l~~~~~  220 (350)
T 1g8p_A          145 RGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEE--GDLRPQLLDR-FG-LSVEVLSPRD  220 (350)
T ss_dssp             TEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCS--CCCCHHHHTT-CS-EEEECCCCCS
T ss_pred             CCEEEEeChhhCCHHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCC--CCCCHHHHhh-cc-eEEEcCCCCc
Confidence            469999999999877777777766531     111     13789999999532  3578899998 63 36899888 5


Q ss_pred             HHHHHHHHHHHHh----------------------------hhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHH
Q 010136          309 KDQIIRILQERLM----------------------------ELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIE  359 (517)
Q Consensus       309 ~~e~~~IL~~rl~----------------------------~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~  359 (517)
                      .++..+|+..++.                            ......+++++++++++......+ ++|.++++++.|..
T Consensus       221 ~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~  300 (350)
T 1g8p_A          221 VETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARA  300 (350)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCchhhccccccchHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Confidence            6666678765321                            112247899999999987655555 79999999999998


Q ss_pred             HHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          360 ILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       360 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                      +|..+++.                            .|+.+||.+|+..+.....
T Consensus       301 ~A~~~~~~----------------------------~v~~~~v~~a~~~~l~~r~  327 (350)
T 1g8p_A          301 LAALEGAT----------------------------AVGRDHLKRVATMALSHRL  327 (350)
T ss_dssp             HHHHTTCS----------------------------BCCHHHHHHHHHHHHGGGC
T ss_pred             HHHHcCCC----------------------------cCCHHHHHHHHHHHHhhcc
Confidence            88776655                            7999999999988776553

>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=99.61  E-value=1.1e-14  Score=163.40  Aligned_cols=211  Identities=17%  Similarity=0.193  Sum_probs=137.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.++||++++..+...+..    ...++++|+||||||||++++.+++.+.............++++++..+...... 
T Consensus       169 ld~viGr~~~i~~l~~~l~~----~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~-  243 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLR----RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY-  243 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHC----SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----------
T ss_pred             CcccCCcHHHHHHHHHHHhc----CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCcc-
Confidence            35689999999998887643    4567899999999999999999999885421111112357899998665321110 


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--------chHHHHHhccCCCCCCcEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--------RAVLHDLFMLTTFPFSRFI  274 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--------~~~L~~l~~~~~~~~~~v~  274 (517)
                                     .......+..+|....  ....+.||||||+|.+....        .+.|..++.     ...+.
T Consensus       244 ---------------~g~~~~~l~~~~~~~~--~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~-----~~~i~  301 (854)
T 1qvr_A          244 ---------------RGEFEERLKAVIQEVV--QSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-----RGELR  301 (854)
T ss_dssp             -----------------CHHHHHHHHHHHHH--TTCSSEEEEECCC-------------------HHHHH-----TTCCC
T ss_pred             ---------------chHHHHHHHHHHHHHH--hcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh-----CCCeE
Confidence                           1122455666665321  23457899999999997432        233444442     24677


Q ss_pred             EEEEECCCCcc-hhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---ccCCCChhHHHHHHHHHHHHhCC---H
Q 010136          275 LIGIANAIDLA-DRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---SYIVFQPQALELCARKVAAASGD---M  347 (517)
Q Consensus       275 lI~ian~~~~~-~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---~~~~~~~~ai~~ia~~~~~~~Gd---~  347 (517)
                      +|+++|..++. ..+++++.+| |  ..+.|++++.+++.+||+..+...   ....++++++..+++...++..+   +
T Consensus       302 ~I~at~~~~~~~~~~d~aL~rR-f--~~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp  378 (854)
T 1qvr_A          302 LIGATTLDEYREIEKDPALERR-F--QPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLP  378 (854)
T ss_dssp             EEEEECHHHHHHHTTCTTTCSC-C--CCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTH
T ss_pred             EEEecCchHHhhhccCHHHHhC-C--ceEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccCh
Confidence            88888843221 1257899998 7  469999999999999998766532   24578999999999988777776   8


Q ss_pred             HHHHHHHHHHHHHHHH
Q 010136          348 RKALSVCRSAIEILEA  363 (517)
Q Consensus       348 R~al~ll~~A~~~a~~  363 (517)
                      ++|+++++.|...+..
T Consensus       379 ~kai~lldea~a~~~~  394 (854)
T 1qvr_A          379 DKAIDLIDEAAARLRM  394 (854)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999888765543

>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=99.60  E-value=7.1e-15  Score=156.29  Aligned_cols=208  Identities=16%  Similarity=0.201  Sum_probs=128.4

Q ss_pred             CCCCcHHHHHHHHHHHHHh-h-ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKN-L-EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~-l-~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      +++|.++..+.+..++.-. + ....+.+++|+||||||||++++.++..+.          ..+..++|........++
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~----------~~~~~i~~~~~~~~~~~~  151 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG----------RKFVRISLGGVRDESEIR  151 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHT----------CEEEEECCCC--------
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcC----------CCeEEEEecccchhhhhh
Confidence            4789888888887664321 1 223466899999999999999999998874          468899998765433322


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc----hHHHHHhccCCC----------
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR----AVLHDLFMLTTF----------  268 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~----~~L~~l~~~~~~----------  268 (517)
                      ......+        +.. ...+...|..   .....+ ||||||+|.+....+    ..|..+++..+.          
T Consensus       152 g~~~~~i--------g~~-~~~~~~~~~~---a~~~~~-vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~  218 (543)
T 3m6a_A          152 GHRRTYV--------GAM-PGRIIQGMKK---AGKLNP-VFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEE  218 (543)
T ss_dssp             ---------------------CHHHHHHT---TCSSSE-EEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCC
T ss_pred             hHHHHHh--------ccC-chHHHHHHHH---hhccCC-EEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCe
Confidence            2111111        111 2234445542   122333 999999999987633    445555542111          


Q ss_pred             --CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHh-------hhc--cCCCChhHHHHHH
Q 010136          269 --PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM-------ELS--YIVFQPQALELCA  337 (517)
Q Consensus       269 --~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~-------~~~--~~~~~~~ai~~ia  337 (517)
                        ...++++|+++|.   .+.+++.+.+| |  ..|.|++|+.++...|+...+.       ++.  ...++++++..++
T Consensus       219 ~~~~~~v~iI~ttN~---~~~l~~aL~~R-~--~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~  292 (543)
T 3m6a_A          219 TFDLSKVLFIATANN---LATIPGPLRDR-M--EIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDII  292 (543)
T ss_dssp             CCBCSSCEEEEECSS---TTTSCHHHHHH-E--EEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHH
T ss_pred             eecccceEEEeccCc---cccCCHHHHhh-c--ceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHH
Confidence              1157899999995   56788999998 7  6899999999999999987652       111  2357899999887


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHH
Q 010136          338 RKVAAASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       338 ~~~~~~~Gd~R~al~ll~~A~~~a~  362 (517)
                      +.+. ..|++|..-+.+..++..+.
T Consensus       293 ~~~~-~~~~vR~L~~~i~~~~~~aa  316 (543)
T 3m6a_A          293 RYYT-REAGVRSLERQLAAICRKAA  316 (543)
T ss_dssp             HHHC-CCSSSHHHHHHHHHHHHHHH
T ss_pred             HhCC-hhhchhHHHHHHHHHHHHHH
Confidence            7432 23677776666655554443

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.60  E-value=6.3e-15  Score=154.11  Aligned_cols=200  Identities=15%  Similarity=0.153  Sum_probs=132.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||+++++.+...+..    ...++++|+||||||||++++.++..+.............+++++|.   +.+.   
T Consensus       180 d~iiGr~~~i~~l~~~l~r----~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~---~~~~---  249 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSR----RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG---TKYR---  249 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHC----SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------
T ss_pred             CCccCcHHHHHHHHHHHhc----cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC---cccc---
Confidence            4699999999998888654    45679999999999999999999998753110001113467888876   1100   


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                                    |.. ...+..+|...   ....+.|||||       ...+....|...  .....+.+|+++|..+
T Consensus       250 --------------g~~-e~~~~~~~~~~---~~~~~~iLfiD-------~~~~a~~~L~~~--L~~g~v~vI~at~~~e  302 (468)
T 3pxg_A          250 --------------GEF-EDRLKKVMDEI---RQAGNIILFID-------AAIDASNILKPS--LARGELQCIGATTLDE  302 (468)
T ss_dssp             ------------------CTTHHHHHHHH---HTCCCCEEEEC-------C--------CCC--TTSSSCEEEEECCTTT
T ss_pred             --------------chH-HHHHHHHHHHH---HhcCCeEEEEe-------CchhHHHHHHHh--hcCCCEEEEecCCHHH
Confidence                          100 12234444421   12456899999       122222222222  2345789999888655


Q ss_pred             cch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---ccCCCChhHHHHHHHHHHHHhCC---HHHHHHHHH
Q 010136          284 LAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---SYIVFQPQALELCARKVAAASGD---MRKALSVCR  355 (517)
Q Consensus       284 ~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---~~~~~~~~ai~~ia~~~~~~~Gd---~R~al~ll~  355 (517)
                      +..  .+++.+.+| |  ..|.|++++.+++..||+..+..+   ....+++++++.+++....+.++   +++|+++++
T Consensus       303 ~~~~~~~~~al~~R-f--~~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~  379 (468)
T 3pxg_A          303 YRKYIEKDAALERR-F--QPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLID  379 (468)
T ss_dssp             THHHHTTCSHHHHS-E--EEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHH
T ss_pred             HHHHhhcCHHHHHh-C--ccceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHH
Confidence            322  467899998 7  579999999999999999766532   34578999999999988777766   789999999


Q ss_pred             HHHHHHHH
Q 010136          356 SAIEILEA  363 (517)
Q Consensus       356 ~A~~~a~~  363 (517)
                      .|...+..
T Consensus       380 ~a~~~~~~  387 (468)
T 3pxg_A          380 EAGSKVRL  387 (468)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            98865544

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.60  E-value=1.2e-15  Score=139.33  Aligned_cols=164  Identities=15%  Similarity=0.231  Sum_probs=105.7

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.++||+++++.+...+..    ..+.+++|+||||||||++++.+++.+.............+++++|......... 
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   95 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQR----RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKY-   95 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTS----SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCS-
T ss_pred             ccccccchHHHHHHHHHHhc----CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCc-
Confidence            45789999999888887544    4567899999999999999999999876421110011246788887432100000 


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--------chHHHHHhccCCCCCCcEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--------RAVLHDLFMLTTFPFSRFI  274 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--------~~~L~~l~~~~~~~~~~v~  274 (517)
                                     .......+..++....  ....+.||||||+|.+....        ++.|..+++.     .++.
T Consensus        96 ---------------~~~~~~~~~~~~~~~~--~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~-----~~~~  153 (195)
T 1jbk_A           96 ---------------RGEFEERLKGVLNDLA--KQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-----GELH  153 (195)
T ss_dssp             ---------------HHHHHHHHHHHHHHHH--HSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT-----TSCC
T ss_pred             ---------------cccHHHHHHHHHHHHh--hcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc-----CCeE
Confidence                           0001223344443211  24456899999999996332        4555555532     4667


Q ss_pred             EEEEECCCCcch--hhcccccccCCCceEEEeCCCCHHHHHHHH
Q 010136          275 LIGIANAIDLAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRIL  316 (517)
Q Consensus       275 lI~ian~~~~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL  316 (517)
                      +|+++|..++..  .+++++.+| |  ..+.|.+++.+++.+||
T Consensus       154 ~i~~~~~~~~~~~~~~~~~l~~r-~--~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          154 CVGATTLDEYRQYIEKDAALERR-F--QKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EEEEECHHHHHHHTTTCHHHHTT-E--EEEECCCCCHHHHHTTC
T ss_pred             EEEeCCHHHHHHHHhcCHHHHHH-h--ceeecCCCCHHHHHHHh
Confidence            888888533221  457889888 7  47999999999998775

>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=99.59  E-value=1.7e-14  Score=160.21  Aligned_cols=238  Identities=13%  Similarity=0.140  Sum_probs=154.6

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.++||+++++.+...|..    ....+++|+||||||||++++.++..+.............++.+++..+..     
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~----~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~-----  255 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCR----RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA-----  255 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTS----SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C-----
T ss_pred             CCCccCCHHHHHHHHHHHhc----cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhc-----
Confidence            35689999999988877653    467899999999999999999999987542100001123566666554321     


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----chHHHHHhccCCCCCCcEEEEE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----RAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                              +.  .. .....+.+..+|...   ....+.||||||+|.+....     ...+.+++... .....+.+|+
T Consensus       256 --------~~--~~-~g~~e~~l~~~~~~~---~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~-l~~~~~~~I~  320 (758)
T 1r6b_X          256 --------GT--KY-RGDFEKRFKALLKQL---EQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPL-LSSGKIRVIG  320 (758)
T ss_dssp             --------CC--CC-SSCHHHHHHHHHHHH---SSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSC-SSSCCCEEEE
T ss_pred             --------cc--cc-cchHHHHHHHHHHHH---HhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHH-HhCCCeEEEE
Confidence                    00  01 123355667666532   23356899999999996432     22223333221 2345788999


Q ss_pred             EECCCCcch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---ccCCCChhHHHHHHHHHHHHhCC---HHH
Q 010136          278 IANAIDLAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---SYIVFQPQALELCARKVAAASGD---MRK  349 (517)
Q Consensus       278 ian~~~~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---~~~~~~~~ai~~ia~~~~~~~Gd---~R~  349 (517)
                      ++|..++..  .+++++.+| |  ..+.|++++.+++.+||...+..+   ....+++++++.++.....+-++   +.+
T Consensus       321 at~~~~~~~~~~~d~aL~~R-f--~~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~  397 (758)
T 1r6b_X          321 STTYQEFSNIFEKDRALARR-F--QKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDK  397 (758)
T ss_dssp             EECHHHHHCCCCCTTSSGGG-E--EEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHH
T ss_pred             EeCchHHhhhhhcCHHHHhC-c--eEEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchH
Confidence            888533211  246888888 7  589999999999999999776532   34568899999998877665554   568


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          350 ALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       350 al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                      ++++++.|...+......   .                     ....|+.++|.+++.....
T Consensus       398 ~i~lld~a~~~~~~~~~~---~---------------------~~~~v~~~di~~~~~~~~~  435 (758)
T 1r6b_X          398 AIDVIDEAGARARLMPVS---K---------------------RKKTVNVADIESVVARIAR  435 (758)
T ss_dssp             HHHHHHHHHHHHHHSSSC---C---------------------CCCSCCHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhccccc---c---------------------cCCccCHHHHHHHHHHhcC
Confidence            999999887554331000   0                     0016888999988887654

>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=99.59  E-value=1.6e-15  Score=146.76  Aligned_cols=215  Identities=16%  Similarity=0.141  Sum_probs=136.1

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      .++.++|++..+..+...+.....  ...+++|+|+||||||++++++++.+...       ...++++||..+.. ..+
T Consensus         4 ~f~~~ig~~~~~~~~~~~~~~~~~--~~~~vll~G~~GtGKt~la~~i~~~~~~~-------~~~~~~v~~~~~~~-~~~   73 (265)
T 2bjv_A            4 YKDNLLGEANSFLEVLEQVSHLAP--LDKPVLIIGERGTGKELIASRLHYLSSRW-------QGPFISLNCAALNE-NLL   73 (265)
T ss_dssp             ------CCCHHHHHHHHHHHHHTT--SCSCEEEECCTTSCHHHHHHHHHHTSTTT-------TSCEEEEEGGGSCH-HHH
T ss_pred             ccccceeCCHHHHHHHHHHHHHhC--CCCCEEEECCCCCcHHHHHHHHHHhcCcc-------CCCeEEEecCCCCh-hHH
Confidence            456789999999999988887654  45789999999999999999998765321       13689999998742 222


Q ss_pred             HHHHHHHhCCCCCC-CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCc
Q 010136          202 FSKILLKLQPRKKL-NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSR  272 (517)
Q Consensus       202 ~~~i~~~l~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~  272 (517)
                      ...++    +.... ..+..  ......+.      .....+|||||+|.+....|..|..+++...        .....
T Consensus        74 ~~~l~----g~~~~~~~g~~--~~~~~~l~------~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~  141 (265)
T 2bjv_A           74 DSELF----GHEAGAFTGAQ--KRHPGRFE------RADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVN  141 (265)
T ss_dssp             HHHHH----CCC-----------CCCCHHH------HTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECC
T ss_pred             HHHhc----CCccccccccc--ccccchhh------hcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCC
Confidence            22221    11110 00000  00011222      0123589999999998777777777776421        11246


Q ss_pred             EEEEEEECCC--Cc--chhhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhh----hcc---CCCChhHHHHHHHH
Q 010136          273 FILIGIANAI--DL--ADRFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLME----LSY---IVFQPQALELCARK  339 (517)
Q Consensus       273 v~lI~ian~~--~~--~~~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~----~~~---~~~~~~ai~~ia~~  339 (517)
                      +.+|+++|..  ++  ...+.+.+.+| +....|.++|+..  +++..++...+..    ...   ..+++++++.+...
T Consensus       142 ~~iI~atn~~~~~~~~~~~~~~~L~~R-l~~~~i~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L~~~  220 (265)
T 2bjv_A          142 VRLVCATNADLPAMVNEGTFRADLLDA-LAFDVVQLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETLLNY  220 (265)
T ss_dssp             CEEEEEESSCHHHHHHHTSSCHHHHHH-HCSEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHHHHS
T ss_pred             eEEEEecCcCHHHHHHcCCccHHHHHh-hcCcEEeCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHHHhC
Confidence            7888888852  11  11355777788 6556899999976  7787777665542    111   26899999988652


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHH
Q 010136          340 VAAASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a  361 (517)
                        ...|++|...++++.++..+
T Consensus       221 --~~~gn~reL~~~l~~~~~~~  240 (265)
T 2bjv_A          221 --RWPGNIRELKNVVERSVYRH  240 (265)
T ss_dssp             --CCTTHHHHHHHHHHHHHHHH
T ss_pred             --CCCCCHHHHHHHHHHHHHhC
Confidence              35799999999999887554

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.58  E-value=4.9e-13  Score=134.42  Aligned_cols=288  Identities=13%  Similarity=0.081  Sum_probs=163.4

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC-----
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL-----  195 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~-----  195 (517)
                      ..|+.++||+++++.|.. +..       +.++|+|++|+|||++++.+++.+.          ..+++++|...     
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~~-------~~v~i~G~~G~GKT~L~~~~~~~~~----------~~~~~~~~~~~~~~~~   71 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LRA-------PITLVLGLRRTGKSSIIKIGINELN----------LPYIYLDLRKFEERNY   71 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TCS-------SEEEEEESTTSSHHHHHHHHHHHHT----------CCEEEEEGGGGTTCSC
T ss_pred             CCHHHhcChHHHHHHHHH-hcC-------CcEEEECCCCCCHHHHHHHHHHhcC----------CCEEEEEchhhccccC
Confidence            456789999999988877 543       6999999999999999999987753          14688888753     


Q ss_pred             CCHHHHHHHHHHHhCC-------------CC-----CC---C--C---CCCHHHHHHHHHHhhhccCCCceEEEEEeCcc
Q 010136          196 TNTSEIFSKILLKLQP-------------RK-----KL---N--G---STSPLQYLQNLYSQKLHSSVMKMMLIIADELD  249 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~-------------~~-----~~---~--~---~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD  249 (517)
                      .+...++..+...+..             ..     ..   .  .   .......+...+..  . .. ++.+|||||+|
T Consensus        72 ~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~-~~-~~~vlvlDe~~  147 (357)
T 2fna_A           72 ISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQ--A-SK-DNVIIVLDEAQ  147 (357)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHH--T-CS-SCEEEEEETGG
T ss_pred             CCHHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHh--c-CC-CCeEEEEECHH
Confidence            4556666666554411             00     00   0  0   01113333333331  1 11 38999999999


Q ss_pred             hhccc-C---chHHHHHhccCCCCCCcEEEEEEECCCCcchhh------cccccccCCCceEEEeCCCCHHHHHHHHHHH
Q 010136          250 YLITR-D---RAVLHDLFMLTTFPFSRFILIGIANAIDLADRF------LPRLQSMNCKPLVVTFRAYSKDQIIRILQER  319 (517)
Q Consensus       250 ~L~~~-~---~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l------~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~r  319 (517)
                      ++... .   ...|..+.+..    .++.+|.+++.......+      ...+..+  ....+.+.|++.++..+++...
T Consensus       148 ~~~~~~~~~~~~~l~~~~~~~----~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r--~~~~i~l~~l~~~e~~~~l~~~  221 (357)
T 2fna_A          148 ELVKLRGVNLLPALAYAYDNL----KRIKFIMSGSEMGLLYDYLRVEDPESPLFGR--AFSTVELKPFSREEAIEFLRRG  221 (357)
T ss_dssp             GGGGCTTCCCHHHHHHHHHHC----TTEEEEEEESSHHHHHHHTTTTCTTSTTTTC--CCEEEEECCCCHHHHHHHHHHH
T ss_pred             HhhccCchhHHHHHHHHHHcC----CCeEEEEEcCchHHHHHHHhccCCCCccccC--ccceeecCCCCHHHHHHHHHHH
Confidence            99752 1   23455554432    256666666642211211      1112222  1368999999999999999987


Q ss_pred             HhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccH
Q 010136          320 LMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRV  399 (517)
Q Consensus       320 l~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~  399 (517)
                      +.... ...++ . ..+   +....|.+.....++..++.   .....                            ....
T Consensus       222 ~~~~~-~~~~~-~-~~i---~~~t~G~P~~l~~~~~~~~~---~~~~~----------------------------~~~~  264 (357)
T 2fna_A          222 FQEAD-IDFKD-Y-EVV---YEKIGGIPGWLTYFGFIYLD---NKNLD----------------------------FAIN  264 (357)
T ss_dssp             HHHHT-CCCCC-H-HHH---HHHHCSCHHHHHHHHHHHHH---HCCHH----------------------------HHHH
T ss_pred             HHHcC-CCCCc-H-HHH---HHHhCCCHHHHHHHHHHHcc---ccchH----------------------------HHHH
Confidence            75321 12222 2 333   33567777655445444321   00000                            0101


Q ss_pred             HHHHHHHHHhccChhHHHh---ccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHH
Q 010136          400 DHMAVALSNTFKSPVVDTI---KSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVL  476 (517)
Q Consensus       400 ~~v~~a~~~~~~~~~~~~i---~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L  476 (517)
                      +.+..+.. .....+...+   ..++..++.+|.+++.    +  . +..++.+.|...+.    .+++..++..+++.|
T Consensus       265 ~~~~~~~~-~~~~~l~~~~~~~~~l~~~~~~~l~~la~----g--~-~~~~l~~~~~~~~g----~~~~~~~~~~~L~~L  332 (357)
T 2fna_A          265 QTLEYAKK-LILKEFENFLHGREIARKRYLNIMRTLSK----C--G-KWSDVKRALELEEG----IEISDSEIYNYLTQL  332 (357)
T ss_dssp             HHHHHHHH-HHHHHHHHHHTTCGGGHHHHHHHHHHHTT----C--B-CHHHHHHHHHHHHC----SCCCHHHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHHHHHHhhccccccHHHHHHHHHHHc----C--C-CHHHHHHHHHHhcC----CCCCHHHHHHHHHHH
Confidence            11111110 0001111111   1688899999987763    2  2 67777654443332    136778899999999


Q ss_pred             hhcCceeec
Q 010136          477 HDQGVLKVG  485 (517)
Q Consensus       477 ~~~glI~~~  485 (517)
                      ++.|||...
T Consensus       333 ~~~gli~~~  341 (357)
T 2fna_A          333 TKHSWIIKE  341 (357)
T ss_dssp             HHTTSEEES
T ss_pred             HhCCCEEec
Confidence            999999753

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.57  E-value=2.3e-15  Score=148.48  Aligned_cols=213  Identities=16%  Similarity=0.191  Sum_probs=141.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++|++..+..+...+.....  ...+++|+|+||||||++++++......    .   ...++++||..+..  .+  
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~--~~~~vLi~Ge~GtGKt~lAr~i~~~~~~----~---~~~~v~v~~~~~~~--~l--   68 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAP--SDATVLIHGDSGTGKELVARALHACSAR----S---DRPLVTLNCAALNE--SL--   68 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCS--TTSCEEEESCTTSCHHHHHHHHHHHSSC----S---SSCCCEEECSSCCH--HH--
T ss_pred             CCcEECCHHHHHHHHHHHHHhC--CCCcEEEECCCCchHHHHHHHHHHhCcc----c---CCCeEEEeCCCCCh--HH--
Confidence            3589999999999999888653  5678999999999999999999875421    1   13589999998743  22  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFIL  275 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~l  275 (517)
                       +...+.+......... .......|..    .  ...+|||||||.+....|..|..+++....        ....+.+
T Consensus        69 -~~~~lfg~~~g~~tg~-~~~~~g~~~~----a--~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~ri  140 (304)
T 1ojl_A           69 -LESELFGHEKGAFTGA-DKRREGRFVE----A--DGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRL  140 (304)
T ss_dssp             -HHHHHTCCCSSCCC----CCCCCHHHH----H--TTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEE
T ss_pred             -HHHHhcCccccccCch-hhhhcCHHHh----c--CCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEE
Confidence             2233433322111110 0001112221    0  124799999999987777777777654321        1346889


Q ss_pred             EEEECCCCcch-----hhcccccccCCCceEEEeCCCC--HHHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHH
Q 010136          276 IGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYS--KDQIIRILQERLMEL------SYIVFQPQALELCARKVAA  342 (517)
Q Consensus       276 I~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~--~~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~  342 (517)
                      |+++|.. +.+     .+.+.+.+| +....|.++|+.  .+++..++...+..+      ....+++++++.+...  .
T Consensus       141 I~atn~~-l~~~v~~g~fr~~L~~R-l~~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~--~  216 (304)
T 1ojl_A          141 IAATHRD-LAEEVSAGRFRQDLYYR-LNVVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHY--D  216 (304)
T ss_dssp             EEEESSC-HHHHHHHTSSCHHHHHH-HSSEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHC--C
T ss_pred             EEecCcc-HHHHHHhCCcHHHHHhh-cCeeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcC--C
Confidence            9988853 111     245667777 556689999998  678888877665422      2246899999998763  2


Q ss_pred             HhCCHHHHHHHHHHHHHHH
Q 010136          343 ASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a  361 (517)
                      ..|++|...+++++|+.++
T Consensus       217 wpGnvReL~~~l~~~~~~~  235 (304)
T 1ojl_A          217 WPGNIRELENAIERAVVLL  235 (304)
T ss_dssp             CSSHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHhC
Confidence            4799999999999988654

>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=99.56  E-value=7.9e-15  Score=162.89  Aligned_cols=216  Identities=15%  Similarity=0.142  Sum_probs=147.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccC-----CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEE-----KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT  198 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~-----~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~  198 (517)
                      ..++|++..++.+...+.....+.     ..++++|+||||||||++++++++.+.          ..+++++|..+...
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~----------~~~~~i~~s~~~~~  527 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG----------IELLRFDMSEYMER  527 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT----------CEEEEEEGGGCSSS
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc----------CCEEEEechhhcch
Confidence            357999999999998887654322     234799999999999999999998873          36899999887543


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CC
Q 010136          199 SEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PF  270 (517)
Q Consensus       199 ~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~  270 (517)
                      ..+     ..+.+......+......+...+.      ...+.||||||||.+....++.|..+++....        .-
T Consensus       528 ~~~-----~~l~g~~~g~~g~~~~~~l~~~~~------~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~  596 (758)
T 1r6b_X          528 HTV-----SRLIGAPPGYVGFDQGGLLTDAVI------KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADF  596 (758)
T ss_dssp             SCC-----SSSCCCCSCSHHHHHTTHHHHHHH------HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEEC
T ss_pred             hhH-----hhhcCCCCCCcCccccchHHHHHH------hCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEec
Confidence            210     111111111111000112334443      23468999999999987777888888874211        11


Q ss_pred             CcEEEEEEECCCC----------------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhc----
Q 010136          271 SRFILIGIANAID----------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS----  324 (517)
Q Consensus       271 ~~v~lI~ian~~~----------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~----  324 (517)
                      .+++||+++|...                      +...+.|.+.+| +. ..|.|+|++.+++..|+...+..+.    
T Consensus       597 ~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R-~~-~~i~~~~l~~~~~~~i~~~~l~~~~~~~~  674 (758)
T 1r6b_X          597 RNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNR-LD-NIIWFDHLSTDVIHQVVDKFIVELQVQLD  674 (758)
T ss_dssp             TTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHTT-CS-EEEECCCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhh-CC-cceeeCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4688999999521                      112567888898 64 4799999999999999998876321    


Q ss_pred             ----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Q 010136          325 ----YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILE  362 (517)
Q Consensus       325 ----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~  362 (517)
                          ...+++++++++++......+++|...++++.++..+.
T Consensus       675 ~~~~~~~~~~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~~~l  716 (758)
T 1r6b_X          675 QKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPL  716 (758)
T ss_dssp             HTTEEEEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHTHHH
T ss_pred             HCCcEEEeCHHHHHHHHHhCCCcCCCchHHHHHHHHHHHHHH
Confidence                13689999999988543335568888888888876433

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.55  E-value=1.2e-14  Score=142.74  Aligned_cols=161  Identities=15%  Similarity=0.118  Sum_probs=96.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+.+++|+||||||||+++++++++++          ..+++++|..+.+.+.                  ......+..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~----------~~~i~v~~~~l~~~~~------------------g~~~~~i~~   86 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMG----------INPIMMSAGELESGNA------------------GEPAKLIRQ   86 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHT----------CCCEEEEHHHHHCC---------------------HHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC----------CCEEEEeHHHhhhccC------------------chhHHHHHH
Confidence            356899999999999999999999884          4689999865422211                  112444555


Q ss_pred             HHHhhh-ccCCCceEEEEEeCcchhcccCc-------------hHHHHHhccC----------CCCCCcEEEEEEECCCC
Q 010136          228 LYSQKL-HSSVMKMMLIIADELDYLITRDR-------------AVLHDLFMLT----------TFPFSRFILIGIANAID  283 (517)
Q Consensus       228 ~~~~~~-~~~~~~~~vI~iDEiD~L~~~~~-------------~~L~~l~~~~----------~~~~~~v~lI~ian~~~  283 (517)
                      .|.... ......+.||||||||.+..+..             ..|.++++-.          .....++.||++||.  
T Consensus        87 ~f~~a~~~~~~~~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~--  164 (293)
T 3t15_A           87 RYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGND--  164 (293)
T ss_dssp             HHHHHHHHHTTSSCCCEEEECCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSS--
T ss_pred             HHHHHHHHHhcCCCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCC--
Confidence            665310 11255789999999999876322             4455555421          123467999999995  


Q ss_pred             cchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHH
Q 010136          284 LADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-DMR  348 (517)
Q Consensus       284 ~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R  348 (517)
                       ++.+++.+.++ +|  ..+.+.| +.++..+|++..+..   ..++.+.   +++.+...+| ++.
T Consensus       165 -~~~ld~al~R~~R~--d~~i~~P-~~~~r~~Il~~~~~~---~~~~~~~---l~~~~~~~~~~~l~  221 (293)
T 3t15_A          165 -FSTLYAPLIRDGRM--EKFYWAP-TREDRIGVCTGIFRT---DNVPAED---VVKIVDNFPGQSID  221 (293)
T ss_dssp             -CCC--CHHHHHHHE--EEEEECC-CHHHHHHHHHHHHGG---GCCCHHH---HHHHHHHSCSCCHH
T ss_pred             -cccCCHHHhCCCCC--ceeEeCc-CHHHHHHHHHHhccC---CCCCHHH---HHHHhCCCCcccHH
Confidence             55677777753 14  3433444 999999999976653   2445444   3444445555 443

>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=99.55  E-value=1.2e-14  Score=147.16  Aligned_cols=211  Identities=19%  Similarity=0.240  Sum_probs=137.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhhcc-----------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLEE-----------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~-----------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .++|.+..++.+...+......           ..+.+++|+||||||||++++++++.+.          ..++.++|.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~----------~~~~~~~~~   85 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD----------VPFTMADAT   85 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT----------CCEEEEEHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC----------CCEEEechH
Confidence            3799999999988887533211           1456899999999999999999998863          468999997


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhh-ccCCCceEEEEEeCcchhccc--------------CchH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL-HSSVMKMMLIIADELDYLITR--------------DRAV  258 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~--------------~~~~  258 (517)
                      .+....-+                |......+...+.... .-....+.||||||+|.+...              -+..
T Consensus        86 ~l~~~~~~----------------g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~  149 (363)
T 3hws_A           86 TLTEAGYV----------------GEDVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQA  149 (363)
T ss_dssp             HHTTCHHH----------------HHHHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHH
T ss_pred             Hhcccccc----------------cccHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHH
Confidence            65322110                0001223344443110 001124579999999999865              3566


Q ss_pred             HHHHhccC------------------CCCCCcEEEEEEECCCCcc-----------------------------------
Q 010136          259 LHDLFMLT------------------TFPFSRFILIGIANAIDLA-----------------------------------  285 (517)
Q Consensus       259 L~~l~~~~------------------~~~~~~v~lI~ian~~~~~-----------------------------------  285 (517)
                      |..+++-.                  .....++.+|+++|..++.                                   
T Consensus       150 Ll~~leg~~~~~~~~~~~~~~~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v  229 (363)
T 3hws_A          150 LLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQV  229 (363)
T ss_dssp             HHHHHHCC----------------CCCCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTC
T ss_pred             HHHHhcCceeeccCccccccCCCceEEEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhC
Confidence            77777611                  1133566777777642111                                   


Q ss_pred             --hh-----hcccccccCCCceEEEeCCCCHHHHHHHHHH----HHhh----h----ccCCCChhHHHHHHHHHHHHhCC
Q 010136          286 --DR-----FLPRLQSMNCKPLVVTFRAYSKDQIIRILQE----RLME----L----SYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       286 --~~-----l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~----rl~~----~----~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                        +.     +.|.+.+| + ...+.|.|++.+++.+|+..    .+..    +    ....+++++++.+++......++
T Consensus       230 ~~~~l~~~~~~~~l~~R-~-~~~~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~g  307 (363)
T 3hws_A          230 EPEDLIKFGLIPEFIGR-L-PVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTG  307 (363)
T ss_dssp             CHHHHHHHTCCHHHHTT-C-CEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCT
T ss_pred             CHHHHHHcCCCHHHhcc-c-CeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccC
Confidence              01     56777888 5 35778999999999999875    2211    1    11357999999999865556677


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 010136          347 MRKALSVCRSAIEILEA  363 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~  363 (517)
                      +|..-+++.+++.-+..
T Consensus       308 aR~L~~~ie~~~~~~l~  324 (363)
T 3hws_A          308 ARGLRSIVEAALLDTMY  324 (363)
T ss_dssp             TTTHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHH
Confidence            88888888887765544

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.51  E-value=2.9e-14  Score=158.13  Aligned_cols=208  Identities=15%  Similarity=0.138  Sum_probs=145.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCC-----CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEK-----AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT  198 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~-----~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~  198 (517)
                      ..++|++..++.+...+.....+..     .++++|+||||||||++++++++.+...    +   ..++++||..+...
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~----~---~~~i~i~~s~~~~~  563 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD----E---ESMIRIDMSEYMEK  563 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC----T---TCEEEEEGGGGCSS
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC----C---cceEEEechhcccc
Confidence            4689999999999999887654321     2279999999999999999999987421    1   36999999886543


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CC
Q 010136          199 SEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PF  270 (517)
Q Consensus       199 ~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~  270 (517)
                      ...                  + ...+...+.      ...+.||||||||.+....++.|..+++....        ..
T Consensus       564 ~~~------------------~-~~~l~~~~~------~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~  618 (758)
T 3pxi_A          564 HST------------------S-GGQLTEKVR------RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDF  618 (758)
T ss_dssp             CCC------------------C----CHHHHH------HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBC
T ss_pred             ccc------------------c-cchhhHHHH------hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEecc
Confidence            221                  0 111222332      22346999999999987777888888876321        23


Q ss_pred             CcEEEEEEECCCC---------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh--------ccCCCChhHH
Q 010136          271 SRFILIGIANAID---------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL--------SYIVFQPQAL  333 (517)
Q Consensus       271 ~~v~lI~ian~~~---------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~--------~~~~~~~~ai  333 (517)
                      .++.+|+++|...         ....+.|.+.+| +. ..|.|+|++.+++..|+...+..+        ....++++++
T Consensus       619 ~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~R-l~-~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~  696 (758)
T 3pxi_A          619 RNTILIMTSNVGASEKDKVMGELKRAFRPEFINR-ID-EIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAK  696 (758)
T ss_dssp             TTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHTT-SS-EEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHH
T ss_pred             CCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHhh-CC-eEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHH
Confidence            5778999999421         122367888888 63 599999999999999999877532        1236899999


Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHH
Q 010136          334 ELCARKVAAASGDMRKALSVCRSAIEILEAEM  365 (517)
Q Consensus       334 ~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~  365 (517)
                      +++++......|++|..-+++++++..+..+.
T Consensus       697 ~~l~~~~~~~~~~~R~L~~~i~~~v~~~l~~~  728 (758)
T 3pxi_A          697 AKVAEEGVDLEYGARPLRRAIQKHVEDRLSEE  728 (758)
T ss_dssp             HHHHGGGCCTTTTTTTHHHHHHHHTHHHHHHH
T ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHHHHHHH
Confidence            99987544456788887788877776554443

>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=99.50  E-value=4.2e-14  Score=158.63  Aligned_cols=223  Identities=17%  Similarity=0.171  Sum_probs=148.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccC-----CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEE-----KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT  198 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~-----~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~  198 (517)
                      ..++|++..++.+...+.....+.     ..++++|+||||||||+++++++..+....       ..++++||..+...
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~-------~~~i~i~~~~~~~~  630 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE-------EAMIRIDMTEYMEK  630 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG-------GGEEEECTTTCCSS
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC-------CcEEEEechhccch
Confidence            468999999999999988765431     124899999999999999999999875311       36899999987654


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CC
Q 010136          199 SEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PF  270 (517)
Q Consensus       199 ~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~  270 (517)
                      ...     ..+.+......|......+...+.      .....||||||||.+....++.|..+++....        ..
T Consensus       631 ~~~-----s~l~g~~~~~~G~~~~g~l~~~~~------~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~  699 (854)
T 1qvr_A          631 HAV-----SRLIGAPPGYVGYEEGGQLTEAVR------RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDF  699 (854)
T ss_dssp             GGG-----GGC--------------CHHHHHH------HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEEC
T ss_pred             hHH-----HHHcCCCCCCcCccccchHHHHHH------hCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEecc
Confidence            221     111111111112111122333343      22357999999999977777888888875321        11


Q ss_pred             CcEEEEEEECCC-----C----------c--------chhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhc---
Q 010136          271 SRFILIGIANAI-----D----------L--------ADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS---  324 (517)
Q Consensus       271 ~~v~lI~ian~~-----~----------~--------~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~---  324 (517)
                      .+++||+++|.-     +          +        ...+.|.+.+| +. ..+.|.|++.+++..|+...+..+.   
T Consensus       700 ~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~R-l~-~~i~~~pl~~edi~~i~~~~l~~~~~~~  777 (854)
T 1qvr_A          700 RNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNR-LD-EIVVFRPLTKEQIRQIVEIQLSYLRARL  777 (854)
T ss_dssp             TTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHT-CS-BCCBCCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHHh-cC-eEEeCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            367899988851     0          1        12345667777 53 4789999999999999998775321   


Q ss_pred             -----cCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH
Q 010136          325 -----YIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMR  366 (517)
Q Consensus       325 -----~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~~~~  366 (517)
                           ...+++++++++++......|++|...+++++++..+..+..
T Consensus       778 ~~~~~~~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i  824 (854)
T 1qvr_A          778 AEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKI  824 (854)
T ss_dssp             HTTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHHHH
T ss_pred             HhCCceEEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHH
Confidence                 135899999999885322369999999999998876655543

>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=99.49  E-value=5.8e-13  Score=136.29  Aligned_cols=145  Identities=20%  Similarity=0.259  Sum_probs=93.9

Q ss_pred             eEEEEEeCcchhcccC------------chHHHHHhccCC-------CCCCcEEEEEEE-----CCCCcchhhccccccc
Q 010136          240 MMLIIADELDYLITRD------------RAVLHDLFMLTT-------FPFSRFILIGIA-----NAIDLADRFLPRLQSM  295 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~------------~~~L~~l~~~~~-------~~~~~v~lI~ia-----n~~~~~~~l~~~l~sr  295 (517)
                      ..++++||||.+....            |+.|..+++-.+       ...+++.+|+++     |.    ..+.|.+.+|
T Consensus       251 ~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~----~dlipel~~R  326 (444)
T 1g41_A          251 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARP----SDLIPELQGR  326 (444)
T ss_dssp             HCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCG----GGSCHHHHTT
T ss_pred             CCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEeccccccCCh----hhcchHHhcc
Confidence            4589999999997541            346777776421       234678889876     43    3356889998


Q ss_pred             CCCceEEEeCCCCHHHHHHHHHH---HH-----h--hhc--cCCCChhHHHHHHHHHHH-----HhCCHHHHHHHHHHHH
Q 010136          296 NCKPLVVTFRAYSKDQIIRILQE---RL-----M--ELS--YIVFQPQALELCARKVAA-----ASGDMRKALSVCRSAI  358 (517)
Q Consensus       296 ~~~~~~i~f~p~~~~e~~~IL~~---rl-----~--~~~--~~~~~~~ai~~ia~~~~~-----~~Gd~R~al~ll~~A~  358 (517)
                       | +.++.|++|+.+++..|+..   .+     .  +..  .-.|++++++.+++....     ..+++|..-.++..++
T Consensus       327 -~-~i~i~l~~lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~~~  404 (444)
T 1g41_A          327 -L-PIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLM  404 (444)
T ss_dssp             -C-CEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHH
T ss_pred             -c-ceeeeCCCCCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHHHH
Confidence             6 45799999999999999941   11     1  111  236899999999987543     3467887666666655


Q ss_pred             HHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          359 EILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       359 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      .-+..+--...        ...+              .|+.+.|...+......
T Consensus       405 ~~~~~~~~~~~--------~~~~--------------~i~~~~v~~~l~~~~~~  436 (444)
T 1g41_A          405 DKISFSASDMN--------GQTV--------------NIDAAYVADALGEVVEN  436 (444)
T ss_dssp             HHHHHHGGGCT--------TCEE--------------EECHHHHHHHHTTTTTC
T ss_pred             HHHHhhccccC--------CCeE--------------EEeHHHHHHhcCccccC
Confidence            44333221100        0111              68888888877655443

>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=99.49  E-value=5e-13  Score=131.41  Aligned_cols=170  Identities=11%  Similarity=0.120  Sum_probs=116.8

Q ss_pred             HHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC-CCCHHHHHHHHHHHhCCCCCC
Q 010136          137 LEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS-LTNTSEIFSKILLKLQPRKKL  215 (517)
Q Consensus       137 ~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~-~~s~~~i~~~i~~~l~~~~~~  215 (517)
                      ...|...+..+..++++|+||||+|||++++.+++.+..    .......++++++.. ..+...               
T Consensus         6 ~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~----~~~~~~d~~~l~~~~~~~~id~---------------   66 (305)
T 2gno_A            6 LETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEK----FPPKASDVLEIDPEGENIGIDD---------------   66 (305)
T ss_dssp             HHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHT----SCCCTTTEEEECCSSSCBCHHH---------------
T ss_pred             HHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCch----hhccCCCEEEEcCCcCCCCHHH---------------
Confidence            334444455455678999999999999999999986431    111124678888653 222222               


Q ss_pred             CCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccc
Q 010136          216 NGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQS  294 (517)
Q Consensus       216 ~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~s  294 (517)
                               +++++... ......+..|+||||+|.|....++.|...++.+   ...+++|++++.   +..+.+.++|
T Consensus        67 ---------ir~li~~~~~~p~~~~~kvviIdead~lt~~a~naLLk~LEep---~~~t~fIl~t~~---~~kl~~tI~S  131 (305)
T 2gno_A           67 ---------IRTIKDFLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEP---PEYAVIVLNTRR---WHYLLPTIKS  131 (305)
T ss_dssp             ---------HHHHHHHHTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSC---CTTEEEEEEESC---GGGSCHHHHT
T ss_pred             ---------HHHHHHHHhhccccCCceEEEeccHHHhCHHHHHHHHHHHhCC---CCCeEEEEEECC---hHhChHHHHc
Confidence                     22222211 1111244679999999999877778887777653   457777887874   6788999999


Q ss_pred             cCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          295 MNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       295 r~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      |     .+.|.|++.+++.++|..++ +     +++++++       ...||+|.|+++++...
T Consensus       132 R-----~~~f~~l~~~~i~~~L~~~~-~-----i~~~~~~-------~~~g~~~~al~~l~~~~  177 (305)
T 2gno_A          132 R-----VFRVVVNVPKEFRDLVKEKI-G-----DLWEELP-------LLERDFKTALEAYKLGA  177 (305)
T ss_dssp             T-----SEEEECCCCHHHHHHHHHHH-T-----THHHHCG-------GGGTCHHHHHHHHHHHH
T ss_pred             e-----eEeCCCCCHHHHHHHHHHHh-C-----CCHHHHH-------HHCCCHHHHHHHHHHHH
Confidence            7     68999999999999999876 1     4555542       25899999999986544

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.47  E-value=2.6e-13  Score=150.54  Aligned_cols=199  Identities=15%  Similarity=0.139  Sum_probs=130.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||+++++.+...|..    ...++++|+||||||||++|+.+++.+.............++.+++   ...+.   
T Consensus       180 d~iiG~~~~i~~l~~~l~~----~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~---g~~~~---  249 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSR----RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM---GTKYR---  249 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHC----SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------
T ss_pred             CCccCchHHHHHHHHHHhC----CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc---ccccc---
Confidence            5799999999998888654    4567899999999999999999999875311000111245677776   11110   


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                                    |. ....+..+|...   ....+.|||||       ...+....|...  .....+.+||++|..+
T Consensus       250 --------------G~-~e~~l~~~~~~~---~~~~~~iLfiD-------~~~~~~~~L~~~--l~~~~v~~I~at~~~~  302 (758)
T 3pxi_A          250 --------------GE-FEDRLKKVMDEI---RQAGNIILFID-------AAIDASNILKPS--LARGELQCIGATTLDE  302 (758)
T ss_dssp             ------------------CTTHHHHHHHH---HTCCCCEEEEC-------C--------CCC--TTSSSCEEEEECCTTT
T ss_pred             --------------ch-HHHHHHHHHHHH---HhcCCEEEEEc-------CchhHHHHHHHH--HhcCCEEEEeCCChHH
Confidence                          11 122344455421   13467899999       112222222222  2356789999998655


Q ss_pred             cch--hhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhh---ccCCCChhHHHHHHHHHHHHhC---CHHHHHHHHH
Q 010136          284 LAD--RFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMEL---SYIVFQPQALELCARKVAAASG---DMRKALSVCR  355 (517)
Q Consensus       284 ~~~--~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~---~~~~~~~~ai~~ia~~~~~~~G---d~R~al~ll~  355 (517)
                      +..  .+++++.+| |  +.|.|++++.+++.+||+..+..+   ....+++++++.+++....+.+   -+++|+++++
T Consensus       303 ~~~~~~~d~al~rR-f--~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~  379 (758)
T 3pxi_A          303 YRKYIEKDAALERR-F--QPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLID  379 (758)
T ss_dssp             THHHHTTCSHHHHS-E--EEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHH
T ss_pred             HHHHhhccHHHHhh-C--cEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHH
Confidence            322  468999998 7  689999999999999999665532   3456899999999987766543   3688999998


Q ss_pred             HHHHHHH
Q 010136          356 SAIEILE  362 (517)
Q Consensus       356 ~A~~~a~  362 (517)
                      .|+..+.
T Consensus       380 ~a~~~~~  386 (758)
T 3pxi_A          380 EAGSKVR  386 (758)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8876544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.46  E-value=2.2e-13  Score=142.28  Aligned_cols=213  Identities=15%  Similarity=0.093  Sum_probs=133.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ..++|+++.++.+...+..      +.+++|+||||||||+++++++..+..        ...+.+++|.- .++..++.
T Consensus        22 ~~ivGq~~~i~~l~~al~~------~~~VLL~GpPGtGKT~LAraLa~~l~~--------~~~f~~~~~~~-~t~~dL~G   86 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALS------GESVFLLGPPGIAKSLIARRLKFAFQN--------ARAFEYLMTRF-STPEEVFG   86 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHH------TCEEEEECCSSSSHHHHHHHGGGGBSS--------CCEEEEECCTT-CCHHHHHC
T ss_pred             hhhHHHHHHHHHHHHHHhc------CCeeEeecCchHHHHHHHHHHHHHHhh--------hhHHHHHHHhc-CCHHHhcC
Confidence            3579999988777666543      469999999999999999999876531        12466777753 35544321


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFIL  275 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~l  275 (517)
                      .    +...       . ... ...|..........+.|||||||+.+....+..|..+++...        .....+ +
T Consensus        87 ~----~~~~-------~-~~~-~g~~~~~~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i~G~~~~~~~~~-i  152 (500)
T 3nbx_X           87 P----LSIQ-------A-LKD-EGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKIPMRL-L  152 (500)
T ss_dssp             C----BC-------------------CBCCTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEECCCCE-E
T ss_pred             c----ccHH-------H-Hhh-chhHHhhhccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCcchhh-h
Confidence            1    1000       0 000 011210000000135699999999988777788888775311        112334 5


Q ss_pred             EEEECCCCcchhhcccccccCCCceEEEeCCCCH-HHHHHHHHHHHh----------------------hhccCCCChhH
Q 010136          276 IGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSK-DQIIRILQERLM----------------------ELSYIVFQPQA  332 (517)
Q Consensus       276 I~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~-~e~~~IL~~rl~----------------------~~~~~~~~~~a  332 (517)
                      |++||.+.-...+.+++.+| | ...+.+++++. ++...|+..+..                      ......+++++
T Consensus       153 I~ATN~lpe~~~~~~aLldR-F-~~~i~v~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~d~v  230 (500)
T 3nbx_X          153 VAASNELPEADSSLEALYDR-M-LIRLWLDKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLPDHV  230 (500)
T ss_dssp             EEEESSCCCTTCTTHHHHTT-C-CEEEECCSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCCHHH
T ss_pred             hhccccCCCccccHHHHHHH-H-HHHHHHHHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCchHH
Confidence            66688532222344678888 6 45788888876 677788875432                      11234678888


Q ss_pred             HHHHHHHHHH-------HhCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          333 LELCARKVAA-------ASGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       333 i~~ia~~~~~-------~~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                      ++++++.+..       ...+.|.++.+++.|...|..+++.
T Consensus       231 ~e~i~~l~~~lr~~r~~~~iS~R~~~~llr~A~A~A~l~gr~  272 (500)
T 3nbx_X          231 FELIFMLRQQLDKLPDAPYVSDRRWKKAIRLLQASAFFSGRS  272 (500)
T ss_dssp             HHHHHHHHHHHHHCSSSCCCCHHHHHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHhhcCCCCCccchhHHHHHHHHHHHHHhhcCCc
Confidence            9999887632       1347899999999998888888876

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.44  E-value=1e-13  Score=125.83  Aligned_cols=156  Identities=13%  Similarity=0.192  Sum_probs=95.3

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+.++||+.+++.+...+..    ....+++|+||||||||++++.+++.+.............++++++..+.      
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~----~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------   90 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSR----RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLI------   90 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTS----SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHH------
T ss_pred             cchhhcchHHHHHHHHHHhC----CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhh------
Confidence            45689999999888877643    45778999999999999999999988753110000112467777763321      


Q ss_pred             HHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcc-----c----CchHHHHHhccCCCCCCcE
Q 010136          203 SKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLIT-----R----DRAVLHDLFMLTTFPFSRF  273 (517)
Q Consensus       203 ~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~-----~----~~~~L~~l~~~~~~~~~~v  273 (517)
                          ....     . .......+..++....  ....+.||||||+|.+..     .    -.+.|..+++     ...+
T Consensus        91 ----~~~~-----~-~~~~~~~~~~~~~~~~--~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~-----~~~~  153 (187)
T 2p65_A           91 ----AGAK-----Y-RGDFEERLKSILKEVQ--DAEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLA-----RGEL  153 (187)
T ss_dssp             ----HHCC-----S-HHHHHHHHHHHHHHHH--HTTTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHH-----TTCS
T ss_pred             ----cCCC-----c-hhHHHHHHHHHHHHHH--hcCCceEEEEeCHHHhcccccccccchHHHHHHHHHHh-----cCCe
Confidence                0000     0 0001223444443211  234568999999999972     2    1234444442     2467


Q ss_pred             EEEEEECCCCcc--hhhcccccccCCCceEEEeCCCC
Q 010136          274 ILIGIANAIDLA--DRFLPRLQSMNCKPLVVTFRAYS  308 (517)
Q Consensus       274 ~lI~ian~~~~~--~~l~~~l~sr~~~~~~i~f~p~~  308 (517)
                      .+|+++|..++.  ..+++++.+| |  ..+.+++++
T Consensus       154 ~ii~~~~~~~~~~~~~~~~~l~~R-~--~~i~i~~p~  187 (187)
T 2p65_A          154 RCIGATTVSEYRQFIEKDKALERR-F--QQILVEQPS  187 (187)
T ss_dssp             CEEEEECHHHHHHHTTTCHHHHHH-E--EEEECCSCC
T ss_pred             eEEEecCHHHHHHHHhccHHHHHh-c--CcccCCCCC
Confidence            788888853321  2467899998 7  468887764

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.31  E-value=3.6e-13  Score=117.71  Aligned_cols=138  Identities=15%  Similarity=0.186  Sum_probs=91.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .++|++..++.+...+.....  ...+++|+||||||||++|+++......    .+   ..++ ++|....+..     
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~--~~~~vll~G~~GtGKt~lA~~i~~~~~~----~~---~~~v-~~~~~~~~~~-----   66 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE--TDIAVWLYGAPGTGRMTGARYLHQFGRN----AQ---GEFV-YRELTPDNAP-----   66 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT--CCSCEEEESSTTSSHHHHHHHHHHSSTT----TT---SCCE-EEECCTTTSS-----
T ss_pred             CceeCCHHHHHHHHHHHHHhC--CCCCEEEECCCCCCHHHHHHHHHHhCCc----cC---CCEE-EECCCCCcch-----
Confidence            578999999999999887653  5678999999999999999998765422    11   2467 9998764430     


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCc
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDL  284 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~  284 (517)
                                         .+...+...      ...+|||||+|.+....|..|..++..   ....+.+|+++|.. +
T Consensus        67 -------------------~~~~~~~~a------~~g~l~ldei~~l~~~~q~~Ll~~l~~---~~~~~~~I~~t~~~-~  117 (145)
T 3n70_A           67 -------------------QLNDFIALA------QGGTLVLSHPEHLTREQQYHLVQLQSQ---EHRPFRLIGIGDTS-L  117 (145)
T ss_dssp             -------------------CHHHHHHHH------TTSCEEEECGGGSCHHHHHHHHHHHHS---SSCSSCEEEEESSC-H
T ss_pred             -------------------hhhcHHHHc------CCcEEEEcChHHCCHHHHHHHHHHHhh---cCCCEEEEEECCcC-H
Confidence                               012233311      124799999999987777777777633   23456688888852 1


Q ss_pred             ch-----hhcccccccCCCceEEEeCCC
Q 010136          285 AD-----RFLPRLQSMNCKPLVVTFRAY  307 (517)
Q Consensus       285 ~~-----~l~~~l~sr~~~~~~i~f~p~  307 (517)
                      .+     .+.+.+..| +....|.++|+
T Consensus       118 ~~~~~~~~~~~~L~~r-l~~~~i~lPpL  144 (145)
T 3n70_A          118 VELAASNHIIAELYYC-FAMTQIACLPL  144 (145)
T ss_dssp             HHHHHHSCCCHHHHHH-HHHHEEECCCC
T ss_pred             HHHHHcCCCCHHHHHH-hcCCEEeCCCC
Confidence            11     233444454 44457888876

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.30  E-value=1.2e-13  Score=148.14  Aligned_cols=140  Identities=15%  Similarity=0.090  Sum_probs=98.0

Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCCC----------CCCcEEEEEEECCCCcch----------hhcccccccCCCce
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTTF----------PFSRFILIGIANAIDLAD----------RFLPRLQSMNCKPL  300 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~~----------~~~~v~lI~ian~~~~~~----------~l~~~l~sr~~~~~  300 (517)
                      .|+||||||.+....+..|..+++....          ...++.+|+++|...-..          .+.+.+.+| |.. 
T Consensus       393 gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~aLl~R-FDl-  470 (595)
T 3f9v_A          393 GIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPTILSR-FDL-  470 (595)
T ss_dssp             SEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSSSGGG-CSC-
T ss_pred             CcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCHHHHhh-CeE-
Confidence            5999999999988778888888764221          135788999999753111          577889998 644 


Q ss_pred             EEEeCCCCHHHHHHHHHHHHhhhc------------------------cCCCChhHHHHHHHHHHH------------Hh
Q 010136          301 VVTFRAYSKDQIIRILQERLMELS------------------------YIVFQPQALELCARKVAA------------AS  344 (517)
Q Consensus       301 ~i~f~p~~~~e~~~IL~~rl~~~~------------------------~~~~~~~ai~~ia~~~~~------------~~  344 (517)
                      .+.+.++...+...|+.+.+....                        ...+++++.+.+.+.+..            ..
T Consensus       471 ~~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~~l~~~y~~lR~~~~~~~~~~~~  550 (595)
T 3f9v_A          471 IFILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSPIL  550 (595)
T ss_dssp             CEEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCCCCTHHHHHHHHTTSSCSCCBCSSSCBC
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHhhccCCCcccc
Confidence            445555555445555554443110                        125677777777775532            45


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          345 GDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       345 Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      +++|.+..+++.|...|..+++.                            .|+.+|+.+|+.-+.
T Consensus       551 ~s~R~l~~lirla~a~A~l~~~~----------------------------~V~~~dv~~Ai~l~~  588 (595)
T 3f9v_A          551 ITPRQLEALIRISEAYAKMALKA----------------------------EVTREDAERAINIMR  588 (595)
T ss_dssp             SSTTTTTHHHHHHHHHHHTTSSC----------------------------CSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHhCcC----------------------------CCCHHHHHHHHHHHH
Confidence            78999999999999888877766                            899999999997654

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.26  E-value=4.9e-11  Score=128.63  Aligned_cols=138  Identities=19%  Similarity=0.203  Sum_probs=98.2

Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCC------------------CCCCcEEEEEEECCCCcchhhcccccccCCCc--e
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTT------------------FPFSRFILIGIANAIDLADRFLPRLQSMNCKP--L  300 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~------------------~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~--~  300 (517)
                      .+|||||++.|....|+.|..+++...                  ....++.||+++|.. ....+++.+.+| |..  .
T Consensus       203 gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~-~~~~l~~~l~~R-~~v~~i  280 (604)
T 3k1j_A          203 GVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLD-TVDKMHPALRSR-IRGYGY  280 (604)
T ss_dssp             SEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHH-HHHHSCHHHHHH-HHHHSE
T ss_pred             CEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHH-HHhhcCHHHHHH-hhccce
Confidence            499999999997767777877776311                  112467899988852 234678888888 531  3


Q ss_pred             EEEeCCC---CHHHHHHHHHHHHhhh----ccCCCChhHHHHHHHHHHHHhC-------CHHHHHHHHHHHHHHHHHHHH
Q 010136          301 VVTFRAY---SKDQIIRILQERLMEL----SYIVFQPQALELCARKVAAASG-------DMRKALSVCRSAIEILEAEMR  366 (517)
Q Consensus       301 ~i~f~p~---~~~e~~~IL~~rl~~~----~~~~~~~~ai~~ia~~~~~~~G-------d~R~al~ll~~A~~~a~~~~~  366 (517)
                      .+.|+++   +.+.+..++.......    ....+++++++.+.+......|       .+|.+.++++.|..+|..++.
T Consensus       281 ~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~llr~A~~~A~~~~~  360 (604)
T 3k1j_A          281 EVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRAAGDIAVKKGK  360 (604)
T ss_dssp             EEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHHHHHHHHHHHHTTC
T ss_pred             EeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHHHHHHHHHHHhcCc
Confidence            5666543   5556666665433222    2247899999999987766677       499999999999988877665


Q ss_pred             hhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHH
Q 010136          367 ESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSN  408 (517)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~  408 (517)
                      .                            .|+.+||.+|+..
T Consensus       361 ~----------------------------~I~~edv~~A~~~  374 (604)
T 3k1j_A          361 K----------------------------YVEREDVIEAVKM  374 (604)
T ss_dssp             S----------------------------SBCHHHHHHHHHH
T ss_pred             c----------------------------cccHHHHHHHHHh
Confidence            5                            7999999999854

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.25  E-value=2.9e-12  Score=111.69  Aligned_cols=136  Identities=7%  Similarity=-0.002  Sum_probs=92.4

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .++|++..++++.+.+.....  ...+++|+|+||||||++|++++....           .+++++|..+..  .    
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~--~~~~vll~G~~GtGKt~lA~~i~~~~~-----------~~~~~~~~~~~~--~----   65 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAK--RTSPVFLTGEAGSPFETVARYFHKNGT-----------PWVSPARVEYLI--D----   65 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHT--CSSCEEEEEETTCCHHHHHGGGCCTTS-----------CEECCSSTTHHH--H----
T ss_pred             CceeCCHHHHHHHHHHHHHhC--CCCcEEEECCCCccHHHHHHHHHHhCC-----------CeEEechhhCCh--H----
Confidence            478999999999999887654  456899999999999999999865431           488899976421  1    


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCC-C
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAI-D  283 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~-~  283 (517)
                                         .....+..    .  ...+|||||+|.+....|..|..+++...  ...+.+|+++|.. +
T Consensus        66 -------------------~~~~~~~~----a--~~~~l~lDei~~l~~~~q~~Ll~~l~~~~--~~~~~iI~~tn~~~~  118 (143)
T 3co5_A           66 -------------------MPMELLQK----A--EGGVLYVGDIAQYSRNIQTGITFIIGKAE--RCRVRVIASCSYAAG  118 (143)
T ss_dssp             -------------------CHHHHHHH----T--TTSEEEEEECTTCCHHHHHHHHHHHHHHT--TTTCEEEEEEEECTT
T ss_pred             -------------------hhhhHHHh----C--CCCeEEEeChHHCCHHHHHHHHHHHHhCC--CCCEEEEEecCCCHH
Confidence                               02233331    1  12489999999998777777777766532  3457788878742 1


Q ss_pred             -cchhhcccccccCCCceEEEeCCC
Q 010136          284 -LADRFLPRLQSMNCKPLVVTFRAY  307 (517)
Q Consensus       284 -~~~~l~~~l~sr~~~~~~i~f~p~  307 (517)
                       +...+.+.+..| +....|.+||+
T Consensus       119 ~~~~~~~~~L~~r-l~~~~i~lPpL  142 (143)
T 3co5_A          119 SDGISCEEKLAGL-FSESVVRIPPL  142 (143)
T ss_dssp             TC--CHHHHHHHH-SSSEEEEECCC
T ss_pred             HHHhCccHHHHHH-hcCcEEeCCCC
Confidence             111155667777 56678888886

>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=99.15  E-value=7.4e-10  Score=111.00  Aligned_cols=172  Identities=16%  Similarity=0.107  Sum_probs=118.6

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      .-.+..+|+||+|+||+++++.+++.+.+.    +...+.++.+++  ..+...+..                       
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~----~~~~~~~~~~~~--~~~~~~l~~-----------------------   66 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVAAAQ----GFEEHHTFSIDP--NTDWNAIFS-----------------------   66 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHHHHH----TCCEEEEEECCT--TCCHHHHHH-----------------------
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHHHhC----CCCeeEEEEecC--CCCHHHHHH-----------------------
Confidence            456788899999999999999999887642    221122334442  122222211                       


Q ss_pred             HHHHhhhccCCCceEEEEEeCcch-hcccCchHHHHHhccCCCCCCcEEEEEEECCCCc---chhhcccccccCCCceEE
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDY-LITRDRAVLHDLFMLTTFPFSRFILIGIANAIDL---ADRFLPRLQSMNCKPLVV  302 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~-L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~---~~~l~~~l~sr~~~~~~i  302 (517)
                      . ...  ..-.+...|++|||+|. +....++.|...++.+   ...+++|.+++..+-   ...+.+.+.+| +  ..+
T Consensus        67 ~-~~~--~plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p---~~~~~~il~~~~~~~~~~~~k~~~~i~sr-~--~~~  137 (343)
T 1jr3_D           67 L-CQA--MSLFASRQTLLLLLPENGPNAAINEQLLTLTGLL---HDDLLLIVRGNKLSKAQENAAWFTALANR-S--VQV  137 (343)
T ss_dssp             H-HHH--HHHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTC---BTTEEEEEEESCCCTTTTTSHHHHHHTTT-C--EEE
T ss_pred             H-hcC--cCCccCCeEEEEECCCCCCChHHHHHHHHHHhcC---CCCeEEEEEcCCCChhhHhhHHHHHHHhC-c--eEE
Confidence            1 110  00123457999999999 8766667777777643   345666666765442   34567888888 6  799


Q ss_pred             EeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Q 010136          303 TFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       303 ~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~  360 (517)
                      .|.+++..++...+..++... ...+++++++++++   ...||+|.+++.+.....+
T Consensus       138 ~~~~l~~~~l~~~l~~~~~~~-g~~i~~~a~~~l~~---~~~gdl~~~~~elekl~l~  191 (343)
T 1jr3_D          138 TCQTPEQAQLPRWVAARAKQL-NLELDDAANQVLCY---CYEGNLLALAQALERLSLL  191 (343)
T ss_dssp             EECCCCTTHHHHHHHHHHHHT-TCEECHHHHHHHHH---SSTTCHHHHHHHHHHHHHH
T ss_pred             EeeCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHH---HhchHHHHHHHHHHHHHHh
Confidence            999999999999999888743 23689999999987   5789999999999887654

>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=98.96  E-value=1.8e-09  Score=109.96  Aligned_cols=212  Identities=16%  Similarity=0.140  Sum_probs=134.5

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ..++|....++++.+.+.....  ...+++|+|++|||||++++.+......       ..-.|+.+||..+.. ..+- 
T Consensus       137 ~~~ig~s~~m~~l~~~i~~~a~--~~~~vli~Ge~GtGK~~lAr~ih~~s~r-------~~~~fv~v~~~~~~~-~~~~-  205 (387)
T 1ny5_A          137 EEYVFESPKMKEILEKIKKISC--AECPVLITGESGVGKEVVARLIHKLSDR-------SKEPFVALNVASIPR-DIFE-  205 (387)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHTT--CCSCEEEECSTTSSHHHHHHHHHHHSTT-------TTSCEEEEETTTSCH-HHHH-
T ss_pred             hhhhhccHHhhHHHHHHHHhcC--CCCCeEEecCCCcCHHHHHHHHHHhcCC-------CCCCeEEEecCCCCH-HHHH-
Confidence            4678888888888888887543  4567899999999999999987654321       113699999998642 2222 


Q ss_pred             HHHHHhCCCCCCC-CCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEE
Q 010136          204 KILLKLQPRKKLN-GSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFI  274 (517)
Q Consensus       204 ~i~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~  274 (517)
                         .+|.+...+. .|...  .-..+|..    ..  ..+||||||+.|....|..|..+++...        .....+-
T Consensus       206 ---~elfg~~~g~~tga~~--~~~g~~~~----a~--~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~r  274 (387)
T 1ny5_A          206 ---AELFGYEKGAFTGAVS--SKEGFFEL----AD--GGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVR  274 (387)
T ss_dssp             ---HHHHCBCTTSSTTCCS--CBCCHHHH----TT--TSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCE
T ss_pred             ---HHhcCCCCCCCCCccc--ccCCceee----CC--CcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEE
Confidence               2232222211 11100  00112321    11  2489999999998877877777765421        1124677


Q ss_pred             EEEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHH
Q 010136          275 LIGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARKVA  341 (517)
Q Consensus       275 lI~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~  341 (517)
                      +|++||. ++.+     .+.+.+..| +....|.+||+..  +++..++.+.+..+      ....+++++++.+..+  
T Consensus       275 ii~at~~-~l~~~~~~g~fr~dl~~r-l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~--  350 (387)
T 1ny5_A          275 ILAATNR-NIKELVKEGKFREDLYYR-LGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSY--  350 (387)
T ss_dssp             EEEEESS-CHHHHHHTTSSCHHHHHH-HTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHS--
T ss_pred             EEEeCCC-CHHHHHHcCCccHHHHHh-hcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhC--
Confidence            8888884 2211     123333444 4456899999864  78777777655422      1235899999988763  


Q ss_pred             HHhCCHHHHHHHHHHHHHHH
Q 010136          342 AASGDMRKALSVCRSAIEIL  361 (517)
Q Consensus       342 ~~~Gd~R~al~ll~~A~~~a  361 (517)
                      ...|++|..-+++++|+.++
T Consensus       351 ~wpGNvreL~~~i~~~~~~~  370 (387)
T 1ny5_A          351 PWYGNVRELKNVIERAVLFS  370 (387)
T ss_dssp             CCTTHHHHHHHHHHHHHHHC
T ss_pred             CCCcHHHHHHHHHHHHHHhC
Confidence            46899999999999988654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=98.95  E-value=1.7e-07  Score=100.83  Aligned_cols=306  Identities=12%  Similarity=0.060  Sum_probs=152.1

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      .|..++||+.+++.|...+...  .+..+.+.|+|++|+|||++|..++.........  ++ ..++++++... +...+
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~--f~-~~v~wv~~~~~-~~~~~  195 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKL--KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGC--FP-GGVHWVSVGKQ-DKSGL  195 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTS--TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHH--CT-TCEEEEEEESC-CHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcc--cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhh--CC-CceEEEECCCC-chHHH
Confidence            4457999999999999987642  2345689999999999999999998653210111  11 13566666544 33333


Q ss_pred             HHH---HHHHhCCCCCC-CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          202 FSK---ILLKLQPRKKL-NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       202 ~~~---i~~~l~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +..   +...++..... .........+...+... .....++++||||+++..     ..+    ++.   ...+.||.
T Consensus       196 ~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~~~~LLVLDdv~~~-----~~l----~~l---~~~~~ilv  262 (591)
T 1z6t_A          196 LMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRIL-MLRKHPRSLLILDDVWDS-----WVL----KAF---DSQCQILL  262 (591)
T ss_dssp             HHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHH-HHHTCTTCEEEEEEECCH-----HHH----HTT---CSSCEEEE
T ss_pred             HHHHHHHHHHhccccccccCCCCCHHHHHHHHHHH-HccCCCCeEEEEeCCCCH-----HHH----HHh---cCCCeEEE
Confidence            333   34455421111 11111123333222211 112335799999999753     222    221   12344555


Q ss_pred             EECCCCcchhhcccccccCCCceEEEe---CCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHH
Q 010136          278 IANAIDLADRFLPRLQSMNCKPLVVTF---RAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVC  354 (517)
Q Consensus       278 ian~~~~~~~l~~~l~sr~~~~~~i~f---~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll  354 (517)
                      +|.....    ...+.     ...+.+   .+++.++..+++..++..- ...+ ++....+++    ..|....|+.++
T Consensus       263 TsR~~~~----~~~~~-----~~~~~v~~l~~L~~~ea~~L~~~~~~~~-~~~~-~~~~~~i~~----~~~G~PLal~~~  327 (591)
T 1z6t_A          263 TTRDKSV----TDSVM-----GPKYVVPVESSLGKEKGLEILSLFVNMK-KADL-PEQAHSIIK----ECKGSPLVVSLI  327 (591)
T ss_dssp             EESCGGG----GTTCC-----SCEEEEECCSSCCHHHHHHHHHHHHTSC-GGGS-CTHHHHHHH----HHTTCHHHHHHH
T ss_pred             ECCCcHH----HHhcC-----CCceEeecCCCCCHHHHHHHHHHHhCCC-cccc-cHHHHHHHH----HhCCCcHHHHHH
Confidence            5663221    11111     122333   5899999999999876431 1112 333444443    445555666554


Q ss_pred             HHHHHHHHHHH---HhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHHHH
Q 010136          355 RSAIEILEAEM---RESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCS  431 (517)
Q Consensus       355 ~~A~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL~a  431 (517)
                      -..+.-.....   ........    ......          ...-....+..++        ...+..||...+.+|..
T Consensus       328 a~~l~~~~~~w~~~l~~l~~~~----~~~~~~----------~~~~~~~~l~~~l--------~~s~~~L~~~~~~~l~~  385 (591)
T 1z6t_A          328 GALLRDFPNRWEYYLKQLQNKQ----FKRIRK----------SSSYDYEALDEAM--------SISVEMLREDIKDYYTD  385 (591)
T ss_dssp             HHHHHHSTTCHHHHHHHHHSCC----CCCSSC----------CCSSCCHHHHHHH--------HHHHHTSCTTTHHHHHH
T ss_pred             HHHHhcCchhHHHHHHHHHHhH----HHHhhh----------ccccchHHHHHHH--------HHHHHhCCHHHHHHHHH
Confidence            33221000000   00000000    000000          0001112333333        23456788888888775


Q ss_pred             HHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEe
Q 010136          432 AVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTL  495 (517)
Q Consensus       432 l~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l  495 (517)
                      +..+..  ...++...+...    .      .....++..+++.|.+.+||.....|....|.+
T Consensus       386 la~f~~--~~~i~~~~l~~l----~------~~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~~~~  437 (591)
T 1z6t_A          386 LSILQK--DVKVPTKVLCIL----W------DMETEEVEDILQEFVNKSLLFCDRNGKSFRYYL  437 (591)
T ss_dssp             GGGCCT--TCCEEHHHHHHH----H------TCCHHHHHHHHHHHHHTTSSEEEEETTEEEEEC
T ss_pred             ccccCC--CCccCHHHHHHH----h------ccCHHHHHHHHHHHHhCcCeEEecCCCccEEEE
Confidence            544321  234555444221    1      123456789999999999998654444334444

>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=98.89  E-value=2.2e-09  Score=108.45  Aligned_cols=211  Identities=14%  Similarity=0.174  Sum_probs=134.3

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ..++|....+.++...+.....  ....++|+|++||||+++++.+......       . -.++.+||..+... .+..
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~--~~~~vli~GesGtGKe~lAr~ih~~s~r-------~-~~fv~vnc~~~~~~-~~~~  197 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAK--SKAPVLITGESGTGKEIVARLIHRYSGR-------K-GAFVDLNCASIPQE-LAES  197 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHT--SCSCEEEECCTTSSHHHHHHHHHHHHCC-------C-SCEEEEESSSSCTT-THHH
T ss_pred             ccccccchHHHHHHhhhhhhhc--cchhheEEeCCCchHHHHHHHHHHhccc-------c-CCcEEEEcccCChH-HHHH
Confidence            3578888888888887776543  4567999999999999999987654321       1 13999999987432 2222


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCC--------CCCcEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTF--------PFSRFIL  275 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~--------~~~~v~l  275 (517)
                      .++..-.+...   +.. .. -...|..    ..+  .+||||||+.|....|..|..+++....        ....+-+
T Consensus       198 ~lfg~~~g~~t---ga~-~~-~~g~~~~----a~~--gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~ri  266 (368)
T 3dzd_A          198 ELFGHEKGAFT---GAL-TR-KKGKLEL----ADQ--GTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRV  266 (368)
T ss_dssp             HHHEECSCSSS---SCC-CC-EECHHHH----TTT--SEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEE
T ss_pred             HhcCccccccC---Ccc-cc-cCChHhh----cCC--CeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEE
Confidence            22221111111   110 00 0012221    122  3799999999988878877777754211        1235678


Q ss_pred             EEEECCCCcch-----hhcccccccCCCceEEEeCCCCH--HHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHH
Q 010136          276 IGIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYSK--DQIIRILQERLMEL------SYIVFQPQALELCARKVAA  342 (517)
Q Consensus       276 I~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~~--~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~  342 (517)
                      |++||. ++..     .+.+.+..| +....|.+||+..  +++..++.+.+..+      ....+++++++.+..+  .
T Consensus       267 i~at~~-~l~~~v~~g~fr~dL~~r-l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~--~  342 (368)
T 3dzd_A          267 ISATNK-NLEEEIKKGNFREDLYYR-LSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMKQ--E  342 (368)
T ss_dssp             EEEESS-CHHHHHHTTSSCHHHHHH-HTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHTC--C
T ss_pred             EEecCC-CHHHHHHcCCccHHHHHH-hCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhC--C
Confidence            888874 3322     223345555 5556899999977  78877777665422      2245899999998763  3


Q ss_pred             HhCCHHHHHHHHHHHHHH
Q 010136          343 ASGDMRKALSVCRSAIEI  360 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~  360 (517)
                      ..|++|...+++++|+.+
T Consensus       343 wpGNvreL~n~i~~~~~~  360 (368)
T 3dzd_A          343 WKGNVRELKNLIERAVIL  360 (368)
T ss_dssp             CTTHHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHHHh
Confidence            579999999999988754

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.87  E-value=7.5e-09  Score=125.89  Aligned_cols=164  Identities=17%  Similarity=0.165  Sum_probs=108.6

Q ss_pred             HHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCC
Q 010136          133 QKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPR  212 (517)
Q Consensus       133 ~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~  212 (517)
                      ..+...++...+.  .+.+++++||||||||++++.++..+         ....++.+|+...++...+...+...+...
T Consensus      1253 T~R~~~ll~~~l~--~~~~vLL~GPpGtGKT~la~~~l~~~---------~~~~~~~infsa~ts~~~~~~~i~~~~~~~ 1321 (2695)
T 4akg_A         1253 TIKHEKIFYDLLN--SKRGIILCGPPGSGKTMIMNNALRNS---------SLYDVVGINFSKDTTTEHILSALHRHTNYV 1321 (2695)
T ss_dssp             HHHHHHHHHHHHH--HTCEEEEECSTTSSHHHHHHHHHHSC---------SSCEEEEEECCTTCCHHHHHHHHHHHBCCE
T ss_pred             hHHHHHHHHHHHH--CCCeEEEECCCCCCHHHHHHHHHhcC---------CCCceEEEEeecCCCHHHHHHHHHHHhhhc
Confidence            3344555555555  34799999999999999998775442         225788999999888777655554444211


Q ss_pred             CCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC------chHHHHHhccCC----CCC-----CcEEEEE
Q 010136          213 KKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD------RAVLHDLFMLTT----FPF-----SRFILIG  277 (517)
Q Consensus       213 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~------~~~L~~l~~~~~----~~~-----~~v~lI~  277 (517)
                      ... .|.        .+.   ....++.+||||||+|......      .+.|.++++...    ...     .++.+||
T Consensus      1322 ~~~-~g~--------~~~---P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIa 1389 (2695)
T 4akg_A         1322 TTS-KGL--------TLL---PKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVG 1389 (2695)
T ss_dssp             EET-TTE--------EEE---EBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEE
T ss_pred             ccc-CCc--------ccc---CCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEE
Confidence            100 000        000   0113456899999998754432      367788776421    111     3589999


Q ss_pred             EECCCC--cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh
Q 010136          278 IANAID--LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME  322 (517)
Q Consensus       278 ian~~~--~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~  322 (517)
                      ++|...  -...+++|+.+| |  ..+.++.++.+++..|+...+.+
T Consensus      1390 A~Npp~~gGR~~l~~rllRr-f--~vi~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1390 ACNPPTDPGRIPMSERFTRH-A--AILYLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             EECCTTSTTCCCCCHHHHTT-E--EEEECCCCTTTHHHHHHHHHHHH
T ss_pred             ecCCCccCCCccCChhhhhe-e--eEEEeCCCCHHHHHHHHHHHHHH
Confidence            999642  113578999998 7  78999999999999999988864

>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=98.83  E-value=5.1e-07  Score=105.29  Aligned_cols=308  Identities=11%  Similarity=0.056  Sum_probs=164.4

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH--HH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT--SE  200 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~--~~  200 (517)
                      +..++||++++++|.+.|...  ......+.|+|++|+|||++|+.++.......  ..+. -.+++++.......  ..
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~--~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~--~~~~-~~~~~v~~~~~~~~~~~~  197 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKL--NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLE--GCFS-GGVHWVSIGKQDKSGLLM  197 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTT--TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHT--TTST-TCEEEEECCSCCHHHHHH
T ss_pred             CceeccHHHHHHHHHHHHhhc--cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHH--hhCC-CeEEEEEECCcCchHHHH
Confidence            357999999999999998642  23456788999999999999999886643211  1111 13567777664332  33


Q ss_pred             HHHHHHHHhCCCCCCCC-CCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEE
Q 010136          201 IFSKILLKLQPRKKLNG-STSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       201 i~~~i~~~l~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ia  279 (517)
                      .+..+...+........ .....+.+...+... ...+.++.+||||+++..     ..+..   .  .+  ...||.+|
T Consensus       198 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~~~~LlvlDd~~~~-----~~~~~---~--~~--~~~ilvTt  264 (1249)
T 3sfz_A          198 KLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVL-MLRKHPRSLLILDDVWDP-----WVLKA---F--DN--QCQILLTT  264 (1249)
T ss_dssp             HHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHH-TSSSSCSCEEEEESCCCH-----HHHTT---T--CS--SCEEEEEE
T ss_pred             HHHHHHHHhhhhcccccCCCCCHHHHHHHHHHH-HhccCCCEEEEEecCCCH-----HHHHh---h--cC--CCEEEEEc
Confidence            46667777765432211 112244444444422 223345789999999864     12211   1  12  23455556


Q ss_pred             CCCCcchhhcccccccCCCceEEEeCC-CCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          280 NAIDLADRFLPRLQSMNCKPLVVTFRA-YSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       280 n~~~~~~~l~~~l~sr~~~~~~i~f~p-~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      .......    ....   ....+.+.+ ++.++-.+++..+.... ...+. +....|    ....|.+..||.++-..+
T Consensus       265 R~~~~~~----~~~~---~~~~~~~~~~l~~~~a~~l~~~~~~~~-~~~~~-~~~~~i----~~~~~glPLal~~~~~~l  331 (1249)
T 3sfz_A          265 RDKSVTD----SVMG---PKHVVPVESGLGREKGLEILSLFVNMK-KEDLP-AEAHSI----IKECKGSPLVVSLIGALL  331 (1249)
T ss_dssp             SSTTTTT----TCCS---CBCCEECCSSCCHHHHHHHHHHHHTSC-STTCC-THHHHH----HHHTTTCHHHHHHHHHHH
T ss_pred             CCHHHHH----hhcC---CceEEEecCCCCHHHHHHHHHHhhCCC-hhhCc-HHHHHH----HHHhCCCHHHHHHHHHHh
Confidence            6432211    1111   224677775 99999999998776421 11222 233333    345677777776653322


Q ss_pred             HHHHH---HHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccChhHHHhccCCHHHHHHHHHHHHH
Q 010136          359 EILEA---EMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKSPVVDTIKSLPQHQQILLCSAVKF  435 (517)
Q Consensus       359 ~~a~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~~~~i~~L~~~~k~iL~al~~l  435 (517)
                      .--..   +.........    ...+..          ...-..+.+..++..        .+..||.++|.++.-+..+
T Consensus       332 ~~~~~~~~~~l~~l~~~~----~~~~~~----------~~~~~~~~~~~~l~~--------s~~~L~~~~~~~~~~l~~f  389 (1249)
T 3sfz_A          332 RDFPNRWAYYLRQLQNKQ----FKRIRK----------SSSYDYEALDEAMSI--------SVEMLREDIKDYYTDLSIL  389 (1249)
T ss_dssp             HHSSSCHHHHHHHHHSCC----CCCSSC----------TTCTTHHHHHHHHHH--------HHHTSCTTTHHHHHHGGGS
T ss_pred             hcChhHHHHHHHHHhhhh----hhhccc----------ccccchHHHHHHHHH--------HHHhCCHHHHHHHHHhCcc
Confidence            10000   0000000000    000000          001122334444433        4567888888777644433


Q ss_pred             HhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEe
Q 010136          436 FRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTL  495 (517)
Q Consensus       436 ~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l  495 (517)
                      .  +...+....+....          .....+..++++.|.+.+||.....|+...|++
T Consensus       390 ~--~~~~i~~~~~~~~~----------~~~~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~  437 (1249)
T 3sfz_A          390 Q--KDVKVPTKVLCVLW----------DLETEEVEDILQEFVNKSLLFCNRNGKSFCYYL  437 (1249)
T ss_dssp             C--TTCCEEHHHHHHHH----------TCCHHHHHHHHHHHHHTTSCEEEESSSSEEEEC
T ss_pred             C--CCCeeCHHHHHHHh----------CCCHHHHHHHHHHHHhccceEEecCCCceEEEe
Confidence            2  22345555553321          223567889999999999998765565445555

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.77  E-value=2.6e-09  Score=93.42  Aligned_cols=103  Identities=19%  Similarity=0.219  Sum_probs=68.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+..++|+||+|+|||++++.++..+..    .|   ..++++++..+...                            .
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~----~g---~~~~~~~~~~~~~~----------------------------~   79 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALE----AG---KNAAYIDAASMPLT----------------------------D   79 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHT----TT---CCEEEEETTTSCCC----------------------------G
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHh----cC---CcEEEEcHHHhhHH----------------------------H
Confidence            5678999999999999999999988753    12   35788988765332                            0


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECC-CCcchhhccccccc
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANA-IDLADRFLPRLQSM  295 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~-~~~~~~l~~~l~sr  295 (517)
                      ++        ..+.+|+|||++.+....++.|+.+++.....+..+++| ++|. ....... +++.||
T Consensus        80 ~~--------~~~~lLilDE~~~~~~~~~~~l~~li~~~~~~g~~~iii-ts~~~p~~l~~~-~~L~SR  138 (149)
T 2kjq_A           80 AA--------FEAEYLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLL-GSEYTPQQLVIR-EDLRTR  138 (149)
T ss_dssp             GG--------GGCSEEEEESTTCCCSHHHHHHHHHHHHHHHHTCCEEEE-EESSCTTTSSCC-HHHHHH
T ss_pred             HH--------hCCCEEEEeCccccChHHHHHHHHHHHHHHHcCCcEEEE-ECCCCHHHcccc-HHHHHH
Confidence            01        135689999999986655777888876532222222333 4663 2222223 788888

>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=98.76  E-value=1.9e-07  Score=99.50  Aligned_cols=196  Identities=14%  Similarity=0.114  Sum_probs=117.6

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHH----HHHHHHHhcCCCCceEEEEeCCCCC--CHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQH----YLVDWAKEAGLQQPEVFSINCTSLT--NTSE  200 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~----~l~~~~~~~~~~~~~~v~vn~~~~~--s~~~  200 (517)
                      +||++++++|.++|... .......+.|+|++|+|||++|+.+++    .+..     .+.  ..++++.....  +...
T Consensus       131 ~GR~~~~~~l~~~L~~~-~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~-----~F~--~~~wv~vs~~~~~~~~~  202 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEM-CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGI-----NYD--SIVWLKDSGTAPKSTFD  202 (549)
T ss_dssp             CCCHHHHHHHHHHHHHH-TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTT-----TBS--EEEEEECCCCSTTHHHH
T ss_pred             CCchHHHHHHHHHHhcc-cCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhc-----cCC--cEEEEEECCCCCCCHHH
Confidence            59999999999998653 123456788999999999999999986    2211     111  46777766653  5788


Q ss_pred             HHHHHHHHhCCCCC---CCC-CCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEE
Q 010136          201 IFSKILLKLQPRKK---LNG-STSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILI  276 (517)
Q Consensus       201 i~~~i~~~l~~~~~---~~~-~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI  276 (517)
                      ++..|+.+++....   ... .......+...+....  ..++.++||||+++....     +    .|...++++  ||
T Consensus       203 ~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L--~~~kr~LlVLDdv~~~~~-----~----~~~~~~gs~--il  269 (549)
T 2a5y_B          203 LFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNAL--IDRPNTLFVFDDVVQEET-----I----RWAQELRLR--CL  269 (549)
T ss_dssp             HHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHH--TTSTTEEEEEEEECCHHH-----H----HHHHHTTCE--EE
T ss_pred             HHHHHHHHHhcCcccccccccccccHHHHHHHHHHHH--cCCCcEEEEEECCCCchh-----h----cccccCCCE--EE
Confidence            99999999976522   111 1111223333333211  122368999999987521     1    122113333  44


Q ss_pred             EEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHH
Q 010136          277 GIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVC  354 (517)
Q Consensus       277 ~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll  354 (517)
                      .+|....    +.....   .....+.+.+++.++..+++..+...-   . .+.....+++.+....|....|+.++
T Consensus       270 vTTR~~~----v~~~~~---~~~~~~~l~~L~~~ea~~Lf~~~a~~~---~-~~~~~~~~~~~I~~~c~GlPLAl~~~  336 (549)
T 2a5y_B          270 VTTRDVE----ISNAAS---QTCEFIEVTSLEIDECYDFLEAYGMPM---P-VGEKEEDVLNKTIELSSGNPATLMMF  336 (549)
T ss_dssp             EEESBGG----GGGGCC---SCEEEEECCCCCHHHHHHHHHHTSCCC---C---CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             EEcCCHH----HHHHcC---CCCeEEECCCCCHHHHHHHHHHHhcCC---C-CchhHHHHHHHHHHHhCCChHHHHHH
Confidence            4455321    111111   122468999999999999999764221   1 12344555555666777777888766

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.75  E-value=1.7e-08  Score=92.89  Aligned_cols=118  Identities=18%  Similarity=0.225  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCC
Q 010136          133 QKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPR  212 (517)
Q Consensus       133 ~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~  212 (517)
                      ++.+..++........+.+++|+||||||||+++++++..+...    +   ..+++++|.      .++..+...+.. 
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~----~---~~~~~~~~~------~~~~~~~~~~~~-  103 (202)
T 2w58_A           38 IRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR----N---VSSLIVYVP------ELFRELKHSLQD-  103 (202)
T ss_dssp             HHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT----T---CCEEEEEHH------HHHHHHHHC----
T ss_pred             HHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEEEhH------HHHHHHHHHhcc-
Confidence            33444444432221123789999999999999999999887531    2   357788774      233333332211 


Q ss_pred             CCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc--Cch-HHHHHhccCCCCCCcEEEEEEECC
Q 010136          213 KKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR--DRA-VLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       213 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~-~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                           +.. .. +...+.        ...+|||||++.....  .+. .|+.+++.....  ...+|.++|.
T Consensus       104 -----~~~-~~-~~~~~~--------~~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~--~~~~i~tsn~  158 (202)
T 2w58_A          104 -----QTM-NE-KLDYIK--------KVPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFE--NLPTFFTSNF  158 (202)
T ss_dssp             -----CCC-HH-HHHHHH--------HSSEEEEEEECCC---CCGGGTTHHHHHHHHHHT--TCCEEEEESS
T ss_pred             -----chH-HH-HHHHhc--------CCCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhC--CCCEEEEcCC
Confidence                 111 22 222222        1248999999775433  244 455565442111  2235666774

>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=98.71  E-value=6.1e-09  Score=105.90  Aligned_cols=223  Identities=14%  Similarity=0.006  Sum_probs=132.1

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCC-----CCeEEEEcCCCCcHHHHHHHH-HHHHHHHHHhcCCCCceEEEEeCCCCCCHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEK-----AGSLYVCGCPGTGKSLSMEKV-QHYLVDWAKEAGLQQPEVFSINCTSLTNTS  199 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~-----~~~lli~G~pGtGKT~l~~~v-~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~  199 (517)
                      ++|.+.....|.-.    +-++.     .-++||.|+||| ||.+++++ .+.+.           ..+|+.+.. .+..
T Consensus       215 I~G~e~vK~aLll~----L~GG~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~p-----------R~~ft~g~~-ss~~  277 (506)
T 3f8t_A          215 LPGAEEVGKMLALQ----LFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLAP-----------RGVYVDLRR-TELT  277 (506)
T ss_dssp             STTCHHHHHHHHHH----HTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTCS-----------SEEEEEGGG-CCHH
T ss_pred             cCCCHHHHHHHHHH----HcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhCC-----------CeEEecCCC-CCcc
Confidence            89998754333333    33221     228999999999 99999999 55431           344554432 2222


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC------CCCCcE
Q 010136          200 EIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT------FPFSRF  273 (517)
Q Consensus       200 ~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~------~~~~~v  273 (517)
                      .+...    +...    .| ...+ --.++    . +.  .-++|||||+.+..+.|..|.+.++..+      .-..++
T Consensus       278 gLt~s----~r~~----tG-~~~~-~G~l~----L-Ad--gGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf  340 (506)
T 3f8t_A          278 DLTAV----LKED----RG-WALR-AGAAV----L-AD--GGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARC  340 (506)
T ss_dssp             HHSEE----EEES----SS-EEEE-ECHHH----H-TT--TSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCC
T ss_pred             CceEE----EEcC----CC-cccC-CCeeE----E-cC--CCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCe
Confidence            22111    1000    01 0000 00011    1 11  2489999999998888888888876521      123578


Q ss_pred             EEEEEECCCCcch--------hhcccccccCCCceEEEeC-------------CCCHHHHHHHHHHHHhhhccCCCChhH
Q 010136          274 ILIGIANAIDLAD--------RFLPRLQSMNCKPLVVTFR-------------AYSKDQIIRILQERLMELSYIVFQPQA  332 (517)
Q Consensus       274 ~lI~ian~~~~~~--------~l~~~l~sr~~~~~~i~f~-------------p~~~~e~~~IL~~rl~~~~~~~~~~~a  332 (517)
                      .||+++|.....+        .+.+.+.+| |....+...             .++.+++.+++...-.......+++++
T Consensus       341 ~VIAA~NP~~~yd~~~s~~~~~Lp~alLDR-FDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea  419 (506)
T 3f8t_A          341 AVLAAINPGEQWPSDPPIARIDLDQDFLSH-FDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEA  419 (506)
T ss_dssp             EEEEEECCCC--CCSCGGGGCCSCHHHHTT-CSEEEETTC--------------CCHHHHHHHHHHHHHHCSCCEECHHH
T ss_pred             EEEEEeCcccccCCCCCccccCCChHHhhh-eeeEEEecCCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHH
Confidence            9999999865111        455677788 633222222             234455555444222111135788998


Q ss_pred             HHHHHHHHHHH---------------hCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccc
Q 010136          333 LELCARKVAAA---------------SGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQV  397 (517)
Q Consensus       333 i~~ia~~~~~~---------------~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V  397 (517)
                      .+++.+.+...               .-.+|..+.+++.|-..|..+++.                            .|
T Consensus       420 ~~yI~~~y~~tR~~~~~~~~~~~~~~giSpR~leaLiRlA~A~A~L~gR~----------------------------~V  471 (506)
T 3f8t_A          420 RKRLEHWYETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRLSD----------------------------DV  471 (506)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCCCCCHHHHHHHHHHHHHHHHHTTCS----------------------------EE
T ss_pred             HHHHHHHHHHHhcCcccccccccccccccHHHHHHHHHHHHHHHHHcCcC----------------------------CC
Confidence            88887765431               125788888999999889988887                            89


Q ss_pred             cHHHHHHHHHHhcc
Q 010136          398 RVDHMAVALSNTFK  411 (517)
Q Consensus       398 t~~~v~~a~~~~~~  411 (517)
                      +.+||..|+.-+..
T Consensus       472 ~~eDV~~Ai~L~~~  485 (506)
T 3f8t_A          472 EPEDVDIAAELVDW  485 (506)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999876543

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.70  E-value=1.3e-08  Score=91.83  Aligned_cols=122  Identities=12%  Similarity=0.138  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHh
Q 010136          130 EDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKL  209 (517)
Q Consensus       130 e~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l  209 (517)
                      ...++.+..++... ....+.+++|+||||||||++++.++..+...   .|.   .++++++      ..++..+...+
T Consensus        20 ~~~~~~~~~~~~~~-~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~---~g~---~~~~~~~------~~~~~~~~~~~   86 (180)
T 3ec2_A           20 NRALLTIRVFVHNF-NPEEGKGLTFVGSPGVGKTHLAVATLKAIYEK---KGI---RGYFFDT------KDLIFRLKHLM   86 (180)
T ss_dssp             HHHHHHHHHHHHSC-CGGGCCEEEECCSSSSSHHHHHHHHHHHHHHH---SCC---CCCEEEH------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cccCCCEEEEECCCCCCHHHHHHHHHHHHHHH---cCC---eEEEEEH------HHHHHHHHHHh
Confidence            33344444444332 22346789999999999999999999887522   232   3455554      33333333333


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchh--cccCchHHHHHhccCCCCCCcEEEEEEECCC
Q 010136          210 QPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYL--ITRDRAVLHDLFMLTTFPFSRFILIGIANAI  282 (517)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L--~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~  282 (517)
                      ....     .  .. +...+.        .+.+|||||++..  ....+..|+.+++.....  ...+|.+||..
T Consensus        87 ~~~~-----~--~~-~~~~~~--------~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~--~~~ii~tsn~~  143 (180)
T 3ec2_A           87 DEGK-----D--TK-FLKTVL--------NSPVLVLDDLGSERLSDWQRELISYIITYRYNN--LKSTIITTNYS  143 (180)
T ss_dssp             HHTC-----C--SH-HHHHHH--------TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHT--TCEEEEECCCC
T ss_pred             cCch-----H--HH-HHHHhc--------CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHc--CCCEEEEcCCC
Confidence            1110     0  11 222222        3569999999853  233446677777553211  23455667753

>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=98.38  E-value=1.1e-05  Score=98.78  Aligned_cols=143  Identities=13%  Similarity=0.020  Sum_probs=90.1

Q ss_pred             HHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC
Q 010136          134 KKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK  213 (517)
Q Consensus       134 ~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~  213 (517)
                      ++....+..++.  ...++++.||+|||||.+++.+++.++.          .++.+||....+...+            
T Consensus       632 dr~~~tl~~Al~--~~~~~~l~GpaGtGKTe~vk~LA~~lg~----------~~v~~nc~e~ld~~~l------------  687 (2695)
T 4akg_A          632 LIGFATLTDSLH--QKYGGCFFGPAGTGKTETVKAFGQNLGR----------VVVVFNCDDSFDYQVL------------  687 (2695)
T ss_dssp             HHHHHHHHHHHH--TTCEEEEECCTTSCHHHHHHHHHHTTTC----------CCEEEETTSSCCHHHH------------
T ss_pred             HHHHHHHHHHHH--hCCCCcccCCCCCCcHHHHHHHHHHhCC----------cEEEEECCCCCChhHh------------
Confidence            444455555554  2356788999999999999999998863          6889999998776553            


Q ss_pred             CCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHh----cc----------C---CCCCCcEEEE
Q 010136          214 KLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLF----ML----------T---TFPFSRFILI  276 (517)
Q Consensus       214 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~----~~----------~---~~~~~~v~lI  276 (517)
                              ...+..+..        ....+++||++.+......++...+    +.          .   -.....+.++
T Consensus       688 --------g~~~~g~~~--------~Gaw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vf  751 (2695)
T 4akg_A          688 --------SRLLVGITQ--------IGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVF  751 (2695)
T ss_dssp             --------HHHHHHHHH--------HTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEE
T ss_pred             --------hHHHHHHHh--------cCCEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEE
Confidence                    111122221        1368999999998765444432211    10          0   0112356667


Q ss_pred             EEECCCC-cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHH
Q 010136          277 GIANAID-LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQER  319 (517)
Q Consensus       277 ~ian~~~-~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~r  319 (517)
                      .+.|.-. -...+...++++ |  +.+.+..++.+.+.+|+...
T Consensus       752 iT~NPgy~g~~eLP~~Lk~~-F--r~v~m~~Pd~~~i~ei~l~s  792 (2695)
T 4akg_A          752 ITLNPGYNGRSELPENLKKS-F--REFSMKSPQSGTIAEMILQI  792 (2695)
T ss_dssp             EEECCCSSSSCCCCHHHHTT-E--EEEECCCCCHHHHHHHHHHH
T ss_pred             EEeCCCccCcccccHHHHhh-e--EEEEeeCCCHHHHHHHHHHh
Confidence            7677421 011244567776 7  68999999999999987643

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.36  E-value=1.1e-06  Score=107.85  Aligned_cols=163  Identities=15%  Similarity=0.244  Sum_probs=105.9

Q ss_pred             HHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC
Q 010136          135 KVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK  214 (517)
Q Consensus       135 ~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~  214 (517)
                      +...++...+.  ...+++|+||||||||+++..++..+.         ...++.+|++..++...+...+-..+.....
T Consensus      1292 R~~~ll~~ll~--~~~pvLL~GptGtGKT~li~~~L~~l~---------~~~~~~infS~~Tta~~l~~~~e~~~e~~~~ 1360 (3245)
T 3vkg_A         1292 RHVDVLHAWLS--EHRPLILCGPPGSGKTMTLTSTLRAFP---------DFEVVSLNFSSATTPELLLKTFDHHCEYKRT 1360 (3245)
T ss_dssp             HHHHHHHHHHH--TTCCCEEESSTTSSHHHHHHHHGGGCT---------TEEEEEECCCTTCCHHHHHHHHHHHEEEEEC
T ss_pred             HHHHHHHHHHH--CCCcEEEECCCCCCHHHHHHHHHHhCC---------CCceEEEEeeCCCCHHHHHHHHhhcceEEec
Confidence            34445555554  457899999999999999877665432         2468899999999888776655443311000


Q ss_pred             CCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc---Cc---hHHHHHhccC---CC------CCCcEEEEEEE
Q 010136          215 LNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR---DR---AVLHDLFMLT---TF------PFSRFILIGIA  279 (517)
Q Consensus       215 ~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~---~~---~~L~~l~~~~---~~------~~~~v~lI~ia  279 (517)
                      ...|.        ++.   ....++..|+||||++.-...   .|   +.|.++++..   ..      .-..+.+|++.
T Consensus      1361 ~~~G~--------~~~---p~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaam 1429 (3245)
T 3vkg_A         1361 PSGET--------VLR---PTQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGAC 1429 (3245)
T ss_dssp             TTSCE--------EEE---ESSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEE
T ss_pred             cCCCc--------ccC---CCcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEc
Confidence            00000        000   111356789999999865433   12   5677777641   10      11467899998


Q ss_pred             CCCC--cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh
Q 010136          280 NAID--LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME  322 (517)
Q Consensus       280 n~~~--~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~  322 (517)
                      |...  -...+.+|+.++ |  ..+.++.++.+++..|....+..
T Consensus      1430 nPp~~gGr~~l~~Rf~r~-F--~vi~i~~ps~esL~~If~til~~ 1471 (3245)
T 3vkg_A         1430 NPPTDAGRVQLTHRFLRH-A--PILLVDFPSTSSLTQIYGTFNRA 1471 (3245)
T ss_dssp             CCTTSTTCCCCCHHHHTT-C--CEEECCCCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCccCCHHHHhh-c--eEEEeCCCCHHHHHHHHHHHHHH
Confidence            8652  223477899888 7  68999999999999998766653

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.36  E-value=2.4e-07  Score=91.03  Aligned_cols=54  Identities=22%  Similarity=0.357  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH-HHHHhcCCCCceEEEEeCC
Q 010136          132 EQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV-DWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       132 e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~-~~~~~~~~~~~~~v~vn~~  193 (517)
                      .++.+..++...-. ....+++|+||||||||+++.+++..+. .    .+   ..++++++.
T Consensus       136 ~~~~~~~~i~~~~~-~~~~~lll~G~~GtGKT~La~aia~~~~~~----~g---~~v~~~~~~  190 (308)
T 2qgz_A          136 AFSAILDFVEQYPS-AEQKGLYLYGDMGIGKSYLLAAMAHELSEK----KG---VSTTLLHFP  190 (308)
T ss_dssp             HHHHHHHHHHHCSC-SSCCEEEEECSTTSSHHHHHHHHHHHHHHH----SC---CCEEEEEHH
T ss_pred             HHHHHHHHHHhccc-cCCceEEEECCCCCCHHHHHHHHHHHHHHh----cC---CcEEEEEHH
Confidence            33344444444211 1357999999999999999999999876 3    22   357777764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.34  E-value=3.8e-07  Score=82.74  Aligned_cols=37  Identities=30%  Similarity=0.351  Sum_probs=27.1

Q ss_pred             HHHHHhhccC-CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          138 EFCKKNLEEE-KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       138 ~~L~~~l~~~-~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..|...+.+. ...+++|+||||||||+++.++++.+.
T Consensus        46 ~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           46 GALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3344444432 235799999999999999999988763

>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=98.27  E-value=3.2e-06  Score=80.24  Aligned_cols=134  Identities=13%  Similarity=0.058  Sum_probs=79.5

Q ss_pred             HHHHHHHHhhccC-C-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCC
Q 010136          135 KVLEFCKKNLEEE-K-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPR  212 (517)
Q Consensus       135 ~l~~~L~~~l~~~-~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~  212 (517)
                      .+..++..++.+. . .++++|+||||||||+++.++++.+.           -+-.+|....                 
T Consensus        88 ~~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~-----------l~G~vn~~~~-----------------  139 (267)
T 1u0j_A           88 YAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP-----------FYGCVNWTNE-----------------  139 (267)
T ss_dssp             HHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS-----------CEEECCTTCS-----------------
T ss_pred             HHHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhc-----------ccceeecccc-----------------
Confidence            3556677777764 2 45799999999999999999987632           1222332110                 


Q ss_pred             CCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC----C-C-----CCCcEEEEEEECCC
Q 010136          213 KKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT----T-F-----PFSRFILIGIANAI  282 (517)
Q Consensus       213 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~----~-~-----~~~~v~lI~ian~~  282 (517)
                           ..        .|.     ......|++.||... ....++.+..+++-.    . .     .-...-+|.++|..
T Consensus       140 -----~f--------~l~-----~~~~k~i~l~Ee~~~-~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~  200 (267)
T 1u0j_A          140 -----NF--------PFN-----DCVDKMVIWWEEGKM-TAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTN  200 (267)
T ss_dssp             -----SC--------TTG-----GGSSCSEEEECSCCE-ETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSC
T ss_pred             -----cc--------ccc-----cccccEEEEeccccc-hhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCC
Confidence                 00        011     111224566666654 445567788888621    0 0     00122345557852


Q ss_pred             Ccc--------hhhcccccccCCCceEEEeC--------CCCHHHHHHHHHH
Q 010136          283 DLA--------DRFLPRLQSMNCKPLVVTFR--------AYSKDQIIRILQE  318 (517)
Q Consensus       283 ~~~--------~~l~~~l~sr~~~~~~i~f~--------p~~~~e~~~IL~~  318 (517)
                      -..        +...+.|+|| +  ..+.|.        +++.++....+.-
T Consensus       201 i~~~~~g~~~s~~~~~~L~sR-~--~~f~F~~~~p~~~~~lt~~~~~~f~~w  249 (267)
T 1u0j_A          201 MCAVIDGNSTTFEHQQPLQDR-M--FKFELTRRLDHDFGKVTKQEVKDFFRW  249 (267)
T ss_dssp             TTCEEETTEEECTTHHHHHTT-E--EEEECCSCCCTTSCCCCHHHHHHHHHH
T ss_pred             cccccccCccchhhhHHHhhh-E--EEEECCCcCCcccCCCCHHHHHHHHHH
Confidence            111        2345678888 6  688998        8999999999883

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.17  E-value=3.4e-05  Score=85.85  Aligned_cols=169  Identities=12%  Similarity=0.090  Sum_probs=98.9

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHH--HHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHY--LVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~--l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      ..+||+.++++|.+.|...   ...+.+.|+|++|+|||++|+.+++.  +.....      ..+++++.....+...++
T Consensus       129 ~~VGRe~eLeeL~elL~~~---d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd------~gV~WVsVs~~~d~~~IL  199 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLEL---RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD------FKIFWLNLKNCNSPETVL  199 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHC---CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHS------SCEEEEECCCSSSHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhcc---CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCC------CcEEEEEeCCCCCHHHHH
Confidence            3599999999999998752   23678999999999999999999863  332221      237888887777777777


Q ss_pred             HHHHHHhCCC---CCCCCC--CCH---HHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEE
Q 010136          203 SKILLKLQPR---KKLNGS--TSP---LQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFI  274 (517)
Q Consensus       203 ~~i~~~l~~~---~~~~~~--~~~---~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~  274 (517)
                      ..|...+...   ......  ...   .+.+...+.........++++||||+++..     +.+..+-     ++++  
T Consensus       200 ~~Ll~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~-----eqLe~f~-----pGSR--  267 (1221)
T 1vt4_I          200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA-----KAWNAFN-----LSCK--  267 (1221)
T ss_dssp             HHHHHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH-----HHHHHHH-----SSCC--
T ss_pred             HHHHHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH-----HHHHhhC-----CCeE--
Confidence            7777654211   110000  111   122222222111112456799999999872     3333331     3344  


Q ss_pred             EEEEECCCCcchhhcccccccCCCceEEEeC----CCCHHHHHHHHHHHH
Q 010136          275 LIGIANAIDLADRFLPRLQSMNCKPLVVTFR----AYSKDQIIRILQERL  320 (517)
Q Consensus       275 lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~----p~~~~e~~~IL~~rl  320 (517)
                      ||.+|......    ..+...  ....+.++    +++.+|..+++..++
T Consensus       268 ILVTTRd~~Va----~~l~g~--~vy~LeL~d~dL~LS~eEA~eLF~~~~  311 (1221)
T 1vt4_I          268 ILLTTRFKQVT----DFLSAA--TTTHISLDHHSMTLTPDEVKSLLLKYL  311 (1221)
T ss_dssp             EEEECSCSHHH----HHHHHH--SSCEEEECSSSSCCCHHHHHHHHHHHH
T ss_pred             EEEeccChHHH----HhcCCC--eEEEecCccccCCcCHHHHHHHHHHHc
Confidence            33335532211    111111  11245555    799999999998874

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.06  E-value=2.3e-06  Score=78.23  Aligned_cols=140  Identities=13%  Similarity=0.136  Sum_probs=66.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHH-hcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC--CCCCCCC-HHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAK-EAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK--KLNGSTS-PLQYL  225 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~-~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~--~~~~~~~-~~~~l  225 (517)
                      -..+++|+||+|||+.+...+........ ..|..  .+.+.|+..+..... +     .+....  ....... ....+
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r--~v~~~~~~gL~~~~~-~-----~~~~k~~~~~~~~~~~~~~~~   77 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMANDEMFKPDENGIR--RKVFTNIKGLKIPHT-Y-----IETDAKKLPKSTDEQLSAHDM   77 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCC--CCEEECCTTBCSCCE-E-----EECCTTTCSSCCSSCEEGGGH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCce--EEEEecCCCcccccc-c-----cchhhhhccccCcccccHHHH
Confidence            36789999999999998775443210000 12211  234555554321110 0     000000  0000000 01223


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcccC---chHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEE
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITRD---RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVV  302 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~---~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i  302 (517)
                      .+.+.    ...++..||||||++.+....   .+.+.-+..+.......+.+|.+++.   +..++..++.| + ...+
T Consensus        78 ~~~~~----~~~~~~~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r~~~~~iil~tq~---~~~l~~~lr~r-i-~~~~  148 (199)
T 2r2a_A           78 YEWIK----KPENIGSIVIVDEAQDVWPARSAGSKIPENVQWLNTHRHQGIDIFVLTQG---PKLLDQNLRTL-V-RKHY  148 (199)
T ss_dssp             HHHTT----SGGGTTCEEEETTGGGTSBCCCTTCCCCHHHHGGGGTTTTTCEEEEEESC---GGGBCHHHHTT-E-EEEE
T ss_pred             HHHhh----ccccCceEEEEEChhhhccCccccchhHHHHHHHHhcCcCCeEEEEECCC---HHHHhHHHHHH-h-heEE
Confidence            33321    013346899999999995322   22222222222233445566777885   55666677776 4 2356


Q ss_pred             EeCC
Q 010136          303 TFRA  306 (517)
Q Consensus       303 ~f~p  306 (517)
                      +|.+
T Consensus       149 ~l~~  152 (199)
T 2r2a_A          149 HIAS  152 (199)
T ss_dssp             EEEE
T ss_pred             EEcC
Confidence            6655

>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=98.04  E-value=1.8e-05  Score=82.13  Aligned_cols=60  Identities=20%  Similarity=0.227  Sum_probs=39.0

Q ss_pred             hhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          115 EALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       115 ~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..|.+.|.|-.+-+..++++.....+...+..+. ++++|.|+||||||+++..++..+..
T Consensus        12 ~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~   71 (459)
T 3upu_A           12 SGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALIS   71 (459)
T ss_dssp             ---------CCSSCCCHHHHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCCccccCCCccccCCHHHHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            3455667777777666666666666555555433 49999999999999999999988865

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.82  E-value=0.0019  Score=79.99  Aligned_cols=126  Identities=13%  Similarity=0.098  Sum_probs=79.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYS  230 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~  230 (517)
                      +..+.||+|||||.+++.+++.++.          .++.+||....+...+                        .++|.
T Consensus       606 gg~~~GPaGtGKTet~k~La~~lgr----------~~~vfnC~~~~d~~~~------------------------g~i~~  651 (3245)
T 3vkg_A          606 GGNPFGPAGTGKTETVKALGSQLGR----------FVLVFCCDEGFDLQAM------------------------SRIFV  651 (3245)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTC----------CEEEEECSSCCCHHHH------------------------HHHHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHhCC----------eEEEEeCCCCCCHHHH------------------------HHHHh
Confidence            4468899999999999999998873          5788899887654432                        22222


Q ss_pred             hhhccCCCceEEEEEeCcchhcccCchHHHHHhc--------c---CCCC-------CCcEEEEEEECCCCcc--hhhcc
Q 010136          231 QKLHSSVMKMMLIIADELDYLITRDRAVLHDLFM--------L---TTFP-------FSRFILIGIANAIDLA--DRFLP  290 (517)
Q Consensus       231 ~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~--------~---~~~~-------~~~v~lI~ian~~~~~--~~l~~  290 (517)
                      ...   . .....++|||+.+......++.+.+.        .   ....       +..+.++.+.|. .+.  ..+..
T Consensus       652 G~~---~-~GaW~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNp-gY~gr~eLP~  726 (3245)
T 3vkg_A          652 GLC---Q-CGAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNP-GYAGRSNLPD  726 (3245)
T ss_dssp             HHH---H-HTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCC-CGGGCCCSCH
T ss_pred             hHh---h-cCcEEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCC-CccCcccChH
Confidence            100   1 12467899999986543333322111        0   0111       234566665664 222  23556


Q ss_pred             cccccCCCceEEEeCCCCHHHHHHHHHH
Q 010136          291 RLQSMNCKPLVVTFRAYSKDQIIRILQE  318 (517)
Q Consensus       291 ~l~sr~~~~~~i~f~p~~~~e~~~IL~~  318 (517)
                      .++++ |  +.+.+..++.+.+.+|+..
T Consensus       727 nLk~l-F--r~v~m~~Pd~~~i~ei~L~  751 (3245)
T 3vkg_A          727 NLKKL-F--RSMAMIKPDREMIAQVMLY  751 (3245)
T ss_dssp             HHHTT-E--EEEECCSCCHHHHHHHHHH
T ss_pred             HHHhh-c--EEEEEeCCCHHHHHHHHHH
Confidence            77777 7  6799999999999998763

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.79  E-value=1.1e-05  Score=74.84  Aligned_cols=93  Identities=13%  Similarity=-0.012  Sum_probs=50.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+..++++|++|+||||++..++..+...    +   ..+++++......   ....++..++.......-.. ...+..
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~----g---~kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~-~~~i~~   79 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYA----D---VKYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVES-APEILN   79 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHT----T---CCEEEEEECCCGG---GCSSCCCCCCCSSCCEEESS-THHHHH
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhc----C---CEEEEEEeccCch---HHHHHHHhcCCCccccccCC-HHHHHH
Confidence            45678899999999999999988776542    2   2466665443211   11123333321111000011 233444


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcc
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .+.+..  ....+.+|+|||++.|..
T Consensus        80 ~i~~~~--~~~~~dvViIDEaQ~l~~  103 (223)
T 2b8t_A           80 YIMSNS--FNDETKVIGIDEVQFFDD  103 (223)
T ss_dssp             HHHSTT--SCTTCCEEEECSGGGSCT
T ss_pred             HHHHHh--hCCCCCEEEEecCccCcH
Confidence            443211  234567999999998754

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=97.77  E-value=2.8e-05  Score=75.68  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      +..++|+||||||||+++..++..
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            446799999999999999999876

>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=97.58  E-value=0.00027  Score=63.25  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=21.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+.|.||+|+||||+++.++..+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999998874

>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=97.58  E-value=0.00032  Score=74.62  Aligned_cols=104  Identities=22%  Similarity=0.240  Sum_probs=58.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .+.++|.|+||||||+++..++..+...    +   ..++.+ +...    .....+.+.++..         ...+..+
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~----g---~~Vl~~-ApT~----~Aa~~L~e~~~~~---------a~Tih~l  262 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESL----G---LEVGLC-APTG----KAARRLGEVTGRT---------ASTVHRL  262 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHT----T---CCEEEE-ESSH----HHHHHHHHHHTSC---------EEEHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhc----C---CeEEEe-cCcH----HHHHHhHhhhccc---------HHHHHHH
Confidence            5789999999999999999998877642    2   234433 3321    2222333333211         0112222


Q ss_pred             HHhh------hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          229 YSQK------LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       229 ~~~~------~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      +...      .........+|||||+..+.   ...+..|+.... .+.+++++|
T Consensus       263 l~~~~~~~~~~~~~~~~~dvlIIDEasml~---~~~~~~Ll~~~~-~~~~lilvG  313 (574)
T 3e1s_A          263 LGYGPQGFRHNHLEPAPYDLLIVDEVSMMG---DALMLSLLAAVP-PGARVLLVG  313 (574)
T ss_dssp             TTEETTEESCSSSSCCSCSEEEECCGGGCC---HHHHHHHHTTSC-TTCEEEEEE
T ss_pred             HcCCcchhhhhhcccccCCEEEEcCccCCC---HHHHHHHHHhCc-CCCEEEEEe
Confidence            2100      00112244699999999884   356666766543 456777776

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.48  E-value=0.00014  Score=65.52  Aligned_cols=26  Identities=12%  Similarity=0.041  Sum_probs=21.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +...+++|++|+|||+++..++..+.
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~~   28 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIYK   28 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34678999999999999987776654

>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=97.42  E-value=0.00091  Score=61.42  Aligned_cols=45  Identities=13%  Similarity=0.092  Sum_probs=32.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIF  202 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~  202 (517)
                      .+..++|+|+||+|||++++.++.  .     .+   -.++|++.....+...+.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~--~-----~~---~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL--L-----SG---KKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH--H-----HC---SEEEEEESSCCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH--H-----cC---CcEEEEECCCCCCHHHHH
Confidence            355789999999999999999987  1     11   368889887644554443

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.40  E-value=0.00043  Score=64.13  Aligned_cols=40  Identities=18%  Similarity=0.159  Sum_probs=30.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+..++|+|++|+|||++++.++..+...    +   -.+++++...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~----~---~~v~~~~~~~   61 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGLRD----G---DPCIYVTTEE   61 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHH----T---CCEEEEESSS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHC----C---CeEEEEEccc
Confidence            35578899999999999999998776532    1   2467777644

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.38  E-value=0.00023  Score=84.61  Aligned_cols=91  Identities=14%  Similarity=0.039  Sum_probs=55.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTSPLQY  224 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~~~~~  224 (517)
                      ++.+++|+||||||||+++.+++.+...    .|   ..++++++.....+..     +..++.....   .......+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~----~G---~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~ 1493 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQR----EG---KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQA 1493 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHT----TT---CCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH----cC---CcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHH
Confidence            4678999999999999999999876543    23   2588898887655544     3344311100   001111233


Q ss_pred             HHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          225 LQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       225 l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ++.+..   ..+...+.+|||||++.+..
T Consensus      1494 l~~~~~---lvr~~~~~lVVIDsi~al~p 1519 (2050)
T 3cmu_A         1494 LEICDA---LARSGAVDVIVVDSVAALTP 1519 (2050)
T ss_dssp             HHHHHH---HHHHTCCSEEEESCGGGCCC
T ss_pred             HHHHHH---HHhcCCCCEEEEcChhHhcc
Confidence            332222   11245678999999987664

>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=97.37  E-value=0.00082  Score=72.09  Aligned_cols=27  Identities=30%  Similarity=0.487  Sum_probs=24.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+.++|.|+||||||+++..++..+..
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l~~  190 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAALIQ  190 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            578999999999999999999888764

>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=97.27  E-value=0.00019  Score=84.33  Aligned_cols=91  Identities=15%  Similarity=0.066  Sum_probs=59.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCC---CHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGST---SPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~---~~~~~l  225 (517)
                      +..++||||||||||+++++++.+-...    |.   ..++|++.....  .++.   ..++-....+.+.   ..++.+
T Consensus      1082 g~~~l~~G~~g~GKT~la~~~~~~~~~~----g~---~~~fi~~~~~~~--~~~~---~~~G~d~~~~~~~~~~~~e~~l 1149 (1706)
T 3cmw_A         1082 GRIVEIYGPESSGKTTLTLQVIAAAQRE----GK---TCAFIDAEHALD--PIYA---RKLGVDIDNLLCSQPDTGEQAL 1149 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT----TC---CEEEECTTSCCC--HHHH---HHTTCCGGGCEEECCSSHHHHH
T ss_pred             CCEEEEEcCCCCChHHHHHHHHHHhhhc----CC---ceeEEEcccchH--HHHH---HHhCCCHHHHhhccccchHHHH
Confidence            3359999999999999999998765432    22   478888866543  3332   4444322222111   136667


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                      +.++.   .++...+++||+||+|.|...
T Consensus      1150 ~~~~~---~ar~~~~~~i~~d~~~al~~~ 1175 (1706)
T 3cmw_A         1150 EICDA---LARSGAVDVIVVDSVAALTPK 1175 (1706)
T ss_dssp             HHHHH---HHHHTCCSEEEESCGGGCCCH
T ss_pred             HHHHH---HHHhcCCeEEEeCchHhcCcc
Confidence            66664   234567899999999988765

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.23  E-value=0.0015  Score=60.27  Aligned_cols=145  Identities=13%  Similarity=0.115  Sum_probs=73.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCC-HHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTS-PLQYL  225 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~-~~~~l  225 (517)
                      -++++.|+||+|||+++-.++..+...    |.   .++.+......+....  .+...+......   ..+.. ....+
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~----G~---~V~v~d~D~q~~~~~~--al~~gl~~~~~~~~~~~~~~~~e~~l   77 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQ----GV---RVMAGVVETHGRAETE--ALLNGLPQQPLLRTEYRGMTLEEMDL   77 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHT----TC---CEEEEECCCTTCHHHH--HHHTTSCBCCCEEEEETTEEEEECCH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC----CC---CEEEEEeCCCCChhHH--HHhcCccccCcceeecCCcccccccH
Confidence            469999999999999999998887642    32   4666666554443321  122222111000   00000 01123


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhccc--CchHHHHHhccCCCCCCcEEEEEEECCCCc---------------chhh
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITR--DRAVLHDLFMLTTFPFSRFILIGIANAIDL---------------ADRF  288 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~--~~~~L~~l~~~~~~~~~~v~lI~ian~~~~---------------~~~l  288 (517)
                      ...+.       .++-+++|||+-+....  ....+++.+...  -.+.+-++.++|-..+               .+++
T Consensus        78 ~~~L~-------~~pdlvIVDElG~~~~~~~r~~~~~qDV~~~--l~sgidVitT~Nlqh~esl~d~v~~itg~~v~e~v  148 (228)
T 2r8r_A           78 DALLK-------AAPSLVLVDELAHTNAPGSRHTKRWQDIQEL--LAAGIDVYTTVNVQHLESLNDQVRGITGVQVRETL  148 (228)
T ss_dssp             HHHHH-------HCCSEEEESCTTCBCCTTCSSSBHHHHHHHH--HHTTCEEEEEEEGGGBGGGHHHHHHHHSCCCCSCB
T ss_pred             HHHHh-------cCCCEEEEeCCCCCCcccchhHHHHHHHHHH--HcCCCCEEEEccccccccHHHHHHHHcCCCcCCcC
Confidence            33332       13569999998875222  112222222221  1234557777773211               1112


Q ss_pred             cccccccCCCceEEEeCCCCHHHHHHH
Q 010136          289 LPRLQSMNCKPLVVTFRAYSKDQIIRI  315 (517)
Q Consensus       289 ~~~l~sr~~~~~~i~f~p~~~~e~~~I  315 (517)
                      ..++... .  ..|.+-..+++++.+-
T Consensus       149 pd~~~~~-a--~~v~lvD~~p~~l~~r  172 (228)
T 2r8r_A          149 PDWVLQE-A--FDLVLIDLPPRELLER  172 (228)
T ss_dssp             CHHHHHT-C--SEEEEBCCCHHHHHHH
T ss_pred             ccHHHhh-C--CeEEEecCCHHHHHHH
Confidence            2222222 2  4788888899885543

>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=97.14  E-value=0.00088  Score=66.55  Aligned_cols=90  Identities=14%  Similarity=0.097  Sum_probs=53.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC---CCCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK---LNGSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~---~~~~~~~~~~l  225 (517)
                      +..++|+||||+|||+++..++..+...    +   -.++|++........     .+..++....   ........+.+
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~----g---g~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l  128 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKM----G---GVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQAL  128 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc----C---CeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHH
Confidence            4578899999999999999999876531    1   257899887665543     3444432211   01112222222


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                       ..+....  ....+.+++||.+..+..
T Consensus       129 -~~~~~l~--~~~~~dlvVIDSi~~l~~  153 (356)
T 3hr8_A          129 -EIVDELV--RSGVVDLIVVDSVAALVP  153 (356)
T ss_dssp             -HHHHHHH--HTSCCSEEEEECTTTCCC
T ss_pred             -HHHHHHh--hhcCCCeEEehHhhhhcC
Confidence             2222111  134567999999988864

>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=97.12  E-value=0.0032  Score=64.18  Aligned_cols=131  Identities=15%  Similarity=0.120  Sum_probs=73.1

Q ss_pred             HHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccC---------CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC
Q 010136          112 AVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEE---------KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL  182 (517)
Q Consensus       112 ~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~---------~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~  182 (517)
                      ..++.+....++..+-.++..++.+.+.|...+...         .+..+++.|++|+||||++..++..+...    | 
T Consensus        51 ~v~~~~~~~~~~~~~~~~~~v~~~v~~eL~~~L~~~~~~~~~~~~~~~vI~lvG~~GsGKTTt~~kLA~~l~~~----G-  125 (433)
T 3kl4_A           51 KIKERLNKEKPPSVLERKEWFISIVYDELSKLFGGDKEPNVNPTKLPFIIMLVGVQGSGKTTTAGKLAYFYKKR----G-  125 (433)
T ss_dssp             HHHHHHHHSCCCTTCCHHHHHHHHHHHHHHHHHCSSSCCCCSCCSSSEEEEECCCTTSCHHHHHHHHHHHHHHT----T-
T ss_pred             HHHHHHhcccccccCChHHHHHHHHHHHHHHhcCccccccccccCCCeEEEEECCCCCCHHHHHHHHHHHHHHc----C-
Confidence            333333334445555556666666666666655431         24578899999999999999999887642    2 


Q ss_pred             CCceEEEEeCCCCCCH-HHHHHHHHHHhCCCCCC-CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          183 QQPEVFSINCTSLTNT-SEIFSKILLKLQPRKKL-NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       183 ~~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                        .++..+.|...... ..-+......++..... ..+..+.......+..   .....+-+|+||....+.
T Consensus       126 --~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~---a~~~~~DvvIIDTaGr~~  192 (433)
T 3kl4_A          126 --YKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDI---FVKNKMDIIIVDTAGRHG  192 (433)
T ss_dssp             --CCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHH---TTTTTCSEEEEEECCCSS
T ss_pred             --CeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHH---HHhcCCCEEEEECCCCcc
Confidence              24666666554321 22222233333322111 1223344444444442   122355788999997764

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.12  E-value=0.0018  Score=64.61  Aligned_cols=91  Identities=9%  Similarity=0.046  Sum_probs=54.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC---CCCCCCHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK---LNGSTSPLQY  224 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~---~~~~~~~~~~  224 (517)
                      .+..++|+|+||+|||+++..++..+...    +   ..++|++........  +   +..++....   ...... .+.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~----g---~~vlyi~~E~s~~~~--~---a~~~g~d~~~l~i~~~~~-~e~  139 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKA----G---GTCAFIDAEHALDPV--Y---ARALGVNTDELLVSQPDN-GEQ  139 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCCCCHH--H---HHHTTCCGGGCEEECCSS-HHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHC----C---CeEEEEECCCChhHH--H---HHHcCCCHHHceeecCCc-HHH
Confidence            35578999999999999999998776431    2   258899887644433  1   334432211   000112 233


Q ss_pred             HHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          225 LQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       225 l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      +...+...  .....+.+||||.+..+..
T Consensus       140 ~l~~l~~l--~~~~~~~lVVIDsl~~l~~  166 (366)
T 1xp8_A          140 ALEIMELL--VRSGAIDVVVVDSVAALTP  166 (366)
T ss_dssp             HHHHHHHH--HTTTCCSEEEEECTTTCCC
T ss_pred             HHHHHHHH--HhcCCCCEEEEeChHHhcc
Confidence            33333311  1234567999999999874

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.12  E-value=0.002  Score=60.08  Aligned_cols=102  Identities=11%  Similarity=0.034  Sum_probs=53.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC-----C--CCCCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK-----K--LNGSTS  220 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~-----~--~~~~~~  220 (517)
                      .+..+.|+||||+|||++++.++...... ...+...-.++|+++........+. .++..++...     .  ......
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~-~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~  100 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLP-IDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFN  100 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSC-GGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCc-hhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCC
Confidence            35678999999999999999998742110 0000011368999987744444432 3334442210     0  000111


Q ss_pred             HHH---HHHHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          221 PLQ---YLQNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       221 ~~~---~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                      ..+   .+..+.. ..  ....+.+|+|||+..+...
T Consensus       101 ~~~~~~~~~~~~~-~~--~~~~~~lliiD~~~~~~~~  134 (243)
T 1n0w_A          101 TDHQTQLLYQASA-MM--VESRYALLIVDSATALYRT  134 (243)
T ss_dssp             HHHHHHHHHHHHH-HH--HHSCEEEEEEETSSGGGC-
T ss_pred             HHHHHHHHHHHHH-HH--hcCCceEEEEeCchHHHHH
Confidence            111   1111111 11  1346789999999987643

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.01  E-value=0.0048  Score=62.87  Aligned_cols=122  Identities=19%  Similarity=0.178  Sum_probs=69.5

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhcc--------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLEE--------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~~--------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .++..+-..+..++.+.+.|...+..        ..+..++++|++|+||||++..++..+..    .|   .++..+.|
T Consensus        64 ~v~~~~~~~~~v~~~l~~eL~~~L~~~~~~~~~~~~p~vIlivG~~G~GKTTt~~kLA~~l~~----~G---~kVllv~~  136 (443)
T 3dm5_A           64 KPPAGISKKEHIIKIVYEELTKFLGTEAKPIEIKEKPTILLMVGIQGSGKTTTVAKLARYFQK----RG---YKVGVVCS  136 (443)
T ss_dssp             CCCTTCCHHHHHHHHHHHHHHHHTTSSCCCCCCCSSSEEEEEECCTTSSHHHHHHHHHHHHHT----TT---CCEEEEEC
T ss_pred             cccccCCcHHHHHHHHHHHHHHHhcCcccccccCCCCeEEEEECcCCCCHHHHHHHHHHHHHH----CC---CeEEEEeC
Confidence            34444444555556666666665432        22557899999999999999999988764    23   35777787


Q ss_pred             CCCCCHH-HHHHHHHHHhCCCCCC-CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          193 TSLTNTS-EIFSKILLKLQPRKKL-NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       193 ~~~~s~~-~i~~~i~~~l~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      ....... .-+.......+..... ..+..+...+...+...   .....-+||||.+-.+.
T Consensus       137 D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a---~~~~~DvVIIDTaGrl~  195 (443)
T 3dm5_A          137 DTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF---KSKGVDIIIVDTAGRHK  195 (443)
T ss_dssp             CCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH---HHTTCSEEEEECCCCSS
T ss_pred             CCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH---HhCCCCEEEEECCCccc
Confidence            6654422 2222233333321111 12334455555555421   12235689999987654

>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=96.96  E-value=0.0018  Score=58.27  Aligned_cols=124  Identities=11%  Similarity=0.078  Sum_probs=61.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC---CCCHHHHHHHHHHHh--CCCCCCCCCCC--
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS---LTNTSEIFSKILLKL--QPRKKLNGSTS--  220 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~---~~s~~~i~~~i~~~l--~~~~~~~~~~~--  220 (517)
                      ..+.+++++.+|.||||+|-.++-..-.    .|.   ++..+....   ......++..+.-.+  .+..-.+....  
T Consensus        27 ~~g~i~v~tG~GkGKTTaA~GlalRA~g----~G~---rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~   99 (196)
T 1g5t_A           27 ERGIIIVFTGNGKGKTTAAFGTAARAVG----HGK---NVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNRE   99 (196)
T ss_dssp             CCCCEEEEESSSSCHHHHHHHHHHHHHH----TTC---CEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHHHH----CCC---eEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcH
Confidence            4578999999999999999988765443    343   466664433   223344443331000  00000011110  


Q ss_pred             -HHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccC---chHHHHHhccCCCCCCcEEEEEEECC
Q 010136          221 -PLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRD---RAVLHDLFMLTTFPFSRFILIGIANA  281 (517)
Q Consensus       221 -~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~---~~~L~~l~~~~~~~~~~v~lI~ian~  281 (517)
                       ........+... ..-.....-+|||||+-....-.   .+.+.+++..   .....-||.++|.
T Consensus       100 ~~~~~a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~---Rp~~~~vIlTGr~  162 (196)
T 1g5t_A          100 ADTAACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNA---RPGHQTVIITGRG  162 (196)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHT---SCTTCEEEEECSS
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHh---CcCCCEEEEECCC
Confidence             011122222210 01123566799999997654332   2334444432   2234556666665

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.94  E-value=0.0026  Score=59.36  Aligned_cols=48  Identities=15%  Similarity=0.259  Sum_probs=33.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .+..++|+|+||+|||+++..++..+...    +   -.++|++...  +...+...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~~----~---~~v~~~~~e~--~~~~~~~~   69 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLKM----G---EPGIYVALEE--HPVQVRQN   69 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSS--CHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhc----C---CeEEEEEccC--CHHHHHHH
Confidence            35578999999999999999887765431    2   2578888654  24444333

>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=96.94  E-value=0.0015  Score=64.84  Aligned_cols=90  Identities=11%  Similarity=0.057  Sum_probs=53.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTSPLQY  224 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~~~~~  224 (517)
                      .+..++|+|+||+|||+++..++..+...    +   -.++|++........     .+..++.....   ..... .+.
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~----g---~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~-~e~  126 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAA----G---GIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDT-GEQ  126 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSS-HHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC----C---CeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCC-HHH
Confidence            35578999999999999999998776532    2   257888887644432     13344321110   00112 222


Q ss_pred             HHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          225 LQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       225 l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      +..+...  ......+.+||||++..+.
T Consensus       127 ~l~~~~~--l~~~~~~~lIVIDsl~~l~  152 (349)
T 2zr9_A          127 ALEIADM--LVRSGALDIIVIDSVAALV  152 (349)
T ss_dssp             HHHHHHH--HHTTTCCSEEEEECGGGCC
T ss_pred             HHHHHHH--HHhcCCCCEEEEcChHhhc
Confidence            2222221  1124457899999999987

>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=96.85  E-value=0.0017  Score=60.83  Aligned_cols=41  Identities=17%  Similarity=0.126  Sum_probs=28.2

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +--+..|.+.+..++    .   ...++|+||+|+|||.++..++..+
T Consensus        92 ~~l~~~Q~~ai~~~~----~---~~~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           92 ISLRDYQEKALERWL----V---DKRGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CCCCHHHHHHHHHHT----T---TSEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CCcCHHHHHHHHHHH----h---CCCEEEEeCCCCCHHHHHHHHHHHc
Confidence            344555555554432    2   2459999999999999998877654

>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=96.83  E-value=0.0046  Score=59.93  Aligned_cols=93  Identities=14%  Similarity=0.032  Sum_probs=56.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHH-
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTSPLQYL-  225 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~~~~~l-  225 (517)
                      +.++|+||||+|||+++..++..+....  .+   -.++||++.....+.     -+..++.....   ..... .+.+ 
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g--~g---~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~-~E~~~   97 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQY--PD---AVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQS-LEQLR   97 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHC--TT---CEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSB-HHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcC--CC---ceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCC-HHHHH
Confidence            3688999999999999999887765320  01   268999987765553     25556432210   00112 2222 


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ..+......-....+.+||||-|..|..
T Consensus        98 l~i~~~l~~i~~~~~~lvVIDSI~aL~~  125 (333)
T 3io5_A           98 IDMVNQLDAIERGEKVVVFIDSLGNLAS  125 (333)
T ss_dssp             HHHHHHHHTCCTTCCEEEEEECSTTCBC
T ss_pred             HHHHHHHHHhhccCceEEEEeccccccc
Confidence            2222211001356789999999999974

>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=96.83  E-value=0.0087  Score=62.76  Aligned_cols=74  Identities=15%  Similarity=0.181  Sum_probs=48.8

Q ss_pred             ceEEEEEeCcchhcccC-c---hHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHH
Q 010136          239 KMMLIIADELDYLITRD-R---AVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIR  314 (517)
Q Consensus       239 ~~~vI~iDEiD~L~~~~-~---~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~  314 (517)
                      .+++|||||++.|.... .   +.|..+....  ....|.+|.++.... .+.+...+++. + ..+|.|.--+..+...
T Consensus       343 P~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~G--Ra~GIhLIlaTQRPs-~d~I~~~Iran-~-~~RI~lrv~s~~Dsr~  417 (574)
T 2iut_A          343 PTIVVVVDEFADMMMIVGKKVEELIARIAQKA--RAAGIHLILATQRPS-VDVITGLIKAN-I-PTRIAFQVSSKIDSRT  417 (574)
T ss_dssp             CEEEEEESCCTTHHHHTCHHHHHHHHHHHHHC--TTTTEEEEEEESCCC-TTTSCHHHHHT-C-CEEEEECCSCHHHHHH
T ss_pred             CcEEEEEeCHHHHhhhhhHHHHHHHHHHHHHH--hhCCeEEEEEecCcc-cccccHHHHhh-h-ccEEEEEcCCHHHHHH
Confidence            35899999999886432 2   3344454443  345677787787543 12355556665 5 4589999999999888


Q ss_pred             HHH
Q 010136          315 ILQ  317 (517)
Q Consensus       315 IL~  317 (517)
                      ||-
T Consensus       418 ILd  420 (574)
T 2iut_A          418 ILD  420 (574)
T ss_dssp             HHS
T ss_pred             hcC
Confidence            874

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.80  E-value=0.0016  Score=64.24  Aligned_cols=47  Identities=21%  Similarity=0.395  Sum_probs=37.5

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      -+.-.+.+...+...+..+...+++|+|+||+|||++++.++..+..
T Consensus         4 ~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~   50 (359)
T 2ga8_A            4 THKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINE   50 (359)
T ss_dssp             HHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            34555667777776676666678999999999999999999998874

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=96.80  E-value=0.00078  Score=51.20  Aligned_cols=74  Identities=19%  Similarity=0.256  Sum_probs=56.2

Q ss_pred             CCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchh
Q 010136          305 RAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFD  383 (517)
Q Consensus       305 ~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~  383 (517)
                      ++++.++..+||+..+..+..  -++..++.+|+.+.+++| |+.   .+|+.|+..|.+++..                
T Consensus         1 plPd~~~R~~Il~~~l~~~~~--~~~~dl~~la~~t~G~SGADi~---~l~~eA~~~a~~~~~~----------------   59 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKMNL--TRGINLRKIAELMPGASGAEVK---GVCTEAGMYALRERRV----------------   59 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTSEE--CTTCCHHHHHHTCTTCCHHHHH---HHHHHHHHHHHHTTCS----------------
T ss_pred             CcCCHHHHHHHHHHHhcCCCC--CCccCHHHHHHHcCCCCHHHHH---HHHHHHHHHHHHhCCC----------------
Confidence            468999999999988876532  123347888886655555 444   6999999988887654                


Q ss_pred             hhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          384 QQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       384 ~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                                  .|+.+||..|+.++..
T Consensus        60 ------------~i~~~d~~~Al~~v~~   75 (78)
T 3kw6_A           60 ------------HVTQEDFEMAVAKVMQ   75 (78)
T ss_dssp             ------------EECHHHHHHHHHHHHC
T ss_pred             ------------CCCHHHHHHHHHHHHh
Confidence                        7999999999998764

>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=96.74  E-value=0.0052  Score=62.05  Aligned_cols=100  Identities=14%  Similarity=0.059  Sum_probs=53.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC-------CCCCCCH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK-------LNGSTSP  221 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~-------~~~~~~~  221 (517)
                      +..+.|+||||+|||++++.++-..... ...|...-.++|++.........+ ..++..++-...       .......
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p-~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIP-LDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSC-GGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccC-cccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCCh
Confidence            5578899999999999999775332210 011111135899998775444443 334555432100       0000111


Q ss_pred             H---HHHHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          222 L---QYLQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       222 ~---~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .   +.+..... ..  ....+.+|+||++..+..
T Consensus       256 ~~~~~~l~~~~~-~l--~~~~~~llVIDs~t~~~~  287 (400)
T 3lda_A          256 DHQLRLLDAAAQ-MM--SESRFSLIVVDSVMALYR  287 (400)
T ss_dssp             HHHHHHHHHHHH-HH--HHSCEEEEEEETGGGGCC
T ss_pred             HHHHHHHHHHHH-HH--HhcCCceEEecchhhhCc
Confidence            1   11111111 01  124688999999988764

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=96.68  E-value=0.00057  Score=61.49  Aligned_cols=38  Identities=18%  Similarity=0.230  Sum_probs=26.3

Q ss_pred             CCCeEEEEcCCCCcHH-HHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          148 KAGSLYVCGCPGTGKS-LSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT-~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+.-.+++|+.|+||| .|++.+.+....     +   ..++++...
T Consensus        19 ~g~l~fiyG~MgsGKTt~Ll~~i~n~~~~-----~---~kvl~~kp~   57 (195)
T 1w4r_A           19 RGQIQVILGPMFSGKSTELMRRVRRFQIA-----Q---YKCLVIKYA   57 (195)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHHHT-----T---CCEEEEEET
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHHc-----C---CeEEEEccc
Confidence            4557889999999999 677776554332     2   357777644

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=96.68  E-value=0.0026  Score=59.29  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=19.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      +..+++.|++|+|||+++...+-
T Consensus        76 g~~~~i~g~TGsGKTt~~~~~~~   98 (235)
T 3llm_A           76 NSVVIIRGATGCGKTTQVPQFIL   98 (235)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCcHHhHHHHHh
Confidence            46899999999999988776643

>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=96.66  E-value=0.0058  Score=56.32  Aligned_cols=49  Identities=16%  Similarity=0.064  Sum_probs=32.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT  198 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~  198 (517)
                      +..+.|.||+|+||||+++.++..+..... .+...-..++++.......
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~-~g~~~~~~i~~~~~~~~~~   73 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPE-EGGLNGSVIWIDTENTFRP   73 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGG-GTCCSCEEEEEESSSCCCH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccc-cCCCCCEEEEEECCCCCCH
Confidence            457889999999999999999875431111 1111125788888764343

>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=96.62  E-value=0.0061  Score=60.60  Aligned_cols=92  Identities=12%  Similarity=0.003  Sum_probs=54.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCC--CCCCHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLN--GSTSPLQYL  225 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~--~~~~~~~~l  225 (517)
                      .+..++|+|+||+|||+++..++..+...    +   ..++|++.....++..     +..++......  ......+.+
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~----g---~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~  129 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQRE----G---KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQA  129 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC----C---CeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHH
Confidence            35679999999999999999998776531    2   2588999866544331     33443211000  001112333


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ...+....  ....+.+||||.+..+..
T Consensus       130 ~~~~~~l~--~~~~~~lVVIDsl~~l~~  155 (356)
T 1u94_A          130 LEICDALA--RSGAVDVIVVDSVAALTP  155 (356)
T ss_dssp             HHHHHHHH--HHTCCSEEEEECGGGCCC
T ss_pred             HHHHHHHH--hccCCCEEEEcCHHHhcc
Confidence            33332111  134567999999998874

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=96.61  E-value=0.00083  Score=52.10  Aligned_cols=76  Identities=18%  Similarity=0.253  Sum_probs=57.1

Q ss_pred             EeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccc
Q 010136          303 TFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGL  381 (517)
Q Consensus       303 ~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~  381 (517)
                      +-.|++.+++.+||+..+......  ++-.++.+|+.+.+++| |+.   .+|+.|+..|.++...              
T Consensus         7 ~~~~Pd~~~R~~IL~~~l~~~~l~--~dvdl~~LA~~T~G~SGADL~---~l~~eAa~~alr~~~~--------------   67 (86)
T 2krk_A            7 HHSHPNEEARLDILKIHSRKMNLT--RGINLRKIAELMPGASGAEVK---GVCTEAGMYALRERRV--------------   67 (86)
T ss_dssp             CCCCCCHHHHHHHHHHHTTTSEEC--TTCCCHHHHHTCSSCCHHHHH---HHHHHHHHHHHHTTCS--------------
T ss_pred             CCCCcCHHHHHHHHHHHHcCCCCC--cccCHHHHHHHcCCCCHHHHH---HHHHHHHHHHHHHcCC--------------
Confidence            457899999999999888765321  23336778876656665 444   6999999988876543              


Q ss_pred             hhhhhhhhhhccCccccHHHHHHHHHHhcc
Q 010136          382 FDQQAASAFEFFNSQVRVDHMAVALSNTFK  411 (517)
Q Consensus       382 ~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~  411 (517)
                                    .|+.+||..|+.++..
T Consensus        68 --------------~I~~~df~~Al~~v~p   83 (86)
T 2krk_A           68 --------------HVTQEDFEMAVAKVMQ   83 (86)
T ss_dssp             --------------EECHHHHHHHHHHHHC
T ss_pred             --------------CCCHHHHHHHHHHHcc
Confidence                          7999999999988754

>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=96.60  E-value=0.0066  Score=59.60  Aligned_cols=99  Identities=16%  Similarity=0.053  Sum_probs=55.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC-------CCCCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK-------LNGSTS  220 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~-------~~~~~~  220 (517)
                      .+..++|+|+||+|||+++..++..+.... ..+...-.++|++.....++..+.. ++..++....       ......
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~-~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~  183 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPP-EKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAIN  183 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCG-GGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhccc-ccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCC
Confidence            355789999999999999999986542110 0111113689999877545555433 3444432110       000111


Q ss_pred             HHH------HHHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          221 PLQ------YLQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       221 ~~~------~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ..+      .+..++.     ....+.+||||.+..+..
T Consensus       184 ~~~~~~~l~~l~~~~~-----~~~~~~lvVIDsl~~l~~  217 (324)
T 2z43_A          184 TDHQIAIVDDLQELVS-----KDPSIKLIVVDSVTSHFR  217 (324)
T ss_dssp             HHHHHHHHHHHHHHHH-----HCTTEEEEEETTTTHHHH
T ss_pred             HHHHHHHHHHHHHHHH-----hccCCCEEEEeCcHHHhh
Confidence            111      1222222     125678999999998853

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.56  E-value=0.011  Score=60.97  Aligned_cols=49  Identities=10%  Similarity=0.184  Sum_probs=34.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      +..++|.|+||+|||+++..++..+...   .|   ..+++++...  +..++...+
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~~~---~g---~~Vl~~s~E~--s~~~l~~r~  251 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVATK---TN---ENVAIFSLEM--SAQQLVMRM  251 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHHH---SS---CCEEEEESSS--CHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHh---CC---CcEEEEECCC--CHHHHHHHH
Confidence            4578899999999999999998876532   22   2477777543  345555444

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.54  E-value=0.0012  Score=58.49  Aligned_cols=26  Identities=23%  Similarity=0.216  Sum_probs=22.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|+|+||+||||+++.+++.+.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35789999999999999999988763

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.54  E-value=0.0025  Score=75.81  Aligned_cols=92  Identities=12%  Similarity=0.008  Sum_probs=56.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC--CCCCCHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL--NGSTSPLQYL  225 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~--~~~~~~~~~l  225 (517)
                      .+..++|.|+||+|||+++..++..+...    +   -.++|+++........     +..++.....  .......+.+
T Consensus       731 ~G~lilIaG~PG~GKTtLalqlA~~~a~~----g---~~VlyiS~Ees~~ql~-----A~rlG~~~~~l~i~~~~~i~~i  798 (2050)
T 3cmu_A          731 MGRIVEIYGPESSGKTTLTLQVIAAAQRE----G---KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQA  798 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTT----T---CCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc----C---CcEEEEECCCcHHHHH-----HHHcCCCccceEEecCCCHHHH
Confidence            45678999999999999999999877531    1   2589999988665542     3444321100  0011113333


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ...+....  ....+.+||||.++.+..
T Consensus       799 ~~~~r~l~--~~~~~~LVIIDsLq~i~~  824 (2050)
T 3cmu_A          799 LEICDALA--RSGAVDVIVVDSVAALTP  824 (2050)
T ss_dssp             HHHHHHHH--HHTCCSEEEESCGGGCCC
T ss_pred             HHHHHHHh--hccCCCEEEEcchhhhcc
Confidence            33333111  124578999999998865

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.48  E-value=0.0017  Score=57.91  Aligned_cols=26  Identities=19%  Similarity=0.327  Sum_probs=23.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...++|+|+||+||||+++.+++.++
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988763

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.47  E-value=0.0014  Score=63.22  Aligned_cols=25  Identities=20%  Similarity=0.323  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|+||||+||||+++.++..+
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999998765

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.45  E-value=0.002  Score=58.48  Aligned_cols=27  Identities=19%  Similarity=0.260  Sum_probs=23.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|.|+||+||||+++.+++.++
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            456899999999999999999998763

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=96.45  E-value=0.0099  Score=54.24  Aligned_cols=27  Identities=19%  Similarity=0.079  Sum_probs=21.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +...+++|+.|+|||+.+..++.....
T Consensus        28 G~l~vitG~MgsGKTT~lL~~a~r~~~   54 (214)
T 2j9r_A           28 GWIEVICGSMFSGKSEELIRRVRRTQF   54 (214)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            345668999999999998888776643

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.44  E-value=0.002  Score=58.48  Aligned_cols=28  Identities=25%  Similarity=0.315  Sum_probs=23.5

Q ss_pred             cCCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          146 EEKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       146 ~~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ...+..+.|.|++|+||||+++.++..+
T Consensus        26 ~~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           26 GEPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            3456789999999999999999998776

>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=96.41  E-value=0.0058  Score=60.54  Aligned_cols=99  Identities=12%  Similarity=0.068  Sum_probs=54.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC----------CCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK----------KLNGS  218 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~----------~~~~~  218 (517)
                      +..+.|+|+||+|||+++..++...... ...+...-.++|++.....++..+.. ++..++...          .....
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~-~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~  199 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLP-GAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTS  199 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSC-BTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcc-cccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCH
Confidence            4468899999999999999988653210 00000113689999877545555433 334443211          00111


Q ss_pred             CCHHHH---HHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          219 TSPLQY---LQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       219 ~~~~~~---l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ....+.   +..++.    .....+.+||||.+..+..
T Consensus       200 e~~~~ll~~l~~~i~----~~~~~~~lvVIDsl~~l~~  233 (343)
T 1v5w_A          200 EHQMELLDYVAAKFH----EEAGIFKLLIIDSIMALFR  233 (343)
T ss_dssp             THHHHHHHHHHHHHH----HSCSSEEEEEEETSGGGHH
T ss_pred             HHHHHHHHHHHHHHH----hcCCCccEEEEechHHHHH
Confidence            111111   222222    0115678999999998863

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.40  E-value=0.021  Score=55.71  Aligned_cols=52  Identities=13%  Similarity=0.171  Sum_probs=36.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLK  208 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~  208 (517)
                      .+..++|.|+||+|||+++..++..+..    .+   ..++|++..  .+..++...+...
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~----~g---~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSD----ND---DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHT----TT---CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH----cC---CeEEEEECC--CCHHHHHHHHHHH
Confidence            3557899999999999999999866542    12   367888865  3456665555443

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=96.40  E-value=0.0083  Score=60.97  Aligned_cols=121  Identities=13%  Similarity=0.139  Sum_probs=60.8

Q ss_pred             HHHHHHHHhhcc-----CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHh
Q 010136          135 KVLEFCKKNLEE-----EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKL  209 (517)
Q Consensus       135 ~l~~~L~~~l~~-----~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l  209 (517)
                      .+...|...+..     ......+|.|+||||||+++..++..          .  ..+.+...     ......+.+.+
T Consensus       142 ~~l~~l~~~~~~~~~~~~~~~v~~I~G~aGsGKTt~I~~~~~~----------~--~~lVlTpT-----~~aa~~l~~kl  204 (446)
T 3vkw_A          142 AKLRTLRRLLKDGEPHVSSAKVVLVDGVPGCGKTKEILSRVNF----------E--EDLILVPG-----RQAAEMIRRRA  204 (446)
T ss_dssp             HHHHHHHTTCBTTBCCCCCSEEEEEEECTTSCHHHHHHHHCCT----------T--TCEEEESC-----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccEEEEEcCCCCCHHHHHHHHhcc----------C--CeEEEeCC-----HHHHHHHHHHh
Confidence            455555555322     23446789999999999999887531          0  12333322     23334555555


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          210 QPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       210 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      ...............++.++-..........-+|||||+-.+.   ...++.++....  ..+++++|
T Consensus       205 ~~~~~~~~~~~~V~T~dsfL~~~~~~~~~~~d~liiDE~sm~~---~~~l~~l~~~~~--~~~vilvG  267 (446)
T 3vkw_A          205 NASGIIVATKDNVRTVDSFLMNYGKGARCQFKRLFIDEGLMLH---TGCVNFLVEMSL--CDIAYVYG  267 (446)
T ss_dssp             TTTSCCCCCTTTEEEHHHHHHTTTSSCCCCCSEEEEETGGGSC---HHHHHHHHHHTT--CSEEEEEE
T ss_pred             hhcCccccccceEEEeHHhhcCCCCCCCCcCCEEEEeCcccCC---HHHHHHHHHhCC--CCEEEEec
Confidence            4221100011112334444431100000114689999998763   344555544432  26777777

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.33  E-value=0.0022  Score=56.31  Aligned_cols=24  Identities=21%  Similarity=0.026  Sum_probs=21.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.|+||+||||+++.+++.++
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            688999999999999999987763

>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=96.32  E-value=0.0025  Score=56.68  Aligned_cols=26  Identities=19%  Similarity=0.314  Sum_probs=23.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..++|+|+||+||||+++.+++.+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            35679999999999999999998776

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.32  E-value=0.0026  Score=56.85  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=23.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.+++.++
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35789999999999999999998775

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.32  E-value=0.051  Score=56.39  Aligned_cols=130  Identities=16%  Similarity=0.135  Sum_probs=65.7

Q ss_pred             HHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc---------CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCC
Q 010136          113 VREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE---------EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQ  183 (517)
Q Consensus       113 ~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~---------~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~  183 (517)
                      .++......++..+-..+...+.+.+.|...+..         ..+..+.|+|+||+||||++..++..+...    |  
T Consensus        56 v~~~~~~~~~~~~~~~~~~~~~~v~~eL~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~----G--  129 (504)
T 2j37_W           56 VKSAIDLEEMASGLNKRKMIQHAVFKELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKLAYYYQRK----G--  129 (504)
T ss_dssp             HHHHHTTCCCCSSSCHHHHHHHHHHHHHHHHHCCCCCCCCCCSS--EEEEEECSTTSSHHHHHHHHHHHHHHT----T--
T ss_pred             HHHHhhcCcccccCChHHHHHHHHHHHHHHHhccccchhccccCCCeEEEEECCCCCCHHHHHHHHHHHHHhC----C--
Confidence            3433333334433444444445555555554432         224478899999999999999999877642    2  


Q ss_pred             CceEEEEeCCCCCCHH-HHHHHHHHHhCCCC-CCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          184 QPEVFSINCTSLTNTS-EIFSKILLKLQPRK-KLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       184 ~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                       .++..|++-...... ..+.......+... ....+..+.+.+...+...   .....-++|||-.-.+.
T Consensus       130 -~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~---~~~~~DvvIIDTpG~~~  196 (504)
T 2j37_W          130 -WKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF---KNENFEIIIVDTSGRHK  196 (504)
T ss_dssp             -CCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH---HHTTCCEEEEEECCCCT
T ss_pred             -CeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH---HHCCCcEEEEeCCCCcc
Confidence             246667765443322 22222223322211 1111233334333333311   01234588899876653

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.31  E-value=0.0094  Score=59.17  Aligned_cols=51  Identities=20%  Similarity=0.155  Sum_probs=32.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS  199 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~  199 (517)
                      .+..+.|+||||+|||++++.++..+.......+.. -.++|++......+.
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~-G~vi~i~~e~~~~~~  180 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLN-GSVIWIDTENTFRPE  180 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCS-CEEEEEESSSCCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCC-CeEEEEeCCCCCCHH
Confidence            345788999999999999999987642110111111 256899886653333

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=96.28  E-value=0.04  Score=56.19  Aligned_cols=40  Identities=18%  Similarity=0.337  Sum_probs=31.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +..+.|+|++|+||||++..++..+....       .++..+++...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G-------~kVllv~~D~~  138 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRG-------LKPALIAADTY  138 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHH-------CCEEEECCSCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC-------CeEEEEecccc
Confidence            45899999999999999999998886432       25777777654

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.27  E-value=0.0045  Score=56.20  Aligned_cols=47  Identities=13%  Similarity=0.031  Sum_probs=34.4

Q ss_pred             CcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          128 CREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .|++.++.|.+.+... ....+..+.|.|++|+||||+++.++..+..
T Consensus         2 ~~~~~~~~l~~~~~~~-~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAI-KTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             CHHHHHHHHHHHHHTS-CCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHh-ccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3566677777766543 2234457889999999999999999887753

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.27  E-value=0.015  Score=59.77  Aligned_cols=51  Identities=10%  Similarity=0.083  Sum_probs=35.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILL  207 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~  207 (517)
                      +..++|.|+||+|||+++..++.....   ..+   ..+++++...  +..++...+..
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a~---~~g---~~vl~~slE~--~~~~l~~R~~~  250 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAAL---KEG---VGVGIYSLEM--PAAQLTLRMMC  250 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHH---TTC---CCEEEEESSS--CHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH---hCC---CeEEEEECCC--CHHHHHHHHHH
Confidence            457889999999999999999876643   112   2478887753  45566555543

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.21  E-value=0.013  Score=59.95  Aligned_cols=96  Identities=13%  Similarity=0.181  Sum_probs=53.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH-HHHHHHHHHH--hCCCC--CCCCCCCHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT-SEIFSKILLK--LQPRK--KLNGSTSPL  222 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~-~~i~~~i~~~--l~~~~--~~~~~~~~~  222 (517)
                      ++..+.|+|++|+|||++++.++.......   +   ...+++.+...++. .+++..+...  +....  .......+.
T Consensus       150 kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~---~---~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg  223 (473)
T 1sky_E          150 KGGKIGLFGGAGVGKTVLIQELIHNIAQEH---G---GISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPG  223 (473)
T ss_dssp             TTCEEEEECCSSSCHHHHHHHHHHHHHHHT---C---CCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHH
T ss_pred             cCCEEEEECCCCCCccHHHHHHHhhhhhcc---C---cEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHH
Confidence            456799999999999999999988765432   1   12355555554332 3344434321  00000  000011111


Q ss_pred             H---------HHHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          223 Q---------YLQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       223 ~---------~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .         .+.++|.+    ..++.++||+|++.++..
T Consensus       224 ~r~~~~~~~ltiAEyFrd----~~G~~VLl~~D~itR~a~  259 (473)
T 1sky_E          224 ARMRVALTGLTMAEYFRD----EQGQDGLLFIDNIFRFTQ  259 (473)
T ss_dssp             HHHHHHHHHHHHHHHHHH----HSCCEEEEEEECTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH----hcCCcEEEEeccHHHHHH
Confidence            1         23445541    146789999999998874

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=96.20  E-value=0.0015  Score=59.04  Aligned_cols=26  Identities=15%  Similarity=-0.030  Sum_probs=22.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +...+++|+.|+|||+.+..++..+.
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~   33 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAK   33 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            45678999999999999988887765

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.19  E-value=0.0023  Score=56.36  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=22.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|++|+||||+++.++..+
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.18  E-value=0.0025  Score=56.34  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=22.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|.|+||+||||+++.+++.++
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3689999999999999999988764

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.17  E-value=0.0029  Score=56.55  Aligned_cols=24  Identities=42%  Similarity=0.516  Sum_probs=22.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.|+||+||||+++.+++.+.
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            588999999999999999998876

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=96.17  E-value=0.0041  Score=56.65  Aligned_cols=42  Identities=14%  Similarity=0.164  Sum_probs=29.0

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .-+.-|.+.+...+.       ..++++.+|+|+|||.++-..+..+..
T Consensus        33 ~l~~~Q~~~i~~~~~-------~~~~li~~~tGsGKT~~~~~~~~~~~~   74 (216)
T 3b6e_A           33 QLRPYQMEVAQPALE-------GKNIIICLPTGSGKTRVAVYIAKDHLD   74 (216)
T ss_dssp             CCCHHHHHHHHHHHT-------TCCEEEECSCHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHhc-------CCCEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            445555544444432       367999999999999999887766543

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.15  E-value=0.0039  Score=56.50  Aligned_cols=28  Identities=29%  Similarity=0.438  Sum_probs=25.1

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+..++|.|++|+||||+++.++..+.
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4567899999999999999999999886

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.15  E-value=0.003  Score=56.63  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=22.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|+||+||||+++.+++.+
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4578999999999999999998776

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.12  E-value=0.0032  Score=55.25  Aligned_cols=27  Identities=26%  Similarity=0.283  Sum_probs=22.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...+++|.|+||+||||+++.+++.++
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            356899999999999999999988764

>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=96.10  E-value=0.0031  Score=56.21  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|.|+||+||||+++.+++.++
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999988764

>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=96.09  E-value=0.018  Score=56.34  Aligned_cols=103  Identities=14%  Similarity=0.131  Sum_probs=54.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHH---------HhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCC-----
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWA---------KEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKK-----  214 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~---------~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~-----  214 (517)
                      +..++|+|+||+|||+++..++....-..         ...+...-.++|++.....++..+.. ++..++....     
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~  176 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLDN  176 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhcC
Confidence            45688999999999999999886531000         00111113689999877545665543 3344432110     


Q ss_pred             --CCCCCCHHHHHHHHHHh--hhccCCCceEEEEEeCcchhcc
Q 010136          215 --LNGSTSPLQYLQNLYSQ--KLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       215 --~~~~~~~~~~l~~~~~~--~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                        ...... .+.+..++..  ........+.+||||.+..+..
T Consensus       177 l~~~~~~~-~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~  218 (322)
T 2i1q_A          177 TFVARAYN-SDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFR  218 (322)
T ss_dssp             EEEEECSS-HHHHHHHHHTHHHHHHTTCEEEEEEEECSSHHHH
T ss_pred             EEEEeCCC-HHHHHHHHHHHHHHHhhccCccEEEEECcHHHHH
Confidence              000111 1211111111  0111225678999999998853

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.09  E-value=0.003  Score=55.81  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=19.9

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..++|.|+||+||||+++.+++
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            3688999999999999999876

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.05  E-value=0.0042  Score=55.46  Aligned_cols=29  Identities=28%  Similarity=0.517  Sum_probs=25.0

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..+..++|.|+||+||||+++.++..+..
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            34567899999999999999999988764

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.02  E-value=0.0049  Score=58.20  Aligned_cols=26  Identities=19%  Similarity=0.206  Sum_probs=22.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.++..+.
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45789999999999999999987753

>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=96.02  E-value=0.0045  Score=55.33  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=22.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..++|+|+||+||||+++.+++.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4568999999999999999999876

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.00  E-value=0.013  Score=57.02  Aligned_cols=93  Identities=19%  Similarity=0.202  Sum_probs=49.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH-HHHHHHHHHhCCCCCC-CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS-EIFSKILLKLQPRKKL-NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~~~-~~~~~~~~~l~  226 (517)
                      +..+.|.|++|+||||++..++..+...    +   ..+..+++....... .-+......++-.... ..+..+...+.
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA~~l~~~----g---~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~  176 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLAKMFVDE----G---KSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAF  176 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT----T---CCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHHHHHhc----C---CEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHH
Confidence            4468899999999999999999887542    2   245666665443211 1112223333321111 11233333322


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchh
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYL  251 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L  251 (517)
                      ..+....   ...+-+|+||+.-.+
T Consensus       177 ~al~~a~---~~~~dvvIiDtpg~~  198 (306)
T 1vma_A          177 DAVAHAL---ARNKDVVIIDTAGRL  198 (306)
T ss_dssp             HHHHHHH---HTTCSEEEEEECCCC
T ss_pred             HHHHHHH---hcCCCEEEEECCCch
Confidence            2232111   234568999998753

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.99  E-value=0.005  Score=55.75  Aligned_cols=26  Identities=27%  Similarity=0.337  Sum_probs=22.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.+++.++
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999999988763

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.98  E-value=0.0047  Score=56.84  Aligned_cols=27  Identities=22%  Similarity=0.373  Sum_probs=23.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|.|+||+||||+++.+++.++
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456799999999999999999988763

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.98  E-value=0.0046  Score=55.52  Aligned_cols=27  Identities=33%  Similarity=0.573  Sum_probs=23.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|.|+||+||||+++.+++.++
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456899999999999999999988763

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=95.96  E-value=0.0031  Score=49.10  Aligned_cols=73  Identities=18%  Similarity=0.181  Sum_probs=52.9

Q ss_pred             CHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhh
Q 010136          308 SKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQA  386 (517)
Q Consensus       308 ~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  386 (517)
                      +.++..+||+..+.+.+.  -++-.++.+|+.+.+++| |+.   .+|+.|+..|.++...                   
T Consensus         2 d~~~R~~Il~~~~~~~~~--~~dvdl~~lA~~t~G~SGADl~---~l~~eAa~~a~r~~~~-------------------   57 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSMSV--ERGIRWELISRLCPNSTGAELR---SVCTEAGMFAIRARRK-------------------   57 (88)
T ss_dssp             CSSHHHHHHHHHHTTSCB--CSCCCHHHHHHTCSSCCHHHHH---HHHHHHHHHHHHHSCS-------------------
T ss_pred             CHHHHHHHHHHHHCCCCC--CCccCHHHHHHHcCCCcHHHHH---HHHHHHHHHHHHhccc-------------------
Confidence            557788999988776532  123347888886655665 444   7999999988887654                   


Q ss_pred             hhhhhccCccccHHHHHHHHHHhccCh
Q 010136          387 ASAFEFFNSQVRVDHMAVALSNTFKSP  413 (517)
Q Consensus       387 ~~~~~~~~~~Vt~~~v~~a~~~~~~~~  413 (517)
                               .|+.+||..|+.++....
T Consensus        58 ---------~i~~~df~~Al~~v~~~~   75 (88)
T 3vlf_B           58 ---------VATEKDFLKAVDKVISGY   75 (88)
T ss_dssp             ---------SBCHHHHHHHHHHHTC--
T ss_pred             ---------cCCHHHHHHHHHHHhcCc
Confidence                     799999999999987554

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.96  E-value=0.0044  Score=56.16  Aligned_cols=25  Identities=36%  Similarity=0.489  Sum_probs=22.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|++|+||||+++.+++.+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999998876

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.95  E-value=0.0049  Score=56.25  Aligned_cols=28  Identities=25%  Similarity=0.336  Sum_probs=24.1

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+..+.|.||+|+||||+++.++..+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3455788999999999999999988876

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.93  E-value=0.0048  Score=56.78  Aligned_cols=26  Identities=38%  Similarity=0.641  Sum_probs=23.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..++|.||||+||+|.++.+++.+
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            46678999999999999999998775

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.93  E-value=0.0035  Score=55.88  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.+++.++
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34689999999999999999987753

>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=95.93  E-value=0.0033  Score=55.14  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=19.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..++|.|+||+||||+++.+ +.
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~   23 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KE   23 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HH
T ss_pred             cEEEEECCCCCCHHHHHHHH-HH
Confidence            36889999999999999998 44

>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=95.91  E-value=0.0038  Score=55.87  Aligned_cols=25  Identities=32%  Similarity=0.522  Sum_probs=21.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..++|.|+||+||||+++.++..
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3557899999999999999998764

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.89  E-value=0.0047  Score=56.44  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.||||+||+|.++.+++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998875

>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=95.87  E-value=0.056  Score=56.11  Aligned_cols=74  Identities=16%  Similarity=0.191  Sum_probs=45.8

Q ss_pred             eEEEEEeCcchhcccC----chHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHH
Q 010136          240 MMLIIADELDYLITRD----RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRI  315 (517)
Q Consensus       240 ~~vI~iDEiD~L~~~~----~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~I  315 (517)
                      .++|+|||+..+....    .+.|..|....  ....+.+|.++...+ .+.+...+++. + ..+|.|.--+..+...|
T Consensus       298 ~ivlvIDE~~~ll~~~~~~~~~~l~~Lar~g--Ra~GI~LIlaTQrp~-~dvl~~~i~~n-~-~~RI~lrv~s~~dsr~i  372 (512)
T 2ius_A          298 YIVVLVDEFADLMMTVGKKVEELIARLAQKA--RAAGIHLVLATQRPS-VDVITGLIKAN-I-PTRIAFTVSSKIDSRTI  372 (512)
T ss_dssp             EEEEEEETHHHHHHHHHHHHHHHHHHHHHHC--GGGTEEEEEEESCCC-TTTSCHHHHHH-C-CEEEEECCSSHHHHHHH
T ss_pred             cEEEEEeCHHHHHhhhhHHHHHHHHHHHHHh--hhCCcEEEEEecCCc-cccccHHHHhh-c-CCeEEEEcCCHHHHHHh
Confidence            3699999998776421    23343443332  223667777777643 12244455554 4 45899999999999888


Q ss_pred             HHH
Q 010136          316 LQE  318 (517)
Q Consensus       316 L~~  318 (517)
                      +..
T Consensus       373 lg~  375 (512)
T 2ius_A          373 LDQ  375 (512)
T ss_dssp             HSS
T ss_pred             cCC
Confidence            753

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.87  E-value=0.046  Score=53.58  Aligned_cols=28  Identities=25%  Similarity=0.510  Sum_probs=24.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..+.|.||+|+||||+++.++..+..
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4557889999999999999999987754

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.87  E-value=0.0042  Score=56.50  Aligned_cols=26  Identities=35%  Similarity=0.560  Sum_probs=22.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..++|+||||+||||+++.++..+
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45679999999999999999998765

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.86  E-value=0.0054  Score=54.09  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|++|+||||+++.++..+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4578999999999999999998765

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.86  E-value=0.0045  Score=55.73  Aligned_cols=26  Identities=27%  Similarity=0.489  Sum_probs=23.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.+++.++
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999999988764

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.86  E-value=0.0049  Score=54.14  Aligned_cols=25  Identities=16%  Similarity=0.329  Sum_probs=22.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|.|+||+||||+++.+++.++
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.85  E-value=0.0049  Score=55.14  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|+||+||||+++.+++.+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999998765

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.84  E-value=0.012  Score=55.26  Aligned_cols=26  Identities=23%  Similarity=0.411  Sum_probs=23.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..++|.|+||+||||+++.+++.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999998775

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.84  E-value=0.0077  Score=65.09  Aligned_cols=27  Identities=26%  Similarity=0.365  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..+|.||||||||+++-.++..+..
T Consensus       205 ~~~~lI~GPPGTGKT~ti~~~I~~l~~  231 (646)
T 4b3f_X          205 KELAIIHGPPGTGKTTTVVEIILQAVK  231 (646)
T ss_dssp             SSEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            357899999999999998877766653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.83  E-value=0.0053  Score=55.82  Aligned_cols=26  Identities=19%  Similarity=0.279  Sum_probs=23.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.+++.+.
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            35689999999999999999988775

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.83  E-value=0.0057  Score=55.69  Aligned_cols=27  Identities=22%  Similarity=0.272  Sum_probs=24.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..++|.|+||+||||+++.+++.+..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            567999999999999999999988764

>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=95.83  E-value=0.035  Score=55.16  Aligned_cols=97  Identities=8%  Similarity=0.066  Sum_probs=55.9

Q ss_pred             hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC-CCCCCHH
Q 010136          144 LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL-NGSTSPL  222 (517)
Q Consensus       144 l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~-~~~~~~~  222 (517)
                      +.-+.+..+.|+|++|+|||++++.+++.+....     +.+.++++-+..-  ..+ ...+...+...... .....+.
T Consensus       169 ~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~-----~~v~~I~~lIGER--~~E-v~~~~~~~~~~vV~atadep~~  240 (422)
T 3ice_A          169 SPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNH-----PDCVLMVLLIDER--PEE-VTEMQRLVKGEVVASTFDEPAS  240 (422)
T ss_dssp             SCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHC-----TTSEEEEEEESSC--HHH-HHHHHTTCSSEEEEECTTSCHH
T ss_pred             eeecCCcEEEEecCCCCChhHHHHHHHHHHhhcC-----CCeeEEEEEecCC--hHH-HHHHHHHhCeEEEEeCCCCCHH
Confidence            3345678999999999999999999988876422     2245666654432  222 22233333211000 1122222


Q ss_pred             HHH---------HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          223 QYL---------QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       223 ~~l---------~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ..+         .++|.     ..++.++|++|++..++.
T Consensus       241 ~r~~~a~~alt~AEyfr-----d~G~dVLil~DslTR~A~  275 (422)
T 3ice_A          241 RHVQVAEMVIEKAKRLV-----EHKKDVIILLDSITRLAR  275 (422)
T ss_dssp             HHHHHHHHHHHHHHHHH-----HTSCEEEEEEECHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH-----hcCCCEEEEEeCchHHHH
Confidence            222         23333     357789999999988763

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.83  E-value=0.0053  Score=56.54  Aligned_cols=27  Identities=19%  Similarity=0.352  Sum_probs=23.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|.|+||+||||+++.+++.++
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            356799999999999999999988763

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.79  E-value=0.0064  Score=55.41  Aligned_cols=28  Identities=21%  Similarity=0.274  Sum_probs=24.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..++|.|+||+||||+++.+++.+..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3567999999999999999999988764

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.77  E-value=0.075  Score=51.29  Aligned_cols=94  Identities=16%  Similarity=0.114  Sum_probs=52.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH-HHHHHHHHHhCCCCCC-CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS-EIFSKILLKLQPRKKL-NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~~~-~~~~~~~~~l~  226 (517)
                      +..+.+.|++|+||||++..++..+...    +   .++..+++....... ..+.......+-..-. ..+..+.+.+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~----g---~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~  170 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKK----G---FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAK  170 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHT----T---CCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC----C---CeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHH
Confidence            3468899999999999999999887542    2   256777776554322 2233334443322111 11234444444


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      ..+...   .....-+|+||=.-.+.
T Consensus       171 ~~l~~~---~~~~~D~ViIDTpg~~~  193 (297)
T 1j8m_F          171 RGVEKF---LSEKMEIIIVDTAGRHG  193 (297)
T ss_dssp             HHHHHH---HHTTCSEEEEECCCSCC
T ss_pred             HHHHHH---HhCCCCEEEEeCCCCcc
Confidence            444421   01234588999876654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.76  E-value=0.0057  Score=56.00  Aligned_cols=23  Identities=26%  Similarity=0.528  Sum_probs=20.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998775

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.75  E-value=0.0031  Score=55.97  Aligned_cols=26  Identities=19%  Similarity=0.344  Sum_probs=18.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.+++.++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45799999999999999999987654

>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=95.75  E-value=0.0061  Score=54.64  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=21.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..|+|+||+|+||||+++.+++..
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458999999999999999987764

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=95.73  E-value=0.059  Score=50.11  Aligned_cols=19  Identities=26%  Similarity=0.233  Sum_probs=16.3

Q ss_pred             CeEEEEcCCCCcHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~  168 (517)
                      .++++.+|+|+|||.+.-.
T Consensus        67 ~~~l~~apTGsGKT~~~~l   85 (242)
T 3fe2_A           67 LDMVGVAQTGSGKTLSYLL   85 (242)
T ss_dssp             CCEEEEECTTSCHHHHHHH
T ss_pred             CCEEEECCCcCHHHHHHHH
Confidence            6899999999999988543

>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=95.71  E-value=0.0074  Score=56.13  Aligned_cols=27  Identities=26%  Similarity=0.377  Sum_probs=23.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|.|+||+||||+++.+++.++
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456899999999999999999988764

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.71  E-value=0.0058  Score=57.75  Aligned_cols=24  Identities=13%  Similarity=0.037  Sum_probs=21.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.||||+||||+++.+++.++
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCC
Confidence            578999999999999999988763

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.68  E-value=0.0073  Score=53.72  Aligned_cols=25  Identities=16%  Similarity=0.218  Sum_probs=21.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..+.|+||+|+||||+++.++..+
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4578899999999999999987754

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.68  E-value=0.0071  Score=57.35  Aligned_cols=27  Identities=26%  Similarity=0.369  Sum_probs=23.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..++|.|+||+||||+++.+++.+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~   30 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSK   30 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            457899999999999999999988753

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.65  E-value=0.0063  Score=53.13  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=21.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.|+||+||||+++.+++.++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999988764

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.64  E-value=0.0053  Score=56.25  Aligned_cols=23  Identities=30%  Similarity=0.528  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997764

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.62  E-value=0.017  Score=51.53  Aligned_cols=25  Identities=28%  Similarity=0.453  Sum_probs=22.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+.|.|+||+||||+++.+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~   26 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQ   26 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999988753

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=95.61  E-value=0.0078  Score=54.94  Aligned_cols=26  Identities=23%  Similarity=0.213  Sum_probs=22.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|+||+|+||||+++.++..+
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45678899999999999999997764

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.61  E-value=0.0064  Score=54.28  Aligned_cols=25  Identities=24%  Similarity=0.523  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|+||+||||+++.+++.+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3478999999999999999998765

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.61  E-value=0.0073  Score=54.50  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=21.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|.|++|+||||+++.+++.++
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            578999999999999999988764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.59  E-value=0.0058  Score=56.53  Aligned_cols=26  Identities=19%  Similarity=0.406  Sum_probs=22.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..++|.|+||+||||+++.+++.+
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34679999999999999999998765

>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=95.57  E-value=0.034  Score=61.19  Aligned_cols=23  Identities=17%  Similarity=0.304  Sum_probs=19.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ...+++.||+|+|||+++..++.
T Consensus       109 ~~~vii~gpTGSGKTtllp~ll~  131 (773)
T 2xau_A          109 NQIMVFVGETGSGKTTQIPQFVL  131 (773)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999997777643

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.52  E-value=0.0073  Score=55.46  Aligned_cols=26  Identities=27%  Similarity=0.432  Sum_probs=22.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|+||+||||+++.+++.++
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999999988763

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.52  E-value=0.0086  Score=56.15  Aligned_cols=27  Identities=22%  Similarity=0.356  Sum_probs=23.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|++|+||||+++.+++.++
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            356899999999999999999987653

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=95.51  E-value=0.039  Score=51.03  Aligned_cols=20  Identities=20%  Similarity=0.307  Sum_probs=16.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~  168 (517)
                      +.++++.+|+|+|||.+.-.
T Consensus        62 ~~~~li~a~TGsGKT~~~~~   81 (236)
T 2pl3_A           62 GKDVLGAAKTGSGKTLAFLV   81 (236)
T ss_dssp             TCCEEEECCTTSCHHHHHHH
T ss_pred             CCCEEEEeCCCCcHHHHHHH
Confidence            36799999999999997544

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.51  E-value=0.081  Score=53.91  Aligned_cols=94  Identities=12%  Similarity=0.205  Sum_probs=52.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH-HHHHHHHHHhCCCCCC-CCCCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS-EIFSKILLKLQPRKKL-NGSTSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~~~-~~~~~~~~~l~  226 (517)
                      +..++|+|++|+||||++-.++..+...   .|   .++..++|-...... ..+.......+-..-. ..+..+...+.
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~~---~G---~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~  173 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLREK---HK---KKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVN  173 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHHT---SC---CCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHh---cC---CeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHH
Confidence            4578899999999999999999887642   13   357778887654322 2222223333221111 11233444445


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchh
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYL  251 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L  251 (517)
                      ..+...   .....-++|||=.-.+
T Consensus       174 ~~l~~~---~~~~~D~VIIDTpG~l  195 (433)
T 2xxa_A          174 AALKEA---KLKFYDVLLVDTAGRL  195 (433)
T ss_dssp             HHHHHH---HHTTCSEEEEECCCCC
T ss_pred             HHHHHH---HhCCCCEEEEECCCcc
Confidence            555421   1123458889976554

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.50  E-value=0.0069  Score=54.80  Aligned_cols=26  Identities=31%  Similarity=0.556  Sum_probs=22.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..++|.|+||+||||+++.+++.+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34578999999999999999998764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.43  E-value=0.021  Score=55.05  Aligned_cols=44  Identities=16%  Similarity=0.241  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhhc--cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          133 QKKVLEFCKKNLE--EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       133 ~~~l~~~L~~~l~--~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      ++.|...+.....  ...+..+.|.|++|+||||+++.++..+...
T Consensus        13 ~~~l~~~i~~~~~~~~~~~~ii~I~G~sGsGKSTla~~L~~~l~~~   58 (290)
T 1odf_A           13 IEFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEK   58 (290)
T ss_dssp             HHHHHHHHHHHHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccCCCCeEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            3344444444322  2334568899999999999999999988753

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.40  E-value=0.011  Score=53.48  Aligned_cols=26  Identities=23%  Similarity=0.319  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||+|+||||+++.++..+
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            34578899999999999999987653

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=95.40  E-value=0.061  Score=48.38  Aligned_cols=18  Identities=28%  Similarity=0.220  Sum_probs=15.7

Q ss_pred             CeEEEEcCCCCcHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~  167 (517)
                      .++++.+|+|+|||.+.-
T Consensus        41 ~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           41 RDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             CCEEEECCSSSTTHHHHH
T ss_pred             CCEEEECCCCCchHHHHH
Confidence            689999999999997654

>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=95.39  E-value=0.02  Score=57.26  Aligned_cols=27  Identities=15%  Similarity=0.057  Sum_probs=23.2

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+..++|+||||+||||+++.++..+
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            345689999999999999999998753

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=95.38  E-value=0.0096  Score=54.91  Aligned_cols=25  Identities=16%  Similarity=0.078  Sum_probs=19.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +...+++|+.|+|||+.+-..+...
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~   43 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRF   43 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4467789999999998776665554

>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=0.012  Score=53.27  Aligned_cols=26  Identities=19%  Similarity=0.240  Sum_probs=22.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|+||+|+||||+++.+++.+
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            46688999999999999999988654

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=95.36  E-value=0.018  Score=52.04  Aligned_cols=20  Identities=30%  Similarity=0.350  Sum_probs=16.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~  168 (517)
                      +.++++.+|+|+|||.++-.
T Consensus        38 ~~~~li~~~TGsGKT~~~~~   57 (207)
T 2gxq_A           38 GKDLIGQARTGTGKTLAFAL   57 (207)
T ss_dssp             TCCEEEECCTTSCHHHHHHH
T ss_pred             CCCEEEECCCCChHHHHHHH
Confidence            36799999999999987433

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.35  E-value=0.011  Score=53.56  Aligned_cols=26  Identities=19%  Similarity=0.222  Sum_probs=22.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.|++|+||||+++.++..+
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            35678999999999999999987654

>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=95.35  E-value=0.009  Score=54.66  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998875

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.35  E-value=0.04  Score=54.13  Aligned_cols=51  Identities=14%  Similarity=0.145  Sum_probs=36.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILL  207 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~  207 (517)
                      .+..++|.|+||+|||+++..++..+..    .+   ..++|++...  +..++...+..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~----~g---~~Vl~fSlEm--s~~ql~~Rlls   95 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALN----DD---RGVAVFSLEM--SAEQLALRALS   95 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH----TT---CEEEEEESSS--CHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH----cC---CeEEEEeCCC--CHHHHHHHHHH
Confidence            3557889999999999999999877654    22   3577887643  45666555543

>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=95.34  E-value=0.013  Score=53.56  Aligned_cols=27  Identities=26%  Similarity=0.475  Sum_probs=24.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|.|++|+||||+++.+++.+.
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            456789999999999999999998886

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=95.33  E-value=0.029  Score=51.60  Aligned_cols=20  Identities=40%  Similarity=0.394  Sum_probs=16.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~  168 (517)
                      +.++++.+|+|+|||.+.-.
T Consensus        57 ~~~~l~~apTGsGKT~~~~l   76 (228)
T 3iuy_A           57 GIDLIVVAQTGTGKTLSYLM   76 (228)
T ss_dssp             TCCEEEECCTTSCHHHHHHH
T ss_pred             CCCEEEECCCCChHHHHHHH
Confidence            46899999999999987543

>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=95.32  E-value=0.0034  Score=48.18  Aligned_cols=75  Identities=19%  Similarity=0.180  Sum_probs=52.4

Q ss_pred             CCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhh
Q 010136          307 YSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQ  385 (517)
Q Consensus       307 ~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~  385 (517)
                      ++.+++.+||+..+.+++.  -++-.++.+|+.+.+++| |+.   .+|+.|+..|.++...                  
T Consensus         1 ~d~~~R~~Il~~~l~~~~~--~~~vdl~~la~~t~G~SGADi~---~l~~eA~~~a~~~~~~------------------   57 (83)
T 3aji_B            1 MDRRQKRLIFSTITSKMNL--SEEVDLEDYVARPDKISGADIN---SICQESGMLAVRENRY------------------   57 (83)
T ss_dssp             CCHHHHHHHHHHHHTTSCB--CTTCCTHHHHTSSCCCCHHHHH---HHHHHHHHGGGTSCCS------------------
T ss_pred             CCHHHHHHHHHHHhCCCCC--CcccCHHHHHHHcCCCCHHHHH---HHHHHHHHHHHHhccC------------------
Confidence            4678999999988876532  123346777776555555 444   6899998877765433                  


Q ss_pred             hhhhhhccCccccHHHHHHHHHHhccChh
Q 010136          386 AASAFEFFNSQVRVDHMAVALSNTFKSPV  414 (517)
Q Consensus       386 ~~~~~~~~~~~Vt~~~v~~a~~~~~~~~~  414 (517)
                                .|+.+||..|+.++.++..
T Consensus        58 ----------~i~~~df~~Al~~~~ps~~   76 (83)
T 3aji_B           58 ----------IVLAKDFEKAYKTVIKKDE   76 (83)
T ss_dssp             ----------SBCHHHHHHHHHHHCC---
T ss_pred             ----------CcCHHHHHHHHHHHccCch
Confidence                      7999999999999887643

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.32  E-value=0.011  Score=52.37  Aligned_cols=27  Identities=26%  Similarity=0.580  Sum_probs=23.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|++|+||||+++.++..+.
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345788999999999999999988774

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.31  E-value=0.084  Score=54.03  Aligned_cols=39  Identities=15%  Similarity=0.061  Sum_probs=30.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +..++|.|+||+|||+++..++..+...    |   ..+++++...
T Consensus       197 G~liiIaG~pG~GKTtlal~ia~~~a~~----g---~~vl~fSlEm  235 (444)
T 3bgw_A          197 RNFVLIAARPSMGKTAFALKQAKNMSDN----D---DVVNLHSLEM  235 (444)
T ss_dssp             SCEEEEEECSSSSHHHHHHHHHHHHHHT----T---CEEEEECSSS
T ss_pred             CcEEEEEeCCCCChHHHHHHHHHHHHHc----C---CEEEEEECCC
Confidence            4578899999999999999998776532    2   3578887654

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=95.31  E-value=0.082  Score=51.07  Aligned_cols=20  Identities=30%  Similarity=0.410  Sum_probs=16.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~  166 (517)
                      +.+.++++++|+|+|||...
T Consensus       129 ~~~~~~l~~a~TGsGKT~a~  148 (300)
T 3fmo_B          129 EPPQNLIAQSQSGTGKTAAF  148 (300)
T ss_dssp             SSCCCEEEECCTTSSHHHHH
T ss_pred             CCCCeEEEECCCCCCccHHH
Confidence            34578999999999999874

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.31  E-value=0.008  Score=54.29  Aligned_cols=25  Identities=12%  Similarity=0.188  Sum_probs=22.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.|++|+||||+++.+++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999998765

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=95.28  E-value=0.094  Score=48.69  Aligned_cols=18  Identities=28%  Similarity=0.504  Sum_probs=15.6

Q ss_pred             CeEEEEcCCCCcHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~  167 (517)
                      .++++.+|+|+|||.+.-
T Consensus        67 ~~~l~~a~TGsGKT~~~~   84 (245)
T 3dkp_A           67 RELLASAPTGSGKTLAFS   84 (245)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CCEEEECCCCCcHHHHHH
Confidence            579999999999998743

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.25  E-value=0.011  Score=54.52  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.|+||+||||+++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.23  E-value=0.012  Score=54.13  Aligned_cols=25  Identities=20%  Similarity=0.243  Sum_probs=22.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.|.|++|+||||+++.+++.++
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g   30 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQ   30 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999987653

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.22  E-value=0.012  Score=53.31  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..+.|.||+|+||||+++.++..+
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4578999999999999999998765

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.17  E-value=0.011  Score=52.84  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.||+|+||||+++.++.
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            578999999999999999975

>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=95.13  E-value=0.028  Score=51.53  Aligned_cols=16  Identities=25%  Similarity=0.306  Sum_probs=14.9

Q ss_pred             CeEEEEcCCCCcHHHH
Q 010136          150 GSLYVCGCPGTGKSLS  165 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l  165 (517)
                      .++++.+|+|+|||.+
T Consensus        52 ~~~lv~~pTGsGKT~~   67 (224)
T 1qde_A           52 HDVLAQAQSGTGKTGT   67 (224)
T ss_dssp             CCEEEECCTTSSHHHH
T ss_pred             CCEEEECCCCCcHHHH
Confidence            6799999999999987

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.07  E-value=0.013  Score=57.05  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=21.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..++|+||+|+|||++++.+++.+
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998875

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.06  E-value=0.044  Score=57.14  Aligned_cols=50  Identities=12%  Similarity=-0.002  Sum_probs=34.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL  206 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~  206 (517)
                      +..++|.|+||+|||+++..++..+...   .+   ..++|++...  +..++...+.
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a~~---~g---~~vl~~s~E~--s~~~l~~r~~  291 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWGTA---MG---KKVGLAMLEE--SVEETAEDLI  291 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHTTT---SC---CCEEEEESSS--CHHHHHHHHH
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHHHh---cC---CcEEEEeccC--CHHHHHHHHH
Confidence            4468899999999999999998765421   12   2578887644  4556555543

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=95.05  E-value=0.38  Score=44.72  Aligned_cols=19  Identities=21%  Similarity=0.490  Sum_probs=16.1

Q ss_pred             CeEEEEcCCCCcHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~  168 (517)
                      .++++.+|+|+|||.+.-.
T Consensus        61 ~~~l~~a~TGsGKT~~~~~   79 (253)
T 1wrb_A           61 RDIMACAQTGSGKTAAFLI   79 (253)
T ss_dssp             CCEEEECCTTSSHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHH
Confidence            6799999999999987543

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.01  E-value=0.014  Score=55.04  Aligned_cols=26  Identities=27%  Similarity=0.397  Sum_probs=23.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|++|+||||+++.++..++
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            56899999999999999999998764

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=94.99  E-value=0.039  Score=50.94  Aligned_cols=18  Identities=33%  Similarity=0.344  Sum_probs=15.7

Q ss_pred             CCeEEEEcCCCCcHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~  166 (517)
                      +.++++.+|+|+|||.+.
T Consensus        61 ~~~~l~~a~TGsGKT~~~   78 (230)
T 2oxc_A           61 GLDLIVQAKSGTGKTCVF   78 (230)
T ss_dssp             TCCEEEECCTTSSHHHHH
T ss_pred             CCCEEEECCCCCcHHHHH
Confidence            367999999999999874

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=94.96  E-value=0.031  Score=52.91  Aligned_cols=19  Identities=26%  Similarity=0.406  Sum_probs=16.1

Q ss_pred             CeEEEEcCCCCcHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~  168 (517)
                      .++++.+|.|+|||.++-.
T Consensus        92 ~~~lv~a~TGsGKT~~~~l  110 (262)
T 3ly5_A           92 RDLLAAAKTGSGKTLAFLI  110 (262)
T ss_dssp             CCCEECCCTTSCHHHHHHH
T ss_pred             CcEEEEccCCCCchHHHHH
Confidence            5799999999999987543

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=94.94  E-value=0.12  Score=48.29  Aligned_cols=20  Identities=15%  Similarity=0.177  Sum_probs=16.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~  168 (517)
                      +.++++.+|+|+|||.+.-.
T Consensus        80 ~~~~lv~a~TGsGKT~~~~~   99 (249)
T 3ber_A           80 GRDIIGLAETGSGKTGAFAL   99 (249)
T ss_dssp             TCCEEEECCTTSCHHHHHHH
T ss_pred             CCCEEEEcCCCCCchhHhHH
Confidence            36799999999999987543

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=94.92  E-value=0.015  Score=53.95  Aligned_cols=26  Identities=31%  Similarity=0.206  Sum_probs=22.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+.|.||+|+||||+++.+++.++
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999999988763

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.91  E-value=0.04  Score=65.00  Aligned_cols=91  Identities=14%  Similarity=0.038  Sum_probs=58.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~~~~~l  225 (517)
                      +..+.||||+|+|||+++..++.+....    |   -..++++.....++.-     +..++.....   ......++.|
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~~~~----g---~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l 1498 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAAQRE----G---KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQAL 1498 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhc----C---CeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHH
Confidence            4579999999999999999988765432    2   1478999877655442     5666543221   1112224444


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                      +-...   .-+...+.+|+||.+..|..+
T Consensus      1499 ~~~~~---~~~s~~~~~vvvDsv~al~~~ 1524 (1706)
T 3cmw_A         1499 EICDA---LARSGAVDVIVVDSVAALTPK 1524 (1706)
T ss_dssp             HHHHH---HHHHTCCSEEEESCSTTCCCT
T ss_pred             HHHHH---HHHcCCCCEEEEccHHhCCcc
Confidence            43222   112556789999999999875

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=94.90  E-value=0.038  Score=51.27  Aligned_cols=18  Identities=22%  Similarity=0.300  Sum_probs=15.6

Q ss_pred             CeEEEEcCCCCcHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~  167 (517)
                      .++++.+|+|+|||.+.-
T Consensus        68 ~~~li~apTGsGKT~~~~   85 (237)
T 3bor_A           68 YDVIAQAQSGTGKTATFA   85 (237)
T ss_dssp             CCEEECCCSSHHHHHHHH
T ss_pred             CCEEEECCCCCcHHHHHH
Confidence            679999999999998743

>1p6r_A Penicillinase repressor; transcription regulation, DNA-binding, winged helix protein, bacterial resistance to antibiotics; NMR {Bacillus licheniformis} SCOP: a.4.5.39 PDB: 2p7c_B

Probab=94.89  E-value=0.1  Score=39.51  Aligned_cols=74  Identities=19%  Similarity=0.192  Sum_probs=58.4

Q ss_pred             hccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeec
Q 010136          418 IKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKA  497 (517)
Q Consensus       418 i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~  497 (517)
                      +.+|+..+..||..+..     ...++..+|.+....   .   +.++.+.+..+++.|++.|+|...+.|+...|.+.+
T Consensus         4 ~~~lt~~e~~vL~~L~~-----~~~~t~~ei~~~l~~---~---~~~s~~Tv~~~l~rL~~kGlv~r~~~gr~~~y~~~~   72 (82)
T 1p6r_A            4 IPQISDAELEVMKVIWK-----HSSINTNEVIKELSK---T---STWSPKTIQTMLLRLIKKGALNHHKEGRVFVYTPNI   72 (82)
T ss_dssp             CCCCCHHHHHHHHHHHT-----SSSEEHHHHHHHHHH---H---SCCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEESC
T ss_pred             cCCCCHHHHHHHHHHHc-----CCCCCHHHHHHHHhh---c---CCccHHHHHHHHHHHHHCCCeEEEecCCEEEEEeec
Confidence            35789999999987763     246899999775432   1   357889999999999999999987778888888888


Q ss_pred             CHHHH
Q 010136          498 DESDI  502 (517)
Q Consensus       498 ~~~~i  502 (517)
                      +.++.
T Consensus        73 ~~~~~   77 (82)
T 1p6r_A           73 DESDY   77 (82)
T ss_dssp             SSSTT
T ss_pred             CHHHH
Confidence            87754

>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=94.84  E-value=0.052  Score=52.38  Aligned_cols=94  Identities=15%  Similarity=0.148  Sum_probs=51.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH--HHHHHHHhCCCCCCC-CCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI--FSKILLKLQPRKKLN-GSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i--~~~i~~~l~~~~~~~-~~~~~~~~l  225 (517)
                      +..+.|+|++|+||||++..++..+...    +   ..+..+++... .....  +..+....+-..... ....+.+.+
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~----~---~~v~l~~~d~~-~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~  169 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGK----G---RRPLLVAADTQ-RPAAREQLRLLGEKVGVPVLEVMDGESPESIR  169 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHT----T---CCEEEEECCSS-CHHHHHHHHHHHHHHTCCEEECCTTCCHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEecCCcc-cHhHHHHHHHhcccCCeEEEEcCCCCCHHHHH
Confidence            4467888999999999999999877542    2   24556665443 23221  223334433221111 123344443


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      +..+....   ...+-+|+||+.-.+..
T Consensus       170 ~~~l~~~~---~~~~D~viiDtpp~~~~  194 (295)
T 1ls1_A          170 RRVEEKAR---LEARDLILVDTAGRLQI  194 (295)
T ss_dssp             HHHHHHHH---HHTCCEEEEECCCCSSC
T ss_pred             HHHHHHHH---hCCCCEEEEeCCCCccc
Confidence            44443210   12356899999866543

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.81  E-value=0.026  Score=51.55  Aligned_cols=28  Identities=21%  Similarity=0.369  Sum_probs=23.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .....+.|.|.+|+|||+++..++..+.
T Consensus        28 ~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           28 SGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3567899999999999999999987653

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.79  E-value=0.017  Score=58.79  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=21.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|+|+||+||||+++.+++.+
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhc
Confidence            4568899999999999999987654

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=94.78  E-value=0.0099  Score=54.19  Aligned_cols=112  Identities=13%  Similarity=0.072  Sum_probs=50.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQN  227 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~  227 (517)
                      .+...+++|+.|+|||+.+-..+..+..    .+.   .++.++.... +.+. ...+...++.......    .....+
T Consensus        27 ~G~I~vitG~M~sGKTT~Llr~~~r~~~----~g~---kvli~kp~~D-~R~~-~~~I~Sr~G~~~~a~~----v~~~~d   93 (219)
T 3e2i_A           27 SGWIECITGSMFSGKSEELIRRLRRGIY----AKQ---KVVVFKPAID-DRYH-KEKVVSHNGNAIEAIN----ISKASE   93 (219)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHHH----TTC---CEEEEEEC-------------CBTTBCCEEEE----ESSGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHH----cCC---ceEEEEeccC-Ccch-hhhHHHhcCCceeeEE----eCCHHH
Confidence            4567789999999999955444444432    222   3444443221 1111 1123333322111000    001112


Q ss_pred             HHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEEC
Q 010136          228 LYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIAN  280 (517)
Q Consensus       228 ~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian  280 (517)
                      ++..  .  .....+|+|||++.|...--+.+..+.+    .+..|++-|.-+
T Consensus        94 i~~~--i--~~~~dvV~IDEaQFf~~~~v~~l~~la~----~gi~Vi~~GLd~  138 (219)
T 3e2i_A           94 IMTH--D--LTNVDVIGIDEVQFFDDEIVSIVEKLSA----DGHRVIVAGLDM  138 (219)
T ss_dssp             GGGS--C--CTTCSEEEECCGGGSCTHHHHHHHHHHH----TTCEEEEEEESB
T ss_pred             HHHH--H--hcCCCEEEEechhcCCHHHHHHHHHHHH----CCCEEEEeeccc
Confidence            2220  1  2345699999999986432234444432    345566655433

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.76  E-value=0.033  Score=51.00  Aligned_cols=28  Identities=29%  Similarity=0.381  Sum_probs=23.8

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .....+.|.|.+|+|||+++..++..+.
T Consensus        36 ~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           36 HGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            4567889999999999999999987653

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=94.76  E-value=0.13  Score=51.41  Aligned_cols=20  Identities=25%  Similarity=0.318  Sum_probs=17.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~  167 (517)
                      .+.++++.+|+|+|||.++-
T Consensus        63 ~~~~~lv~apTGsGKT~~~~   82 (412)
T 3fht_A           63 PPQNLIAQSQSGTGKTAAFV   82 (412)
T ss_dssp             SCCCEEEECCTTSCHHHHHH
T ss_pred             CCCeEEEECCCCchHHHHHH
Confidence            45789999999999998853

>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=94.76  E-value=0.025  Score=49.72  Aligned_cols=27  Identities=30%  Similarity=0.238  Sum_probs=23.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ...+.|.|++|+||||++..++..+..
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~   30 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVR   30 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHh
Confidence            457889999999999999999988764

>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=94.73  E-value=0.021  Score=52.62  Aligned_cols=26  Identities=19%  Similarity=0.201  Sum_probs=22.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||+|+||||+++.++..+
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45678899999999999999987764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.67  E-value=0.023  Score=50.98  Aligned_cols=25  Identities=28%  Similarity=0.542  Sum_probs=22.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.|.|++|+||||+++.++..+.
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            3578999999999999999998875

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.66  E-value=0.16  Score=51.56  Aligned_cols=92  Identities=15%  Similarity=0.167  Sum_probs=50.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH--HHHHHHHhCCCCCC-CCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI--FSKILLKLQPRKKL-NGSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i--~~~i~~~l~~~~~~-~~~~~~~~~l  225 (517)
                      +..+.|.|++|+||||++..++..+...    +   ..+..+.+... .+...  +.......+-..-. ..+..+.+.+
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~~~----g---~~Vllvd~D~~-r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~  169 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGK----G---RRPLLVAADTQ-RPAAREQLRLLGEKVGVPVLEVMDGESPESIR  169 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTT----T---CCEEEEECCSS-CHHHHHHHHHHHHHHTCCEEECCTTCCHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc----C---CeEEEeecccc-CchhHHHHHHhcccCCccEEecCCCCCHHHHH
Confidence            4468889999999999999999887532    2   24666666443 33222  23334444322111 1123334444


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchh
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYL  251 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L  251 (517)
                      ...+...   .....-++|||=.-.+
T Consensus       170 ~~~l~~~---~~~~~DvVIIDTaG~l  192 (425)
T 2ffh_A          170 RRVEEKA---RLEARDLILVDTAGRL  192 (425)
T ss_dssp             HHHHHHH---HHTTCSEEEEECCCCS
T ss_pred             HHHHHHH---HHCCCCEEEEcCCCcc
Confidence            4444421   0123457888966554

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=94.64  E-value=0.03  Score=60.10  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+|.||||||||+++..++..+.
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l~  220 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHLA  220 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            35789999999999999988877664

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.62  E-value=0.022  Score=53.96  Aligned_cols=29  Identities=31%  Similarity=0.564  Sum_probs=24.8

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..+..+.|.||+|+||||+++.++..+..
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~~   51 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYINQ   51 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCCC
Confidence            35668999999999999999999887653

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=94.62  E-value=0.02  Score=51.69  Aligned_cols=24  Identities=25%  Similarity=0.225  Sum_probs=21.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+.|.|++|+||||+++.+++.++
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            688999999999999999988764

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.62  E-value=0.018  Score=54.25  Aligned_cols=27  Identities=26%  Similarity=0.230  Sum_probs=23.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.||+|+||||+++.+++.|+
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            456799999999999999999988764

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=94.61  E-value=0.1  Score=49.73  Aligned_cols=42  Identities=17%  Similarity=0.074  Sum_probs=29.0

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +.-+..|.+.+..++..       ...+|.+|+|+|||.++-.++....
T Consensus       112 ~~l~~~Q~~ai~~~l~~-------~~~ll~~~tGsGKT~~~~~~~~~~~  153 (282)
T 1rif_A          112 IEPHWYQKDAVFEGLVN-------RRRILNLPTSAGRSLIQALLARYYL  153 (282)
T ss_dssp             CCCCHHHHHHHHHHHHH-------SEEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             cCccHHHHHHHHHHHhc-------CCeEEEcCCCCCcHHHHHHHHHHHH
Confidence            34566666556555543       4568899999999999977765543

>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=94.60  E-value=0.018  Score=52.08  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|++|+||||+++.++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            588999999999999999987

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=94.60  E-value=0.1  Score=47.60  Aligned_cols=19  Identities=26%  Similarity=0.177  Sum_probs=16.1

Q ss_pred             CeEEEEcCCCCcHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~  168 (517)
                      .++++.+|+|+|||.+.-.
T Consensus        42 ~~~lv~a~TGsGKT~~~~~   60 (219)
T 1q0u_A           42 ESMVGQSQTGTGKTHAYLL   60 (219)
T ss_dssp             CCEEEECCSSHHHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHH
Confidence            6799999999999987443

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=94.59  E-value=0.01  Score=54.00  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+.|.|++|+||||+++.+++.+.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999988875

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=94.58  E-value=0.02  Score=49.83  Aligned_cols=26  Identities=27%  Similarity=0.312  Sum_probs=23.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45578899999999999999998876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=94.55  E-value=0.016  Score=51.02  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=18.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~  168 (517)
                      .+..+.|.||+|+||||+++.
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHH
Confidence            455788999999999999995

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.54  E-value=0.021  Score=52.41  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=22.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||+|+||||+++.++..+
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45678899999999999999998754

>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=94.54  E-value=0.26  Score=44.77  Aligned_cols=22  Identities=14%  Similarity=0.084  Sum_probs=17.8

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++++.+|+|+|||.++-..+-
T Consensus        52 ~~~li~~~TGsGKT~~~~~~~~   73 (220)
T 1t6n_A           52 MDVLCQAKSGMGKTAVFVLATL   73 (220)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEECCCCCchhhhhhHHHH
Confidence            5799999999999987655443

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=94.54  E-value=0.021  Score=51.93  Aligned_cols=27  Identities=19%  Similarity=0.198  Sum_probs=23.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|++|+||||+++.++..+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345788999999999999999988764

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=94.54  E-value=0.02  Score=52.02  Aligned_cols=26  Identities=15%  Similarity=0.225  Sum_probs=22.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||+|+||||+++.++..+
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45678899999999999999998765

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.50  E-value=0.032  Score=54.45  Aligned_cols=26  Identities=19%  Similarity=0.224  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+.|.||+|+||||+++.+...+.
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            33688999999999999999877664

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=94.50  E-value=0.069  Score=52.52  Aligned_cols=24  Identities=17%  Similarity=0.090  Sum_probs=19.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..++++.+|+|+|||.++-..+-.
T Consensus        44 ~~~~l~~~~TGsGKT~~~~~~~~~   67 (367)
T 1hv8_A           44 EYNIVAQARTGSGKTASFAIPLIE   67 (367)
T ss_dssp             CSEEEEECCSSSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCChHHHHHHHHHHH
Confidence            368999999999999987655433

>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=94.49  E-value=0.021  Score=51.39  Aligned_cols=25  Identities=20%  Similarity=0.274  Sum_probs=21.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.|++|+||||+++.+++.
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4557899999999999999998764

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=94.48  E-value=0.025  Score=52.44  Aligned_cols=27  Identities=30%  Similarity=0.413  Sum_probs=23.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|+||+||||+++.+++.+.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            345788999999999999999988775

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=94.48  E-value=0.088  Score=54.20  Aligned_cols=41  Identities=17%  Similarity=0.127  Sum_probs=28.7

Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          126 IVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       126 l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +.-+..|.+.+..++.       .+.++|.||+|+|||.++-.++..+
T Consensus        92 ~~l~~~Q~~ai~~i~~-------~~~~ll~~~TGsGKT~~~l~~i~~~  132 (472)
T 2fwr_A           92 ISLRDYQEKALERWLV-------DKRGCIVLPTGSGKTHVAMAAINEL  132 (472)
T ss_dssp             CCBCHHHHHHHHHHTT-------TTEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHh-------cCCEEEEeCCCCCHHHHHHHHHHHc
Confidence            4446666655554432       2469999999999999987776654

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.47  E-value=0.045  Score=50.83  Aligned_cols=49  Identities=12%  Similarity=0.129  Sum_probs=31.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .+..++|+|+||+|||+++..++......   .+   ..++|++...  ++..+...
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~~~~---~~---~~v~~~s~E~--~~~~~~~~   77 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKGAEE---YG---EPGVFVTLEE--RARDLRRE   77 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHHH---HC---CCEEEEESSS--CHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHh---cC---CCceeecccC--CHHHHHHH
Confidence            35578999999999999999887543221   12   2467777654  34554443

>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=94.45  E-value=0.018  Score=54.24  Aligned_cols=27  Identities=26%  Similarity=0.223  Sum_probs=23.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..|.|.|++|+||||+++.+++.++
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            345788999999999999999988764

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=94.41  E-value=0.09  Score=57.35  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=18.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      ..+++++||+|+|||+.+-..+
T Consensus        46 ~~~~lv~apTGsGKT~~~~l~i   67 (715)
T 2va8_A           46 GNRLLLTSPTGSGKTLIAEMGI   67 (715)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHH
T ss_pred             CCcEEEEcCCCCcHHHHHHHHH
Confidence            5789999999999999985443

>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=94.38  E-value=0.021  Score=51.65  Aligned_cols=21  Identities=19%  Similarity=0.227  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|++|+||||+++.++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999865

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.33  E-value=0.022  Score=55.01  Aligned_cols=25  Identities=16%  Similarity=0.370  Sum_probs=21.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|+||+|+|||+++..+++.+
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            4568899999999999999998875

>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=94.32  E-value=0.05  Score=57.05  Aligned_cols=120  Identities=14%  Similarity=0.086  Sum_probs=64.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCC-------------CC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPR-------------KK  214 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~-------------~~  214 (517)
                      .+..++|.|++|+|||++++.++..+..    .|.   .++++....  +...+...+ ..++..             ..
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~~----~G~---~vi~~~~ee--~~~~l~~~~-~~~g~~~~~~~~~g~~~~~~~  349 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENACA----NKE---RAILFAYEE--SRAQLLRNA-YSWGMDFEEMERQNLLKIVCA  349 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHT----TTC---CEEEEESSS--CHHHHHHHH-HTTSCCHHHHHHTTSEEECCC
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHh----CCC---CEEEEEEeC--CHHHHHHHH-HHcCCCHHHHHhCCCEEEEEe
Confidence            4567889999999999999999876543    122   356666543  234443332 111110             00


Q ss_pred             CCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc-----CchHHHHHhccCCCCCCcEEEEEEECCC
Q 010136          215 LNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR-----DRAVLHDLFMLTTFPFSRFILIGIANAI  282 (517)
Q Consensus       215 ~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~-----~~~~L~~l~~~~~~~~~~v~lI~ian~~  282 (517)
                      .+...+..+..+..+.. .  ...++.+||||=+..|...     ....++.++......  .+.+|.++...
T Consensus       350 ~p~~LS~g~~q~~~~a~-~--l~~~p~llilDp~~~Ld~~~~~~~~~~~i~~ll~~l~~~--g~tvilvsh~~  417 (525)
T 1tf7_A          350 YPESAGLEDHLQIIKSE-I--NDFKPARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQE--EITGLFTNTSD  417 (525)
T ss_dssp             CGGGSCHHHHHHHHHHH-H--HTTCCSEEEEECHHHHTSSSCHHHHHHHHHHHHHHHHHT--TCEEEEEEECS
T ss_pred             ccccCCHHHHHHHHHHH-H--HhhCCCEEEEcChHHHHhhCChHHHHHHHHHHHHHHHhC--CCEEEEEECcc
Confidence            01112333333333331 1  1345789999966666554     345566666543222  34455555544

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.32  E-value=0.027  Score=55.95  Aligned_cols=28  Identities=32%  Similarity=0.554  Sum_probs=24.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..+.++|.||+|+||||+++.++..+..
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~  149 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNN  149 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccC
Confidence            4558999999999999999999988764

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=94.31  E-value=0.3  Score=48.90  Aligned_cols=20  Identities=20%  Similarity=0.270  Sum_probs=16.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKV  169 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v  169 (517)
                      .++++.+|+|+|||.+.-..
T Consensus        75 ~~~lv~a~TGsGKT~~~~~~   94 (410)
T 2j0s_A           75 RDVIAQSQSGTGKTATFSIS   94 (410)
T ss_dssp             CCEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEECCCCCCchHHHHHH
Confidence            57999999999999776543

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=94.30  E-value=0.06  Score=54.95  Aligned_cols=25  Identities=16%  Similarity=0.139  Sum_probs=19.6

Q ss_pred             CCeEEEEcCCCCcHHHHH-HHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSM-EKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~-~~v~~~l  173 (517)
                      +.++++.||+|+|||..+ ..++..+
T Consensus         2 g~~~lv~a~TGsGKT~~~l~~~l~~~   27 (431)
T 2v6i_A            2 RELTVLDLHPGAGKTRRVLPQLVREA   27 (431)
T ss_dssp             CCEEEEECCTTSCTTTTHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            468999999999999986 5555443

>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=94.30  E-value=0.036  Score=56.25  Aligned_cols=28  Identities=29%  Similarity=0.341  Sum_probs=24.3

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++.++|.||+|+||||+++.++..+.
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            3556789999999999999999988764

>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=94.27  E-value=0.14  Score=55.80  Aligned_cols=122  Identities=18%  Similarity=0.247  Sum_probs=60.8

Q ss_pred             CCeEEEEcCCCCcHHHHHH-HHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH--HHhCCCCCCCCC-----C-
Q 010136          149 AGSLYVCGCPGTGKSLSME-KVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKIL--LKLQPRKKLNGS-----T-  219 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~-~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~--~~l~~~~~~~~~-----~-  219 (517)
                      ..+++++||+|+|||+++- .+++.+...    +   ..++++.... .-..+.+..+.  ..++.......|     . 
T Consensus        39 ~~~~lv~apTGsGKT~~~~l~il~~~~~~----~---~~~l~i~P~r-aLa~q~~~~~~~l~~~g~~v~~~~G~~~~~~~  110 (720)
T 2zj8_A           39 GKNALISIPTASGKTLIAEIAMVHRILTQ----G---GKAVYIVPLK-ALAEEKFQEFQDWEKIGLRVAMATGDYDSKDE  110 (720)
T ss_dssp             TCEEEEECCGGGCHHHHHHHHHHHHHHHH----C---SEEEEECSSG-GGHHHHHHHTGGGGGGTCCEEEECSCSSCCCG
T ss_pred             CCcEEEEcCCccHHHHHHHHHHHHHHHhC----C---CEEEEEcCcH-HHHHHHHHHHHHHHhcCCEEEEecCCCCcccc
Confidence            5789999999999999884 444444321    1   3567766433 22344444442  111110000000     0 


Q ss_pred             ---------CHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc-CchHHHHHhccCCCCCCcEEEEEEECCC
Q 010136          220 ---------SPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR-DRAVLHDLFMLTTFPFSRFILIGIANAI  282 (517)
Q Consensus       220 ---------~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~-~~~~L~~l~~~~~~~~~~v~lI~ian~~  282 (517)
                               .+.+.+..++... ...-....+|||||+|.+... ....+..++.... .  .+-+|+.|-++
T Consensus       111 ~~~~~~Iiv~Tpe~l~~~~~~~-~~~l~~~~~vIiDE~H~l~~~~r~~~~~~ll~~l~-~--~~~ii~lSATl  179 (720)
T 2zj8_A          111 WLGKYDIIIATAEKFDSLLRHG-SSWIKDVKILVADEIHLIGSRDRGATLEVILAHML-G--KAQIIGLSATI  179 (720)
T ss_dssp             GGGGCSEEEECHHHHHHHHHHT-CTTGGGEEEEEEETGGGGGCTTTHHHHHHHHHHHB-T--TBEEEEEECCC
T ss_pred             ccCCCCEEEECHHHHHHHHHcC-hhhhhcCCEEEEECCcccCCCcccHHHHHHHHHhh-c--CCeEEEEcCCc
Confidence                     0134444444421 111235679999999999763 3333444433221 1  34455555554

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=94.22  E-value=0.064  Score=52.15  Aligned_cols=28  Identities=25%  Similarity=0.209  Sum_probs=23.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..+.|.||+|+||||+++.++..+..
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhccc
Confidence            4557889999999999999999887753

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=94.21  E-value=0.036  Score=48.94  Aligned_cols=27  Identities=26%  Similarity=0.277  Sum_probs=23.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ...+.|.|++|+||||+++.++..+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            457889999999999999999887653

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.19  E-value=0.037  Score=57.48  Aligned_cols=58  Identities=9%  Similarity=-0.030  Sum_probs=38.0

Q ss_pred             hhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          115 EALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       115 ~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +.|.....|..-..|.+..+.+.+....  ....+..|+|.|.+|+||||+++.+++.|.
T Consensus       363 ~~Lr~G~~~P~~f~rpeV~~vLr~~~~~--~~~~~~~I~l~GlsGsGKSTIa~~La~~L~  420 (511)
T 1g8f_A          363 RRLRVGGEIPEWFSYPEVVKILRESNPP--RPKQGFSIVLGNSLTVSREQLSIALLSTFL  420 (511)
T ss_dssp             HHHHHTCCCCTTTSCHHHHHHHHHHSCC--GGGCCEEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             HHHhCCCCCCccccChhhHHHHHHhccc--ccccceEEEecccCCCCHHHHHHHHHHHHH
Confidence            3344444444455555544444443211  123456899999999999999999999986

>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=94.18  E-value=0.022  Score=51.66  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=21.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..+.|.|++|+||||+++.++..+
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4468899999999999999987653

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.17  E-value=0.08  Score=48.89  Aligned_cols=29  Identities=17%  Similarity=0.232  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      .+..|.|.|++|+||||+++.+++.+...
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            35578899999999999999999988754

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.16  E-value=0.033  Score=53.88  Aligned_cols=27  Identities=37%  Similarity=0.561  Sum_probs=23.8

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+..+.|+||+|+||||+++.++..+
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            356688999999999999999998876

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.10  E-value=0.026  Score=54.47  Aligned_cols=23  Identities=30%  Similarity=0.525  Sum_probs=20.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..++|.|+||+||||+++.+++.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            36889999999999999998774

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.10  E-value=0.046  Score=57.47  Aligned_cols=59  Identities=12%  Similarity=0.144  Sum_probs=35.9

Q ss_pred             HhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       114 ~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++.|.....+..-..+.+....+......  .-..+..++|.|++|+||||+++.++..+.
T Consensus       336 r~~Lr~G~~~p~~f~~peV~~vLR~~~~~--~~~~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          336 QRRMRAGLKIPEWYSFPEVLAELHRQTPP--RERQGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             HHHHTTTCCCCTTTSCHHHHHHHHHHSCC--GGGSCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCCCccccccchhhhhhhhccc--ccccceEEEEECCCCChHHHHHHHHHHhhc
Confidence            34455554443334444433323222111  123456899999999999999999998875

>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=94.09  E-value=0.038  Score=53.59  Aligned_cols=28  Identities=29%  Similarity=0.552  Sum_probs=24.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..+.|.||+|+||||+++.++..+..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4567889999999999999999887753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.05  E-value=0.063  Score=47.61  Aligned_cols=25  Identities=16%  Similarity=0.210  Sum_probs=21.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ....++|.|++|+|||+++..+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999998653

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.03  E-value=0.084  Score=51.06  Aligned_cols=27  Identities=30%  Similarity=0.549  Sum_probs=23.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..+.|.||.|+||||+++.++..+..
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            446889999999999999999988753

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.00  E-value=0.022  Score=52.75  Aligned_cols=26  Identities=19%  Similarity=0.152  Sum_probs=16.5

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHH-HHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQ-HYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~-~~l  173 (517)
                      .+..+.|.||+|+||||+++.++ ..+
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            35578899999999999999997 654

>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=94.00  E-value=0.048  Score=60.10  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+|.||||||||+++..++..+.
T Consensus       371 ~~~~lI~GppGTGKT~ti~~~i~~l~  396 (800)
T 2wjy_A          371 RPLSLIQGPPGTGKTVTSATIVYHLA  396 (800)
T ss_dssp             SSEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHH
Confidence            36789999999999999998887765

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=93.97  E-value=0.036  Score=52.89  Aligned_cols=27  Identities=15%  Similarity=0.111  Sum_probs=23.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..++|+|++|+|||++++.++..+.
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            456789999999999999999987654

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=93.93  E-value=0.28  Score=55.55  Aligned_cols=98  Identities=13%  Similarity=0.224  Sum_probs=53.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhC------CCCCCCCCC---
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQ------PRKKLNGST---  219 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~------~~~~~~~~~---  219 (517)
                      +.++++.+|.|+|||.++...+.....    .+   ..++++.-.. .-..+.+..+...++      +........   
T Consensus       101 g~~vLV~apTGSGKTlva~lai~~~l~----~g---~rvL~l~Ptk-aLa~Q~~~~l~~~~~~vglltGd~~~~~~~~Iv  172 (1010)
T 2xgj_A          101 GESVLVSAHTSAGKTVVAEYAIAQSLK----NK---QRVIYTSPIK-ALSNQKYRELLAEFGDVGLMTGDITINPDAGCL  172 (1010)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHH----TT---CEEEEEESSH-HHHHHHHHHHHHHHSCEEEECSSCEECTTCSEE
T ss_pred             CCCEEEECCCCCChHHHHHHHHHHHhc----cC---CeEEEECChH-HHHHHHHHHHHHHhCCEEEEeCCCccCCCCCEE
Confidence            368999999999999987554433221    12   3567766432 113345555555443      111111010   


Q ss_pred             -CHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC
Q 010136          220 -SPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD  255 (517)
Q Consensus       220 -~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~  255 (517)
                       .+.+.|...+... ........+|||||+|.+....
T Consensus       173 V~Tpe~L~~~L~~~-~~~l~~l~lVViDEaH~l~d~~  208 (1010)
T 2xgj_A          173 VMTTEILRSMLYRG-SEVMREVAWVIFDEVHYMRDKE  208 (1010)
T ss_dssp             EEEHHHHHHHHHHT-CTTGGGEEEEEEETGGGGGCTT
T ss_pred             EEcHHHHHHHHHcC-cchhhcCCEEEEechhhhcccc
Confidence             1234455444321 1123456799999999997653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.92  E-value=0.042  Score=51.01  Aligned_cols=27  Identities=19%  Similarity=0.165  Sum_probs=23.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|++|+||||+++.++..++
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            455799999999999999999987663

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=93.91  E-value=0.16  Score=50.44  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=18.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      .+.++++.+|+|+|||.++-..+
T Consensus        43 ~~~~~lv~a~TGsGKT~~~~~~~   65 (395)
T 3pey_A           43 PPRNMIAQSQSGTGKTAAFSLTM   65 (395)
T ss_dssp             SCCCEEEECCTTSCHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHH
Confidence            45789999999999998765443

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=93.90  E-value=0.039  Score=53.10  Aligned_cols=40  Identities=18%  Similarity=0.027  Sum_probs=29.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+..+.|.|+||+|||++++.++..+...   .|.   .+++++..
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~~---~G~---~v~~~~~e   73 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGTA---MGK---KVGLAMLE   73 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHHT---SCC---CEEEEESS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHH---cCC---eEEEEeCc
Confidence            45678899999999999999998776531   121   35666654

>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=93.90  E-value=0.071  Score=51.73  Aligned_cols=27  Identities=22%  Similarity=0.239  Sum_probs=22.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|++|+||||+++.++..+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            445788999999999999999987664

>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=93.89  E-value=0.037  Score=49.74  Aligned_cols=24  Identities=33%  Similarity=0.282  Sum_probs=21.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+.|+|++|+||||+++.+++.+
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            358899999999999999998764

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=93.85  E-value=0.12  Score=53.36  Aligned_cols=19  Identities=26%  Similarity=0.368  Sum_probs=16.8

Q ss_pred             CCCeEEEEcCCCCcHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~  166 (517)
                      .+.++++.||+|+|||...
T Consensus       130 ~~~~~l~~a~TGsGKT~~~  148 (479)
T 3fmp_B          130 PPQNLIAQSQSGTGKTAAF  148 (479)
T ss_dssp             SCCEEEEECCSSSSHHHHH
T ss_pred             CCCcEEEEcCCCCchhHHH
Confidence            4679999999999999874

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=93.84  E-value=0.39  Score=50.49  Aligned_cols=21  Identities=19%  Similarity=0.271  Sum_probs=17.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~  168 (517)
                      ...++++.+|+|+|||.+.-.
T Consensus       110 ~~~~~lv~apTGsGKTl~~~l  130 (563)
T 3i5x_A          110 EDHDVIARAKTGTGKTFAFLI  130 (563)
T ss_dssp             SSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCeEEEECCCCCCccHHHHH
Confidence            457899999999999986443

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=93.84  E-value=0.077  Score=48.49  Aligned_cols=27  Identities=22%  Similarity=0.219  Sum_probs=23.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..+.|.|++|+||||+++.+++.+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~   32 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRE   32 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            456889999999999999999888764

>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=93.79  E-value=0.037  Score=55.31  Aligned_cols=28  Identities=32%  Similarity=0.579  Sum_probs=24.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..++|+||+|+||||+++.++..+..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~  162 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQ  162 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCc
Confidence            4567999999999999999999987754

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=93.77  E-value=0.16  Score=49.11  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=18.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +.++++.+|+|+|||.++-..+
T Consensus        31 ~~~~lv~~~TGsGKT~~~~~~~   52 (337)
T 2z0m_A           31 GKNVVVRAKTGSGKTAAYAIPI   52 (337)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEcCCCCcHHHHHHHHH
Confidence            3689999999999998765554

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.76  E-value=0.023  Score=55.65  Aligned_cols=26  Identities=27%  Similarity=0.255  Sum_probs=22.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.||+|+|||+++..+++.++
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            45799999999999999999988753

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=93.66  E-value=0.33  Score=48.59  Aligned_cols=21  Identities=19%  Similarity=0.216  Sum_probs=16.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKV  169 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v  169 (517)
                      +.++++.+|+|+|||.++-..
T Consensus        77 ~~~~lv~a~TGsGKT~~~~~~   97 (414)
T 3eiq_A           77 GYDVIAQAQSGTGKTATFAIS   97 (414)
T ss_dssp             TCCEEECCCSCSSSHHHHHHH
T ss_pred             CCCEEEECCCCCcccHHHHHH
Confidence            356999999999999885443

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.64  E-value=0.11  Score=51.48  Aligned_cols=27  Identities=30%  Similarity=0.549  Sum_probs=23.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..+.|.||.|+||||+++.++..+..
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            346889999999999999999988753

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=93.63  E-value=0.044  Score=51.21  Aligned_cols=27  Identities=30%  Similarity=0.292  Sum_probs=23.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+-|.||.|+||||+++.++..++
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~lG   50 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELLG   50 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            345688999999999999999988764

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=93.60  E-value=0.055  Score=55.71  Aligned_cols=51  Identities=14%  Similarity=0.141  Sum_probs=32.6

Q ss_pred             CCCeEEEEcCCCCcHHHH-HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhC
Q 010136          148 KAGSLYVCGCPGTGKSLS-MEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQ  210 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l-~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~  210 (517)
                      ...++++.||+|+|||+. +-.++..+..    .+   ..++++...     ..+..++...+.
T Consensus        20 ~~~~vlv~a~TGsGKT~~~~l~il~~~~~----~~---~~~lvl~Pt-----r~La~Q~~~~l~   71 (459)
T 2z83_A           20 KRQMTVLDLHPGSGKTRKILPQIIKDAIQ----QR---LRTAVLAPT-----RVVAAEMAEALR   71 (459)
T ss_dssp             TTCEEEECCCTTSCTTTTHHHHHHHHHHH----TT---CCEEEEECS-----HHHHHHHHHHTT
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHHh----CC---CcEEEECch-----HHHHHHHHHHhc
Confidence            357899999999999997 5566555432    12   346666532     335555666664

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=93.59  E-value=0.031  Score=50.31  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.||+|+|||+++..+++..
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4568999999999999999987653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.58  E-value=0.054  Score=49.90  Aligned_cols=31  Identities=19%  Similarity=0.298  Sum_probs=25.5

Q ss_pred             ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          145 EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       145 ~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..+..+.|.|++|+||||+++.+++.+..
T Consensus        17 ~~~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           17 QGPGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             --CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3445667889999999999999999998875

>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=93.53  E-value=0.044  Score=50.05  Aligned_cols=23  Identities=22%  Similarity=0.211  Sum_probs=20.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      +..+.|.|++|+||||+++.++.
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999999865

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=93.51  E-value=0.033  Score=53.88  Aligned_cols=25  Identities=16%  Similarity=0.189  Sum_probs=21.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|.||+|+|||+++..+++.+
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3468899999999999999998765

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=93.51  E-value=0.29  Score=49.72  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=20.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++++.+|+|+|||.++-.++..+.
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~~   48 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYRL   48 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            899999999999999888876653

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=93.46  E-value=0.18  Score=50.27  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=17.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~  170 (517)
                      .++++.+|+|+|||.++-..+
T Consensus        59 ~~~li~a~TGsGKT~~~~~~~   79 (400)
T 1s2m_A           59 RDILARAKNGTGKTAAFVIPT   79 (400)
T ss_dssp             CCEEEECCTTSCHHHHHHHHH
T ss_pred             CCEEEECCCCcHHHHHHHHHH
Confidence            569999999999998765443

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=93.42  E-value=0.053  Score=59.07  Aligned_cols=22  Identities=23%  Similarity=0.229  Sum_probs=18.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      ..++++.||+|+|||+++-..+
T Consensus        40 ~~~~lv~apTGsGKT~~~~l~i   61 (702)
T 2p6r_A           40 GKNLLLAMPTAAGKTLLAEMAM   61 (702)
T ss_dssp             CSCEEEECSSHHHHHHHHHHHH
T ss_pred             CCcEEEEcCCccHHHHHHHHHH
Confidence            5789999999999999985443

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=93.42  E-value=0.06  Score=59.39  Aligned_cols=27  Identities=26%  Similarity=0.353  Sum_probs=22.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..+|.||||||||+++..++..+..
T Consensus       375 ~~~~lI~GppGTGKT~~i~~~i~~l~~  401 (802)
T 2xzl_A          375 RPLSLIQGPPGTGKTVTSATIVYHLSK  401 (802)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHh
Confidence            457899999999999999888776653

>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=93.40  E-value=0.055  Score=52.23  Aligned_cols=102  Identities=14%  Similarity=0.136  Sum_probs=54.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-HHHHHHHHHHHhCCCCCCCCCCCHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN-TSEIFSKILLKLQPRKKLNGSTSPLQYLQ  226 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s-~~~i~~~i~~~l~~~~~~~~~~~~~~~l~  226 (517)
                      .+..+.|.|++|+||||++..++..+..   ..|   ..+..+.+..... ..+.+......++.....  ... ...+.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~---~~G---~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~--~~~-~~~l~  174 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISML---EKH---KKIAFITTDTYRIAAVEQLKTYAELLQAPLEV--CYT-KEEFQ  174 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHH---TTC---CCEEEEECCCSSTTHHHHHHHHHTTTTCCCCB--CSS-HHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH---hcC---CEEEEEecCcccchHHHHHHHHHHhcCCCeEe--cCC-HHHHH
Confidence            4568999999999999999999987753   123   2466676655432 222222222222211111  112 23344


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFM  264 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~  264 (517)
                      ..+..     ...+-+||||-.-.+. .....+..+..
T Consensus       175 ~al~~-----~~~~dlvIiDT~G~~~-~~~~~~~el~~  206 (296)
T 2px0_A          175 QAKEL-----FSEYDHVFVDTAGRNF-KDPQYIDELKE  206 (296)
T ss_dssp             HHHHH-----GGGSSEEEEECCCCCT-TSHHHHHHHHH
T ss_pred             HHHHH-----hcCCCEEEEeCCCCCh-hhHHHHHHHHH
Confidence            44431     1345799999654442 23344444433

>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=93.40  E-value=0.066  Score=56.64  Aligned_cols=29  Identities=17%  Similarity=0.265  Sum_probs=25.1

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..+..++|.|.+|+||||+++.+++.+..
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~~L~~  422 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQVTLNQ  422 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHHHhcc
Confidence            34557899999999999999999998874

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=93.35  E-value=0.054  Score=54.31  Aligned_cols=25  Identities=20%  Similarity=0.298  Sum_probs=22.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|.||+|+|||+++..+++.+.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            4678999999999999999998764

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.31  E-value=0.041  Score=50.22  Aligned_cols=25  Identities=28%  Similarity=0.259  Sum_probs=21.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..+.|.|++|+|||++++.+++.+
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3468999999999999999988765

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.29  E-value=0.057  Score=56.29  Aligned_cols=35  Identities=17%  Similarity=0.289  Sum_probs=26.3

Q ss_pred             HHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          138 EFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       138 ~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.-.+.  .+.+++|.||+|+||||+++.++..+.
T Consensus       251 ~~l~~~v~--~g~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          251 AYLWLAIE--HKFSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             HHHHHHHH--TTCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             HHHHHHHh--CCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            34444443  355799999999999999999987653

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.23  E-value=0.042  Score=53.92  Aligned_cols=25  Identities=16%  Similarity=0.110  Sum_probs=22.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|.||+|+|||++++.+++.++
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            3688999999999999999988753

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=93.21  E-value=0.084  Score=53.35  Aligned_cols=37  Identities=19%  Similarity=0.184  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          134 KKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       134 ~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..+.++|.....  ..+.+.|.|++|+||||+++.++..
T Consensus        56 ~~i~~~L~~~~~--~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           56 SAISDALKEIDS--SVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             HHHHHHHHHHHH--CCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             hhhhhhhhhccc--CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            345555555443  4568889999999999999998764

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.18  E-value=0.06  Score=48.88  Aligned_cols=26  Identities=15%  Similarity=0.204  Sum_probs=22.2

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .....++|.|++|+|||+++..+...
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34568999999999999999998654

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=93.12  E-value=0.38  Score=50.89  Aligned_cols=21  Identities=19%  Similarity=0.271  Sum_probs=17.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~  168 (517)
                      .+..+++.+|+|+|||.+.-.
T Consensus        59 ~~~dvlv~apTGsGKTl~~~l   79 (579)
T 3sqw_A           59 EDHDVIARAKTGTGKTFAFLI   79 (579)
T ss_dssp             SSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCeEEEEcCCCcHHHHHHHH
Confidence            456899999999999986443

>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=93.12  E-value=0.048  Score=50.70  Aligned_cols=26  Identities=19%  Similarity=0.257  Sum_probs=21.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45678899999999999999986543

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=93.10  E-value=0.6  Score=47.39  Aligned_cols=19  Identities=26%  Similarity=0.557  Sum_probs=16.2

Q ss_pred             CCeEEEEcCCCCcHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~  167 (517)
                      +.++++.+|+|+|||...-
T Consensus        93 g~d~i~~a~TGsGKT~a~~  111 (434)
T 2db3_A           93 GRDLMACAQTGSGKTAAFL  111 (434)
T ss_dssp             TCCEEEECCTTSSHHHHHH
T ss_pred             CCCEEEECCCCCCchHHHH
Confidence            4689999999999998643

>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=93.07  E-value=0.049  Score=52.14  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +..+.|.|++|+||||+++.++
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4578999999999999999987

>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=92.99  E-value=0.11  Score=53.44  Aligned_cols=27  Identities=19%  Similarity=0.356  Sum_probs=23.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..+.|.|+.|+||||+++.++..+..
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            447889999999999999999887753

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=92.98  E-value=0.072  Score=52.99  Aligned_cols=35  Identities=20%  Similarity=0.391  Sum_probs=27.0

Q ss_pred             HHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          138 EFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       138 ~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+.-.+.  .+..+.|.||.|+||||+++.++..+.
T Consensus       166 ~~l~~~i~--~G~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          166 SFLRRAVQ--LERVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             HHHHHHHH--TTCCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             HHHHHHHh--cCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            44444443  466899999999999999999977653

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=92.98  E-value=0.1  Score=59.60  Aligned_cols=98  Identities=13%  Similarity=0.220  Sum_probs=52.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCC------CCCCCCCC--
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP------RKKLNGST--  219 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~------~~~~~~~~--  219 (517)
                      .+.+++++||.|+|||.++-..+.....    .+   ..++++.-.. .-..+.+..+...++.      ........  
T Consensus       198 ~g~dvLV~ApTGSGKTlva~l~i~~~l~----~g---~rvlvl~Ptr-aLa~Q~~~~l~~~~~~VglltGd~~~~~~~~I  269 (1108)
T 3l9o_A          198 RGESVLVSAHTSAGKTVVAEYAIAQSLK----NK---QRVIYTSPIK-ALSNQKYRELLAEFGDVGLMTGDITINPDAGC  269 (1108)
T ss_dssp             TTCCEEEECCSSSHHHHHHHHHHHHHHH----TT---CEEEEEESSH-HHHHHHHHHHHHHTSSEEEECSSCBCCCSCSE
T ss_pred             cCCCEEEECCCCCChHHHHHHHHHHHHh----cC---CeEEEEcCcH-HHHHHHHHHHHHHhCCccEEeCccccCCCCCE
Confidence            3578999999999999987665544321    11   2466665432 1234455555554431      11111111  


Q ss_pred             --CHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          220 --SPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       220 --~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                        .+.+.|...+.... .......+|||||+|++...
T Consensus       270 lV~Tpe~L~~~L~~~~-~~l~~l~lVVIDEaH~l~d~  305 (1108)
T 3l9o_A          270 LVMTTEILRSMLYRGS-EVMREVAWVIFDEVHYMRDK  305 (1108)
T ss_dssp             EEEEHHHHHHHHHHCS-SHHHHEEEEEEETGGGTTSH
T ss_pred             EEeChHHHHHHHHcCc-cccccCCEEEEhhhhhcccc
Confidence              12344444443110 00224579999999999654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.95  E-value=0.061  Score=45.89  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..++|.|++|+|||++++.+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999998754

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=92.95  E-value=0.074  Score=51.90  Aligned_cols=40  Identities=25%  Similarity=0.482  Sum_probs=30.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +..+.|+|++|+||||++..++..+...    +   -++..+.+...
T Consensus       105 ~~vI~ivG~~G~GKTT~~~~LA~~l~~~----g---~kVllid~D~~  144 (320)
T 1zu4_A          105 LNIFMLVGVNGTGKTTSLAKMANYYAEL----G---YKVLIAAADTF  144 (320)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHHT----T---CCEEEEECCCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC----C---CeEEEEeCCCc
Confidence            4468899999999999999999887642    2   24666666543

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.91  E-value=0.17  Score=46.15  Aligned_cols=27  Identities=22%  Similarity=0.294  Sum_probs=23.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..|.|.|++|+||||.++.+.+.+..
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~~   29 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLEQ   29 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            457889999999999999999988864

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=92.91  E-value=0.042  Score=48.36  Aligned_cols=26  Identities=19%  Similarity=0.304  Sum_probs=22.8

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..+.|.|++|+||||+++.++..+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            46789999999999999999888764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=92.88  E-value=0.058  Score=47.58  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=21.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ++..+|+|+.|+|||++++++.-.+
T Consensus        26 ~g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           26 KGFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SSEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHH
Confidence            4578899999999999999986554

>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=92.88  E-value=0.055  Score=50.39  Aligned_cols=26  Identities=23%  Similarity=0.277  Sum_probs=22.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678899999999999999987654

>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=92.87  E-value=0.057  Score=48.39  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+.|.|++|+|||++++.++..
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            5789999999999999998754

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=92.86  E-value=0.23  Score=56.18  Aligned_cols=97  Identities=12%  Similarity=0.194  Sum_probs=51.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC--------CCCCCC-
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK--------KLNGST-  219 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~--------~~~~~~-  219 (517)
                      +.++++.||+|+|||.++...+..+..    .+   ..++++.-.. .-..+.+..+...+.+..        ...... 
T Consensus        54 g~~vlv~apTGsGKTlv~~~~i~~~~~----~g---~~vlvl~Ptr-aLa~Q~~~~l~~~~~~~~v~~l~G~~~~~~~~~  125 (997)
T 4a4z_A           54 GDSVFVAAHTSAGKTVVAEYAIAMAHR----NM---TKTIYTSPIK-ALSNQKFRDFKETFDDVNIGLITGDVQINPDAN  125 (997)
T ss_dssp             TCEEEEECCTTSCSHHHHHHHHHHHHH----TT---CEEEEEESCG-GGHHHHHHHHHTTC--CCEEEECSSCEECTTSS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHHHHh----cC---CeEEEEeCCH-HHHHHHHHHHHHHcCCCeEEEEeCCCccCCCCC
Confidence            368999999999999876655444322    11   2456555432 234555555554432110        000000 


Q ss_pred             ---CHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          220 ---SPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       220 ---~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                         .+.+.|...+.... .......+|||||+|.+...
T Consensus       126 IlV~Tpe~L~~~l~~~~-~~l~~l~lvViDEaH~l~d~  162 (997)
T 4a4z_A          126 CLIMTTEILRSMLYRGA-DLIRDVEFVIFDEVHYVNDQ  162 (997)
T ss_dssp             EEEEEHHHHHHHHHHTC-SGGGGEEEEEECCTTCCCTT
T ss_pred             EEEECHHHHHHHHHhCc-hhhcCCCEEEEECccccccc
Confidence               12334444443111 11245679999999988654

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=92.85  E-value=0.05  Score=50.17  Aligned_cols=26  Identities=23%  Similarity=0.247  Sum_probs=21.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45578899999999999999986543

>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=92.83  E-value=0.14  Score=50.73  Aligned_cols=28  Identities=32%  Similarity=0.523  Sum_probs=24.1

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +....+.|+|+||+||||++..++..+.
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3456799999999999999999988764

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=92.83  E-value=0.067  Score=55.93  Aligned_cols=26  Identities=27%  Similarity=0.501  Sum_probs=23.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++++|.||+||||+++.+++.++
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45789999999999999999998875

>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=92.82  E-value=0.081  Score=49.17  Aligned_cols=27  Identities=30%  Similarity=0.374  Sum_probs=24.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..+.|.|++|+||||+++.+++.+..
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~   53 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQ   53 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            567889999999999999999988864

>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=92.81  E-value=0.055  Score=48.22  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+.|.|++|+|||++++.++..
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5789999999999999998654

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=92.80  E-value=0.41  Score=47.90  Aligned_cols=25  Identities=20%  Similarity=0.436  Sum_probs=18.2

Q ss_pred             CCeEEEEcCCCCcHHHHHH-HHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSME-KVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~-~v~~~l  173 (517)
                      +.++++.+|+|+|||.+.- .++..+
T Consensus        52 ~~~~lv~a~TGsGKT~~~~~~~l~~~   77 (417)
T 2i4i_A           52 KRDLMACAQTGSGKTAAFLLPILSQI   77 (417)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCHHHHHHHHHHHHHH
Confidence            4689999999999998543 334433

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=92.79  E-value=0.044  Score=52.76  Aligned_cols=41  Identities=20%  Similarity=0.251  Sum_probs=27.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      ...+.|.|++|+||||+++.+++.++..    +   ..+..+++-.+.
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~~lg~~----~---~~~~vI~~D~~~   45 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQIFRRE----G---VKAVSIEGDAFH   45 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHHHH----T---CCEEEEEGGGGB
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHhhc----C---CCeeEeecchhh
Confidence            4568899999999999999999877642    2   235556655543

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=92.79  E-value=0.05  Score=50.62  Aligned_cols=26  Identities=19%  Similarity=0.147  Sum_probs=22.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+.|.|++|+||||+++.+++.+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            34688999999999999999988763

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=92.77  E-value=0.35  Score=53.01  Aligned_cols=29  Identities=21%  Similarity=0.188  Sum_probs=21.9

Q ss_pred             hccCCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          144 LEEEKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       144 l~~~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      +..+.+.++++.|+.|+|||.++-..+-.
T Consensus       384 l~~~~~~~~Ll~a~TGSGKTlvall~il~  412 (780)
T 1gm5_A          384 MISEKPMNRLLQGDVGSGKTVVAQLAILD  412 (780)
T ss_dssp             HHSSSCCCCEEECCSSSSHHHHHHHHHHH
T ss_pred             ccccCCCcEEEEcCCCCCHHHHHHHHHHH
Confidence            33445678999999999999987655443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=92.74  E-value=0.062  Score=51.09  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=21.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++.|.||+|+||||+++.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            578999999999999999987764

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=92.69  E-value=0.2  Score=52.29  Aligned_cols=25  Identities=16%  Similarity=0.262  Sum_probs=19.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +.++++.+|+|+|||.++-..+...
T Consensus        19 ~~~~l~~~~tGsGKT~~~~~~~~~~   43 (555)
T 3tbk_A           19 GKNTIICAPTGCGKTFVSLLICEHH   43 (555)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCChHHHHHHHHHHHH
Confidence            3679999999999999876665443

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=92.69  E-value=0.068  Score=45.90  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~   27 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCK   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            4689999999999999999865

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=92.68  E-value=0.061  Score=50.92  Aligned_cols=26  Identities=19%  Similarity=0.341  Sum_probs=21.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678899999999999999986543

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=92.65  E-value=0.071  Score=45.61  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~   25 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVT   25 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            3689999999999999998864

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=92.63  E-value=0.09  Score=53.96  Aligned_cols=50  Identities=12%  Similarity=0.076  Sum_probs=30.4

Q ss_pred             CCeEEEEcCCCCcHHHH-HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhC
Q 010136          149 AGSLYVCGCPGTGKSLS-MEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQ  210 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l-~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~  210 (517)
                      ...+++.||+|+|||+. +-.++..+..    .+   ..++++.-.     ..+..++...+.
T Consensus        19 ~~~~lv~a~TGsGKT~~~~~~~l~~~~~----~~---~~~lvl~Pt-----r~La~Q~~~~l~   69 (451)
T 2jlq_A           19 KRLTIMDLHPGAGKTKRILPSIVREALL----RR---LRTLILAPT-----RVVAAEMEEALR   69 (451)
T ss_dssp             TCEEEECCCTTSSCCTTHHHHHHHHHHH----TT---CCEEEEESS-----HHHHHHHHHHTT
T ss_pred             CCeEEEECCCCCCHhhHHHHHHHHHHHh----cC---CcEEEECCC-----HHHHHHHHHHhc
Confidence            45679999999999994 5555444332    12   246666532     335556666664

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=92.62  E-value=0.057  Score=49.18  Aligned_cols=25  Identities=16%  Similarity=0.154  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.||.|+||||+++.++..
T Consensus        21 ~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           21 TNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3567889999999999999999876

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=92.49  E-value=0.12  Score=54.47  Aligned_cols=28  Identities=25%  Similarity=0.339  Sum_probs=24.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..++|+|++|+||||+++.+++.+..
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            4567899999999999999999988764

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=92.47  E-value=0.092  Score=48.08  Aligned_cols=27  Identities=19%  Similarity=0.224  Sum_probs=23.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.|++|+||||.++.+++.+.
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~l~   30 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKKLQ   30 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            356789999999999999999988875

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=92.46  E-value=0.076  Score=46.13  Aligned_cols=22  Identities=27%  Similarity=0.267  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~   29 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVT   29 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4689999999999999999864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=92.45  E-value=0.17  Score=50.02  Aligned_cols=26  Identities=35%  Similarity=0.391  Sum_probs=22.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...+.|.|+||+||||+++.++..+.
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~~   99 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKMLT   99 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            55788999999999999999987664

>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=92.45  E-value=0.08  Score=50.23  Aligned_cols=25  Identities=20%  Similarity=0.170  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.||.|+||||+++.++..
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998774

>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=92.44  E-value=0.064  Score=49.08  Aligned_cols=26  Identities=27%  Similarity=0.484  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678899999999999999987654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=92.43  E-value=0.071  Score=45.48  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+++.|++|+|||++++.+...
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            5899999999999999998643

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.43  E-value=0.076  Score=45.60  Aligned_cols=21  Identities=24%  Similarity=0.251  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~   25 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            589999999999999999864

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=92.43  E-value=0.069  Score=46.21  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..+.|.|++|+|||++++.+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3588999999999999999864

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.41  E-value=0.091  Score=45.66  Aligned_cols=24  Identities=17%  Similarity=0.409  Sum_probs=21.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ....++|.|++|+|||++++.+..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999999864

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=92.40  E-value=0.66  Score=45.88  Aligned_cols=22  Identities=14%  Similarity=0.120  Sum_probs=17.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +.++++.+|+|+|||.++-..+
T Consensus        45 ~~~~lv~a~TGsGKT~~~~~~~   66 (391)
T 1xti_A           45 GMDVLCQAKSGMGKTAVFVLAT   66 (391)
T ss_dssp             TCCEEEECSSCSSHHHHHHHHH
T ss_pred             CCcEEEECCCCCcHHHHHHHHH
Confidence            3679999999999998765443

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=92.40  E-value=0.07  Score=46.78  Aligned_cols=24  Identities=17%  Similarity=0.112  Sum_probs=21.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+..++|.|++|+|||+++..+++
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            356899999999999999999865

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=92.40  E-value=0.074  Score=46.07  Aligned_cols=23  Identities=22%  Similarity=0.223  Sum_probs=20.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|++|+|||++++.+...
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            46899999999999999998643

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=92.39  E-value=0.081  Score=49.34  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=21.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+.|.||.|+||||+++.++..+
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            678899999999999999987654

>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=92.38  E-value=0.07  Score=50.51  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            45678899999999999999987543

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=92.38  E-value=0.079  Score=45.36  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~   26 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999999864

>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=92.35  E-value=0.074  Score=52.63  Aligned_cols=26  Identities=19%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45678899999999999999987654

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=92.35  E-value=0.06  Score=47.57  Aligned_cols=21  Identities=24%  Similarity=0.561  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|++|+|||++++.++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            588999999999999999876

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=92.34  E-value=0.081  Score=45.50  Aligned_cols=23  Identities=26%  Similarity=0.211  Sum_probs=19.9

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|++|+|||++++.+...
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            36899999999999999998643

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=92.33  E-value=0.36  Score=47.90  Aligned_cols=18  Identities=22%  Similarity=0.305  Sum_probs=15.5

Q ss_pred             CeEEEEcCCCCcHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~  167 (517)
                      .++++.+|+|+|||.++-
T Consensus        59 ~~~lv~~~TGsGKT~~~~   76 (394)
T 1fuu_A           59 HDVLAQAQSGTGKTGTFS   76 (394)
T ss_dssp             CCEEECCCSSHHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHH
Confidence            579999999999998743

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=92.32  E-value=0.5  Score=54.29  Aligned_cols=41  Identities=20%  Similarity=0.248  Sum_probs=28.3

Q ss_pred             cHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +..|.+.+...+.. +..+.+..++++|+.|+|||.++-..+
T Consensus       605 t~~Q~~ai~~il~~-~~~g~p~d~ll~~~TGsGKT~val~aa  645 (1151)
T 2eyq_A          605 TPDQAQAINAVLSD-MCQPLAMDRLVCGDVGFGKTEVAMRAA  645 (1151)
T ss_dssp             CHHHHHHHHHHHHH-HHSSSCCEEEEECCCCTTTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH-HhcCCcCcEEEECCCCCCHHHHHHHHH
Confidence            56666555555554 333455689999999999998865443

>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=92.29  E-value=0.081  Score=49.64  Aligned_cols=25  Identities=24%  Similarity=0.137  Sum_probs=21.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.||.|+||||+++.++..
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999999764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=92.26  E-value=0.077  Score=48.97  Aligned_cols=24  Identities=25%  Similarity=0.458  Sum_probs=20.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+-|.|+||+||||.++.+++.++
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhC
Confidence            467999999999999999987763

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=92.23  E-value=0.085  Score=45.40  Aligned_cols=22  Identities=14%  Similarity=0.024  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCE   28 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHc
Confidence            3689999999999999999864

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=92.23  E-value=0.09  Score=45.01  Aligned_cols=21  Identities=19%  Similarity=0.360  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         2 ki~~~G~~~~GKssl~~~l~~   22 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKL   22 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999999864

>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=92.23  E-value=0.073  Score=49.25  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678899999999999999987654

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A

Probab=92.23  E-value=0.11  Score=55.51  Aligned_cols=51  Identities=14%  Similarity=0.125  Sum_probs=32.7

Q ss_pred             CCCeEEEEcCCCCcHHHH-HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhC
Q 010136          148 KAGSLYVCGCPGTGKSLS-MEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQ  210 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l-~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~  210 (517)
                      .+..+++.+|+|+|||+. +-.++..+..    .+   ..++++.-.     ..+..++.+.+.
T Consensus       185 ~g~dvlv~a~TGSGKT~~~~lpil~~l~~----~~---~~vLvl~Pt-----reLa~Qi~~~l~  236 (618)
T 2whx_A          185 KKRLTIMDLHPGAGKTKRILPSIVREALK----RR---LRTLILAPT-----RVVAAEMEEALR  236 (618)
T ss_dssp             TTCEEEECCCTTSSTTTTHHHHHHHHHHH----TT---CCEEEEESS-----HHHHHHHHHHTT
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHHHHHHHh----CC---CeEEEEcCh-----HHHHHHHHHHhc
Confidence            467899999999999997 4556555533    11   346666532     335555666663

>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=92.21  E-value=0.074  Score=52.19  Aligned_cols=37  Identities=19%  Similarity=0.488  Sum_probs=27.9

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +...+.-.+.  .+..+.|.||+|+||||+++.++..+.
T Consensus       160 ~l~~l~~~i~--~g~~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          160 AISAIKDGIA--IGKNVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             HHHHHHHHHH--HTCCEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             HHhhhhhhcc--CCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4444544443  356899999999999999999987653

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=92.21  E-value=0.085  Score=45.95  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ...++|.|++|+|||++++.+...
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999998653

>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=92.20  E-value=0.071  Score=50.27  Aligned_cols=26  Identities=27%  Similarity=0.454  Sum_probs=21.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678899999999999999986543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.19  E-value=0.075  Score=50.21  Aligned_cols=26  Identities=19%  Similarity=0.331  Sum_probs=22.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            46688899999999999999997654

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=92.18  E-value=0.086  Score=45.17  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~   25 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            589999999999999999864

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.16  E-value=0.08  Score=47.70  Aligned_cols=23  Identities=22%  Similarity=0.301  Sum_probs=20.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ...++|.|++|+|||+++..+..
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~   42 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVE   42 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45799999999999999999864

>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=92.15  E-value=0.078  Score=49.97  Aligned_cols=26  Identities=15%  Similarity=0.335  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678899999999999999987543

>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=92.13  E-value=0.07  Score=49.86  Aligned_cols=26  Identities=19%  Similarity=0.336  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45578899999999999999987654

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=92.13  E-value=0.081  Score=45.50  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=19.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVE   25 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            3689999999999999999864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.11  E-value=0.077  Score=50.46  Aligned_cols=26  Identities=23%  Similarity=0.250  Sum_probs=22.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            46678899999999999999987554

>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=92.10  E-value=0.089  Score=52.14  Aligned_cols=26  Identities=15%  Similarity=0.218  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            45678899999999999999987654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=92.10  E-value=0.09  Score=52.15  Aligned_cols=26  Identities=19%  Similarity=0.257  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45678899999999999999987654

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=92.08  E-value=0.084  Score=46.92  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=20.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ....++|.|++|+|||++++.+..
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            345899999999999999999864

>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=92.08  E-value=0.076  Score=49.77  Aligned_cols=26  Identities=23%  Similarity=0.432  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678899999999999999986543

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.06  E-value=0.073  Score=46.61  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=20.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      .....++|.|++|+|||++++.+.
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~   39 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQ   39 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCccEEEEECCCCCCHHHHHHHHh
Confidence            456689999999999999998875

>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=92.06  E-value=0.076  Score=49.49  Aligned_cols=26  Identities=15%  Similarity=0.409  Sum_probs=21.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678899999999999999987543

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.04  E-value=0.11  Score=51.06  Aligned_cols=28  Identities=29%  Similarity=0.506  Sum_probs=24.0

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+..+.|.|+||+||||+++.++..+.
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~   80 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLT   80 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhh
Confidence            4566788999999999999999987764

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=92.03  E-value=0.093  Score=52.36  Aligned_cols=26  Identities=19%  Similarity=0.232  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            45678899999999999999997654

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=92.03  E-value=0.094  Score=54.13  Aligned_cols=26  Identities=27%  Similarity=0.487  Sum_probs=23.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|.|.||+||||+++.+++.+.
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45799999999999999999998876

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.00  E-value=0.089  Score=45.28  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=19.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3689999999999999999864

>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=92.00  E-value=0.079  Score=50.48  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=21.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45678899999999999999987543

>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=91.96  E-value=0.078  Score=46.30  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=20.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      +..+.|.|++|+|||++++.+..
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~   26 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAG   26 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            44689999999999999999864

>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=91.95  E-value=0.095  Score=44.99  Aligned_cols=22  Identities=23%  Similarity=0.170  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            3689999999999999999864

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=91.94  E-value=0.082  Score=47.61  Aligned_cols=34  Identities=15%  Similarity=0.044  Sum_probs=20.4

Q ss_pred             HHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          138 EFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       138 ~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      +.+.........-.++|.|.+|+|||++++.+..
T Consensus        19 ~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~   52 (204)
T 4gzl_A           19 SHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTT   52 (204)
T ss_dssp             -----------CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             hHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHh
Confidence            3333333334456899999999999999988764

>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=91.93  E-value=0.082  Score=49.59  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45678899999999999999987543

>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=91.89  E-value=0.091  Score=45.22  Aligned_cols=21  Identities=24%  Similarity=0.303  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            588999999999999999863

>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=91.89  E-value=0.098  Score=52.10  Aligned_cols=26  Identities=19%  Similarity=0.291  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45678899999999999999987643

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=91.88  E-value=0.093  Score=51.88  Aligned_cols=26  Identities=15%  Similarity=0.227  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45678899999999999999987554

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=91.84  E-value=0.76  Score=49.63  Aligned_cols=25  Identities=16%  Similarity=0.262  Sum_probs=20.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +.++++.+|.|+|||..+-..+...
T Consensus        28 g~~~iv~~~TGsGKTl~~~~~i~~~   52 (696)
T 2ykg_A           28 GKNTIICAPTGCGKTFVSLLICEHH   52 (696)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEcCCCchHHHHHHHHHHHH
Confidence            4689999999999999877766543

>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=91.84  E-value=0.1  Score=55.57  Aligned_cols=28  Identities=25%  Similarity=0.521  Sum_probs=24.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+..|+|.|.||+||||+++.+++.|..
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~   78 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVC   78 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            4557999999999999999999988753

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=91.83  E-value=0.087  Score=49.94  Aligned_cols=26  Identities=31%  Similarity=0.482  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45678899999999999999987543

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=91.82  E-value=0.097  Score=46.09  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~   33 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTD   33 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4789999999999999999864

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=91.80  E-value=0.14  Score=45.02  Aligned_cols=25  Identities=12%  Similarity=0.255  Sum_probs=21.8

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .....++|.|++|+|||++++.+..
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhc
Confidence            4567899999999999999999863

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=91.77  E-value=0.35  Score=45.79  Aligned_cols=58  Identities=12%  Similarity=0.117  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHhhccCCCCeEEEEcC-CCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          131 DEQKKVLEFCKKNLEEEKAGSLYVCGC-PGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~~~~~~lli~G~-pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +.+..|...|.....+.....+.|+|+ +|+|||+++-.++..+...    |   .+++.|++-..
T Consensus        64 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~----G---~rVLLID~D~~  122 (271)
T 3bfv_A           64 EKFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQA----G---YKTLIVDGDMR  122 (271)
T ss_dssp             HHHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHHHHT----T---CCEEEEECCSS
T ss_pred             HHHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhC----C---CeEEEEeCCCC
Confidence            445556665555444445667888875 8999999999999888752    2   36888888643

>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=91.77  E-value=0.087  Score=49.95  Aligned_cols=26  Identities=27%  Similarity=0.408  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45678899999999999999987543

>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=91.76  E-value=0.082  Score=52.16  Aligned_cols=26  Identities=23%  Similarity=0.420  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC
Confidence            45678899999999999999987543

>2k4b_A Transcriptional regulator; DNA binding protein, winged helix; NMR {Lactococcus lactis subsp}

Probab=91.73  E-value=0.27  Score=38.81  Aligned_cols=70  Identities=7%  Similarity=-0.026  Sum_probs=51.2

Q ss_pred             HHhccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCC-CCCChHHHHHHHHHHhhcCceeeccCCceeEEE
Q 010136          416 DTIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLI-PPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVT  494 (517)
Q Consensus       416 ~~i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~-~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~  494 (517)
                      +...+|+..|..||..|..  .   ..++..+|.+       .+.. ++++...+..+++.|++.|+|...+.|+...|.
T Consensus        28 ~~~~~LT~~e~~VL~~L~~--~---~~~t~~eL~~-------~l~~~~~~s~sTVt~~L~rLe~KGlV~R~~~gR~~~Y~   95 (99)
T 2k4b_A           28 EVEFNVSNAELIVMRVIWS--L---GEARVDEIYA-------QIPQELEWSLATVKTLLGRLVKKEMLSTEKEGRKFVYR   95 (99)
T ss_dssp             ---CCCCCSCSHHHHHHHH--H---SCEEHHHHHH-------TCCGGGCCCHHHHHHHHHHHHHTTSCEEEEETTEEEEE
T ss_pred             hcCCCCCHHHHHHHHHHHh--C---CCCCHHHHHH-------HHhcccCCCHhhHHHHHHHHHHCCCEEEEeCCCEEEEE
Confidence            3455799999999987764  1   3578888744       4433 357889999999999999999987778777665


Q ss_pred             eec
Q 010136          495 LKA  497 (517)
Q Consensus       495 l~~  497 (517)
                      ..+
T Consensus        96 p~i   98 (99)
T 2k4b_A           96 PLM   98 (99)
T ss_dssp             CCC
T ss_pred             Eee
Confidence            443

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=91.69  E-value=0.089  Score=50.26  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45678899999999999999987544

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=91.69  E-value=0.11  Score=44.77  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ...++|.|++|+|||++++.+..
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            45799999999999999999854

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=91.68  E-value=0.1  Score=45.21  Aligned_cols=23  Identities=22%  Similarity=0.223  Sum_probs=20.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|.+|+|||++++.+...
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            46999999999999999998643

>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=91.67  E-value=0.034  Score=52.53  Aligned_cols=26  Identities=15%  Similarity=0.213  Sum_probs=22.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..|+|.|++|+||||+++.+++.+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45678999999999999999988765

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=91.67  E-value=0.15  Score=53.29  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=19.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .++++.+|+|+|||.++-..+..
T Consensus        23 ~~~l~~~~tGsGKT~~~~~~~~~   45 (556)
T 4a2p_A           23 KNALICAPTGSGKTFVSILICEH   45 (556)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEcCCCChHHHHHHHHHHH
Confidence            57999999999999987666544

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=91.67  E-value=0.081  Score=47.83  Aligned_cols=25  Identities=16%  Similarity=0.073  Sum_probs=22.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..|.|.|++|+|||++++.+++.|+
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999998874

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=91.64  E-value=0.099  Score=46.00  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..+.|.|++|+|||++++.++.
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999864

>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=91.63  E-value=0.088  Score=45.15  Aligned_cols=21  Identities=29%  Similarity=0.437  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            589999999999999998854

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=91.62  E-value=0.3  Score=48.53  Aligned_cols=93  Identities=12%  Similarity=0.076  Sum_probs=52.7

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC-CCCCCCCHHHH-
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK-KLNGSTSPLQY-  224 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~-~~~~~~~~~~~-  224 (517)
                      +++..++|.|++|+|||+++..+++.+....     +.+.++++-+..-  ..+ ...+...+.+.. .......+... 
T Consensus       173 grGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~-----~dv~~V~~lIGER--~~E-V~d~~~~~~G~VV~atadep~~~r~  244 (427)
T 3l0o_A          173 GKGQRGMIVAPPKAGKTTILKEIANGIAENH-----PDTIRIILLIDER--PEE-VTDIRESTNAIVIAAPFDMPPDKQV  244 (427)
T ss_dssp             BTTCEEEEEECTTCCHHHHHHHHHHHHHHHC-----TTSEEEEEECSCC--HHH-HSSSSSSCCSEEEECCTTSCHHHHH
T ss_pred             cCCceEEEecCCCCChhHHHHHHHHHHhhcC-----CCeEEEEEEeccC--cch-HHHHHHHhCCeEEEECCCCCHHHHH
Confidence            4678999999999999999999988876421     2245566655432  111 111122221100 00111222222 


Q ss_pred             --------HHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          225 --------LQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       225 --------l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                              +.++|.     ..++.++|++|.+-.++
T Consensus       245 ~~a~~altiAEyfr-----d~G~dVLil~DslTR~A  275 (427)
T 3l0o_A          245 KVAELTLEMAKRLV-----EFNYDVVILLDSLTRLA  275 (427)
T ss_dssp             HHHHHHHHHHHHHH-----HTTCEEEEEEECHHHHH
T ss_pred             HHHHHHHHHHHHHH-----HcCCCEEEecccchHHH
Confidence                    233443     35678999999988775

>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=91.62  E-value=0.1  Score=45.41  Aligned_cols=23  Identities=30%  Similarity=0.277  Sum_probs=20.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..++|.|.+|+|||++++.+...
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            47999999999999999998654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=91.60  E-value=0.11  Score=46.11  Aligned_cols=22  Identities=18%  Similarity=0.297  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~   47 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTR   47 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhc
Confidence            4699999999999999998865

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=91.59  E-value=0.092  Score=49.38  Aligned_cols=26  Identities=31%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678899999999999999987654

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=91.58  E-value=0.3  Score=47.07  Aligned_cols=57  Identities=14%  Similarity=0.247  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHhhccCCCCeEEEEcC-CCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          131 DEQKKVLEFCKKNLEEEKAGSLYVCGC-PGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       131 ~e~~~l~~~L~~~l~~~~~~~lli~G~-pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +.+..|...|...........+.|+|+ +|+|||+++-.++..+...    |   .+++.|++-.
T Consensus        86 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~----G---~rVLLID~D~  143 (299)
T 3cio_A           86 EAVRALRTSLHFAMMETENNILMITGATPDSGKTFVSSTLAAVIAQS----D---QKVLFIDADL  143 (299)
T ss_dssp             HHHHHHHHHHHHHTSSCSCCEEEEEESSSSSCHHHHHHHHHHHHHHT----T---CCEEEEECCT
T ss_pred             HHHHHHHHHHHHhccCCCCeEEEEECCCCCCChHHHHHHHHHHHHhC----C---CcEEEEECCC
Confidence            344455555554444455677888875 8999999999999888752    2   3588888765

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=91.56  E-value=0.1  Score=45.30  Aligned_cols=22  Identities=18%  Similarity=0.143  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.++.
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3689999999999999999863

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=91.55  E-value=0.11  Score=45.57  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~   26 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQ   26 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999999864

>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=91.52  E-value=0.11  Score=51.88  Aligned_cols=26  Identities=15%  Similarity=0.281  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            45678899999999999999987654

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=91.51  E-value=0.11  Score=45.17  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~   34 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVK   34 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHc
Confidence            3689999999999999999864

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=91.48  E-value=0.11  Score=45.17  Aligned_cols=23  Identities=17%  Similarity=0.076  Sum_probs=20.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|++|+|||++++.+...
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999998754

>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=91.48  E-value=0.11  Score=45.80  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=20.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|.+|+|||++++.++..
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999998743

>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=91.47  E-value=0.11  Score=46.07  Aligned_cols=25  Identities=16%  Similarity=0.193  Sum_probs=21.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ....++|.|++|+|||++++.+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998754

>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=91.42  E-value=0.11  Score=45.81  Aligned_cols=22  Identities=18%  Similarity=0.237  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~   29 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAK   29 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999865

>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=91.38  E-value=0.11  Score=45.83  Aligned_cols=21  Identities=19%  Similarity=0.252  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.++.
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~   42 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLT   42 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            699999999999999988764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.38  E-value=0.12  Score=45.92  Aligned_cols=24  Identities=17%  Similarity=0.123  Sum_probs=20.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .-.++|.|++|+|||++++.++..
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999998653

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=91.33  E-value=0.12  Score=45.25  Aligned_cols=22  Identities=32%  Similarity=0.250  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~   40 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQ   40 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999999874

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=91.32  E-value=0.12  Score=45.21  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..++|.|++|+|||++++.+..
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~   40 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMY   40 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            4699999999999999999864

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=91.30  E-value=0.12  Score=44.96  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~   32 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKD   32 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            4689999999999999999854

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.30  E-value=0.12  Score=45.92  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=20.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..-.++|.|++|+|||++++.+..
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~   50 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLT   50 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            455799999999999999999865

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=91.28  E-value=0.11  Score=45.52  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~   32 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIE   32 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4689999999999999999864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=91.26  E-value=0.11  Score=45.14  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..++|.|++|+|||++++.+..
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999864

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=91.19  E-value=0.14  Score=44.53  Aligned_cols=24  Identities=13%  Similarity=0.034  Sum_probs=20.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..-.++|.|++|+|||++++.+..
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~~~~   30 (182)
T 3bwd_D            7 RFIKCVTVGDGAVGKTCLLISYTS   30 (182)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            456799999999999999998864

>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=91.16  E-value=0.13  Score=45.53  Aligned_cols=22  Identities=32%  Similarity=0.294  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|.+|+|||++++.+..
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~   43 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLT   43 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHh
Confidence            4699999999999999998864

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=91.14  E-value=0.34  Score=43.47  Aligned_cols=47  Identities=30%  Similarity=0.371  Sum_probs=31.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKI  205 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i  205 (517)
                      |.|-|.-|+||||.++.+++.|...    |   ..++...-+..+........+
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~----g---~~v~~treP~~t~~~~~ir~~   49 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKR----G---KKVILKREPGGTETGEKIRKI   49 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC----C---CcEEEEECCCCCcHHHHHHHH
Confidence            5688999999999999999888652    3   346666555543334443333

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=91.13  E-value=0.13  Score=45.47  Aligned_cols=22  Identities=18%  Similarity=0.188  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~   44 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYAD   44 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3689999999999999999864

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=91.10  E-value=0.13  Score=44.98  Aligned_cols=22  Identities=18%  Similarity=0.081  Sum_probs=19.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            3689999999999999998764

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=91.09  E-value=0.13  Score=45.47  Aligned_cols=22  Identities=18%  Similarity=0.209  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~   44 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIAS   44 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            4699999999999999999864

>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=91.09  E-value=0.11  Score=46.46  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=20.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ....++|.|++|+|||++++.+..
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            455799999999999999999864

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=91.07  E-value=0.82  Score=47.00  Aligned_cols=101  Identities=11%  Similarity=0.053  Sum_probs=55.0

Q ss_pred             CCCCeEEEEcCCCCcHHHH-HHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-CHHHHHHHHHHHhCCCC----CCCCCCC
Q 010136          147 EKAGSLYVCGCPGTGKSLS-MEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-NTSEIFSKILLKLQPRK----KLNGSTS  220 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l-~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-s~~~i~~~i~~~l~~~~----~~~~~~~  220 (517)
                      +++..++|.|++|||||++ +..+++....+....+...+..||+-+..-. ...+++..+...=.-..    .......
T Consensus       160 grGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p  239 (510)
T 2ck3_A          160 GRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDA  239 (510)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSC
T ss_pred             ccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCC
Confidence            4678899999999999999 6677777653310001122456777666532 22344444433100000    0011222


Q ss_pred             HHHH---------HHHHHHhhhccCCCceEEEEEeCcchhc
Q 010136          221 PLQY---------LQNLYSQKLHSSVMKMMLIIADELDYLI  252 (517)
Q Consensus       221 ~~~~---------l~~~~~~~~~~~~~~~~vI~iDEiD~L~  252 (517)
                      +...         +-++|.     ..++.++|++|.+-+++
T Consensus       240 ~~~r~~a~~~a~tiAEyfr-----d~G~dVLli~Dsltr~A  275 (510)
T 2ck3_A          240 APLQYLAPYSGCSMGEYFR-----DNGKHALIIYDDLSKQA  275 (510)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-----TTTCEEEEEEETHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH-----HcCCcEEEEEcCHHHHH
Confidence            2222         334454     35778999999887665

>2g9w_A Conserved hypothetical protein; DNA-binding domain, bacterial transcription repressor, DNA B protein; 1.80A {Mycobacterium tuberculosis} SCOP: a.4.5.39

Probab=91.05  E-value=1.2  Score=37.27  Aligned_cols=75  Identities=11%  Similarity=0.150  Sum_probs=54.4

Q ss_pred             hccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeec
Q 010136          418 IKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKA  497 (517)
Q Consensus       418 i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~  497 (517)
                      +.+|+..|..||..+...    ...++..+|.+...   ..   .+++.+.+..+++.|++.|+|...+.++.+.|.+.+
T Consensus         4 ~~~lt~~e~~vL~~L~~~----~~~~t~~el~~~l~---~~---~~~~~~Tvt~~l~rLe~kGlv~r~~~~r~~~~~~~l   73 (138)
T 2g9w_A            4 LTRLGDLERAVMDHLWSR----TEPQTVRQVHEALS---AR---RDLAYTTVMAVLQRLAKKNLVLQIRDDRAHRYAPVH   73 (138)
T ss_dssp             GGGCCHHHHHHHHHHHTC----SSCEEHHHHHHHHT---TT---CCCCHHHHHHHHHHHHHTTSEEEEC---CCEEEESS
T ss_pred             cccCCHHHHHHHHHHHhc----CCCCCHHHHHHHHh---cc---CCCCHHHHHHHHHHHHHCCCEEEEecCCeEEEEeCC
Confidence            468999999999877631    24689988865321   11   357889999999999999999987777877888777


Q ss_pred             CHHHH
Q 010136          498 DESDI  502 (517)
Q Consensus       498 ~~~~i  502 (517)
                      +.++.
T Consensus        74 t~~~~   78 (138)
T 2g9w_A           74 GRDEL   78 (138)
T ss_dssp             CHHHH
T ss_pred             CHHHH
Confidence            77654

>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=91.03  E-value=0.085  Score=52.20  Aligned_cols=26  Identities=19%  Similarity=0.236  Sum_probs=22.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45678899999999999999987643

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.02  E-value=0.13  Score=45.55  Aligned_cols=23  Identities=17%  Similarity=0.159  Sum_probs=20.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|++|+|||++++.+...
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            36999999999999999998653

>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=90.98  E-value=0.11  Score=45.72  Aligned_cols=21  Identities=19%  Similarity=0.333  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~   23 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTG   23 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999999864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=90.98  E-value=0.11  Score=49.08  Aligned_cols=25  Identities=20%  Similarity=0.398  Sum_probs=21.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..+.|.||.|+||||+++.++..+
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            5678899999999999999997654

>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=90.97  E-value=0.13  Score=45.87  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ..++|.|++|+|||++++.+..
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~   36 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMY   36 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            4799999999999999999864

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=90.95  E-value=0.17  Score=49.99  Aligned_cols=27  Identities=15%  Similarity=0.112  Sum_probs=23.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+..+.|.|++|+||||+++.++..+
T Consensus        69 ~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           69 GIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467789999999999999999998774

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=90.94  E-value=0.13  Score=45.27  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=20.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ...++|.|++|+|||++++.+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            357999999999999999998643

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=90.94  E-value=0.14  Score=45.22  Aligned_cols=22  Identities=18%  Similarity=0.116  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|.+|+|||++++.+..
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            4799999999999999999864

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=90.91  E-value=0.13  Score=51.58  Aligned_cols=26  Identities=23%  Similarity=0.305  Sum_probs=22.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            46688899999999999999997643

>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=90.90  E-value=0.12  Score=45.30  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=21.1

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .....++|.|++|+|||++++.+..
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~   40 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNG   40 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhc
Confidence            3456899999999999999999864

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=90.90  E-value=0.16  Score=43.45  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ++..+|+||.|+|||+++.++.-.+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4578899999999999999986544

>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=90.90  E-value=0.13  Score=45.63  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~   45 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQ   45 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhc
Confidence            4799999999999999999864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=90.87  E-value=0.14  Score=45.33  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|++|+|||++++.+..
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~   38 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFAD   38 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHc
Confidence            3699999999999999999864

>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=90.83  E-value=0.14  Score=45.78  Aligned_cols=24  Identities=21%  Similarity=0.250  Sum_probs=20.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .-.++|.|++|+|||++++.+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            347899999999999999998643

>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=90.83  E-value=0.14  Score=45.55  Aligned_cols=22  Identities=23%  Similarity=0.190  Sum_probs=19.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|.||+|||++++.+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3589999999999999999874

>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=90.81  E-value=0.12  Score=49.70  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45678899999999999999987554

>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=90.79  E-value=0.14  Score=45.17  Aligned_cols=23  Identities=13%  Similarity=0.067  Sum_probs=19.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|++|+|||++++.+...
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHhh
Confidence            36899999999999999766543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=90.79  E-value=0.14  Score=45.25  Aligned_cols=21  Identities=24%  Similarity=0.349  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus        23 ki~v~G~~~~GKSsli~~l~~   43 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTD   43 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhc
Confidence            689999999999999999864

>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=90.77  E-value=0.1  Score=45.42  Aligned_cols=22  Identities=27%  Similarity=0.200  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|.+|+|||++++.+..
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~   29 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLT   29 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999999865

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=90.75  E-value=0.14  Score=45.12  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.0

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -.++|.|++|+|||++++.+...
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            36999999999999999998643

>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=90.74  E-value=0.14  Score=44.78  Aligned_cols=22  Identities=18%  Similarity=0.193  Sum_probs=19.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      ...++|.|++|+|||++++.+.
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~   27 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFV   27 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHH
Confidence            3478999999999999999986

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=90.74  E-value=0.14  Score=45.61  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=20.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ....++|.|++|+|||++++.+...
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            3457999999999999999998643

>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=90.72  E-value=0.15  Score=45.29  Aligned_cols=22  Identities=18%  Similarity=0.173  Sum_probs=19.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.++|.|.+|+|||++++.+..
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~   45 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSK   45 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhc
Confidence            4799999999999999999865

>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=90.71  E-value=0.12  Score=51.43  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=21.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ...+.|.|++|+||||+++.++..+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999998764

---

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	517
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	1e-22
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	8e-19
d1fnna1	112	a.4.5.11 (A:277-388) CDC6, C-terminal domain {Arch	6e-12
d1w5sa1	110	a.4.5.11 (A:300-409) CDC6-like protein APE0152, C-	3e-11
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	1e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	2e-04
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	2e-04
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	3e-04
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	4e-04
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	0.001

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 96.0 bits (237), Expect = 1e-22
 Identities = 44/272 (16%), Positives = 96/272 (35%), Gaps = 16/272 (5%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGS-----LYVCGCPGTGKSLSMEK 168
           R     +  P  +  R  E + +       L      S         G  G GK+   + 
Sbjct: 6   RRVFDENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKF 65

Query: 169 VQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL 228
               + + A + GL   + + +N  +  N   I S I+ +     ++ G+ +       +
Sbjct: 66  TVKRVSEAAAKEGLTVKQAY-VNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALV 124

Query: 229 YSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT-----TFPFSRFILIGIANAID 283
            +  + +  + ++L     +          L+ L  +          +R   + +A+ + 
Sbjct: 125 DNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVR 184

Query: 284 LADRFLPRLQS-MNCKPLVVTFRAYSKDQIIRILQERLMELSY-IVFQPQALELCARKVA 341
                  ++    +     +   AY   ++  IL++R        V++P+ LEL +    
Sbjct: 185 ALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYG 244

Query: 342 ---AASGDMRKALSVCRSAIEILEAEMRESVS 370
                 G  R+A+   + A E+ EA  R+S+S
Sbjct: 245 EDKGGDGSARRAIVALKMACEMAEAMGRDSLS 276

>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 = 84.5 bits (207), Expect = 8e-19
 Identities = 47/266 (17%), Positives = 86/266 (32%), Gaps = 18/266 (6%)

Query: 114 REALHVSTAPSTIVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQH 171
                 S  P  +  RE + +++       L           + G PGTGK++++ K+  
Sbjct: 6   DSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE 65

Query: 172 YLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQ 231
              D              IN     N + I  +I   L       G          L  +
Sbjct: 66  LYKDKTT------ARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGL--SRDEFLALLVE 117

Query: 232 KLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPR 291
            L    + M L++ D  +         +            R  L+ + +   + +   P 
Sbjct: 118 HLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPS 177

Query: 292 LQSMNCKPLVVTFRAYSKDQIIRILQERL-MELSYIVFQPQALELCARKVAA------AS 344
            +       V+ F  Y+KDQI  IL +R    L+   +    L++ A    A        
Sbjct: 178 TRG-IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNR 236

Query: 345 GDMRKALSVCRSAIEILEAEMRESVS 370
           GD R A+ +   +    +   R+ ++
Sbjct: 237 GDARLAIDILYRSAYAAQQNGRKHIA 262

>d1fnna1 a.4.5.11 (A:277-388) CDC6, C-terminal domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 112

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Helicase DNA-binding domain
domain: CDC6, C-terminal domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 60.3 bits (146), Expect = 6e-12
 Identities = 16/95 (16%), Positives = 41/95 (43%), Gaps = 8/95 (8%)

Query: 416 DTIKSLPQHQQILLCSAVKFFR-GGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCR 474
           + +  LP H+++ L + V+  +      +T G+  +SY  +C+     P    + +S   
Sbjct: 4   EVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERPRVHSQLWSYLN 63

Query: 475 VLHDQGVLK-------VGRDDKLKRVTLKADESDI 502
            L ++G+++        G   +   +++  +  D 
Sbjct: 64  DLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDT 98

>d1w5sa1 a.4.5.11 (A:300-409) CDC6-like protein APE0152, C-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 110

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Helicase DNA-binding domain
domain: CDC6-like protein APE0152, C-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 58.3 bits (141), Expect = 3e-11
 Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 6/85 (7%)

Query: 417 TIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNI-CKTSLIPPVGTLEFFSMCRV 475
            +++L  H+ I+L    +   GG + +  G L + Y +       + P G  ++    + 
Sbjct: 3   ELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKH 62

Query: 476 LHDQGVLKV-----GRDDKLKRVTL 495
           L   G++       G   +     L
Sbjct: 63  LTSLGLVDAKPSGRGMRGRTTLFRL 87

>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 = 41.6 bits (96), Expect = 1e-04
 Identities = 31/230 (13%), Positives = 69/230 (30%), Gaps = 28/230 (12%)

Query: 133 QKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC 192
           Q   +   KK L+      +   G PGTGK+ ++  +   L        L +  +  +N 
Sbjct: 17  QDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP----DLMKSRILELNA 72

Query: 193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI 252
           +     S +  K+            + + L   +       +       +II DE D + 
Sbjct: 73  SDERGISIVREKV-----------KNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMT 121

Query: 253 TRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQI 312
              ++ L       +      +             ++ R+                    
Sbjct: 122 ADAQSALRRTMETYSGVTRFCL----------ICNYVTRIIDPLASQCSKFRFKALDASN 171

Query: 313 IRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILE 362
                  + E   +      LE        ++GD+R+ +++ +SA +  +
Sbjct: 172 AIDRLRFISEQENVKCDDGVLERILD---ISAGDLRRGITLLQSASKGAQ 218

>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 = 40.9 bits (94), Expect = 2e-04
 Identities = 34/227 (14%), Positives = 70/227 (30%), Gaps = 5/227 (2%)

Query: 133 QKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN 191
            +++  F K   ++ +    L + G  GTGK      +   +              F   
Sbjct: 16  NEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTA 75

Query: 192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYL 251
                  + + S   L++ P    N     +Q L    +Q            +A     +
Sbjct: 76  SNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCV 135

Query: 252 ITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQ 311
           I  +   L                  I   +       P +  +  + L++   A S  +
Sbjct: 136 IINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMS-PIIAPIKSQCLLIRCPAPSDSE 194

Query: 312 IIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI 358
           I  IL + +      +     L+  A+   A++G++R +L +  S  
Sbjct: 195 ISTILSDVVTNERIQLETKDILKRIAQ---ASNGNLRVSLLMLESMA 238

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 224

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]

 Score = 40.8 bits (94), Expect = 2e-04
 Identities = 39/240 (16%), Positives = 88/240 (36%), Gaps = 38/240 (15%)

Query: 133 QKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC 192
            K+ ++  ++  ++     + + G PG GK+ S+  + H L+  +         V  +N 
Sbjct: 20  NKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRS-----YADGVLELNA 74

Query: 193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI 252
           +       + ++I                    ++   +KLH    K  ++I DE D + 
Sbjct: 75  SDDRGIDVVRNQI--------------------KHFAQKKLHLPPGKHKIVILDEADSMT 114

Query: 253 TRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQI 312
              +  L     L +             A + +++ +  LQS           +   D+ 
Sbjct: 115 AGAQQALRRTMELYSNSTRFAF------ACNQSNKIIEPLQSQCAIL----RYSKLSDED 164

Query: 313 IRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKM 372
           +     ++++L  + +    LE        A GDMR+A++  +S +        ++V K+
Sbjct: 165 VLKRLLQIIKLEDVKYTNDGLEAIIF---TAEGDMRQAINNLQSTVAGHGLVNADNVFKI 221

>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 = 40.1 bits (93), Expect = 3e-04
 Identities = 41/243 (16%), Positives = 74/243 (30%), Gaps = 26/243 (10%)

Query: 133 QKKVLEFCKKNLEEEKAGSLY-VCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN 191
           Q+ VL      L   +    Y   G  G GK          +     +    +  + +  
Sbjct: 17  QEHVLTALANGLSLGRIHHAYLFSGTRGVGK--------TSIARLLAKGLNCETGITATP 68

Query: 192 CTSLTNTSEIFSKILLKL-QPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDY 250
           C    N  EI     + L +            + L +           +  + + DE+  
Sbjct: 69  CGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARG--RFKVYLIDEVHM 126

Query: 251 LITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKD 310
           L    R   + L      P      +          +    + S   +  +         
Sbjct: 127 L---SRHSFNALLKTLEEPPEHVKFLLATTDPQ---KLPVTILSRCLQFHLKALDVEQIR 180

Query: 311 QIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEM-RESV 369
             +  +         I  +P+AL+L AR   AA G +R ALS+   AI   + ++  ++V
Sbjct: 181 HQLEHILNEEH----IAHEPRALQLLAR---AAEGSLRDALSLTDQAIASGDGQVSTQAV 233

Query: 370 SKM 372
           S M
Sbjct: 234 SAM 236

>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 = 39.9 bits (92), Expect = 4e-04
 Identities = 33/242 (13%), Positives = 76/242 (31%), Gaps = 39/242 (16%)

Query: 133 QKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC 192
           Q+ +++  K  ++      L   G PG GK+ +   +   L          +     +N 
Sbjct: 29  QEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFG-----ENWRHNFLELNA 83

Query: 193 TSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLI 252
           +     + I                     + ++     K        ++ + +      
Sbjct: 84  SDERGINVIR--------------------EKVKEFARTKPIGGASFKIIFLDEADALTQ 123

Query: 253 TRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQI 312
              +A+   + M      S    I   N      + +  +QS       +      +D+ 
Sbjct: 124 DAQQALRRTMEM----FSSNVRFILSCNYSS---KIIEPIQSRCA----IFRFRPLRDED 172

Query: 313 IRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEAEMRESVSKM 372
           I      + E   +    + L+        A GDMR+A+++ ++A  + +    E+V  +
Sbjct: 173 IAKRLRYIAENEGLELTEEGLQAILY---IAEGDMRRAINILQAAAALDKKITDENVFMV 229

Query: 373 NS 374
            S
Sbjct: 230 AS 231

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

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 = 37.8 bits (86), Expect = 0.001
 Identities = 25/221 (11%), Positives = 56/221 (25%), Gaps = 25/221 (11%)

Query: 133 QKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN 191
            +   E    + +  +   +L +   PG G    +          ++    QQP+     
Sbjct: 7   LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYA-------LSRYLLCQQPQGHKSC 59

Query: 192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYL 251
                                 +   +T  +  ++ +  +    + +    ++      L
Sbjct: 60  GHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAAL 119

Query: 252 ITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQ 311
           +T   A    L  L   P   +  +       L      R +     P         +  
Sbjct: 120 LTDAAAN-ALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPP-------PEQY 171

Query: 312 IIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALS 352
            +  L         +     AL    R    ++G    AL+
Sbjct: 172 AVTWLSRE------VTMSQDALLAALR---LSAGSPGAALA 203

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	517
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.97
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.96
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.89
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.88
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.87
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.87
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.87
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.87
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.86
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.85
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.84
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.84
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.83
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.8
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.78
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.78
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.72
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.71
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.65
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.57
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.54
d1fnna1	112	CDC6, C-terminal domain {Archaeon Pyrobaculum aero	99.54
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.53
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.46
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.46
d1w5sa1	110	CDC6-like protein APE0152, C-terminal domain {Aero	99.43
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.39
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.38
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.34
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.26
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.25
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.24
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.07
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.01
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.97
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.14
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.09
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.8
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.5
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.37
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.33
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.31
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.3
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.3
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.2
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.15
d1okkd2	207	GTPase domain of the signal recognition particle r	97.13
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.13
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.12
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.11
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.09
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.08
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.05
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.02
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.96
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.95
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.95
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.93
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.91
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.9
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.9
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.88
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.87
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.86
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.83
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.81
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.79
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.78
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.73
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.73
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.72
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.69
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.68
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.67
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.51
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.49
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.45
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.42
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.39
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.35
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.34
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.31
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.3
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.17
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.1
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.1
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.09
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.05
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.02
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.95
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.94
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.88
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.87
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.87
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.78
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.73
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.71
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.62
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.54
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.36
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.31
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.28
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	95.17
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.16
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	95.08
d1jhfa1	71	LexA repressor, N-terminal DNA-binding domain {Esc	95.07
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.05
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.93
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.86
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.82
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.77
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.76
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.73
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.51
d2g9wa1	122	Hypothetical protein Rv1846c {Mycobacterium tuberc	94.5
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	94.41
d1p6ra_	82	Penicillinase repressor BlaI {Bacillus licheniform	94.39
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.38
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.31
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.27
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	94.25
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.15
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	94.1
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.95
d1okra_	120	Methicillin resistance regulatory protein MecI {St	93.84
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.84
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.8
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.75
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.66
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.65
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.65
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	93.58
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.55
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.49
d1stza1	87	Heat-inducible transcription repressor HrcA, N-ter	93.46
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.41
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.38
d1sd4a_	122	Penicillinase repressor BlaI {Staphylococcus aureu	93.36
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.34
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.29
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.25
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.2
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	93.18
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	93.18
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.09
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.08
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.03
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	93.0
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.97
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	92.88
d2awna2	232	Maltose transport protein MalK, N-terminal domain	92.86
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.84
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.83
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.82
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.75
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.74
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	92.74
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.71
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.69
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.68
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	92.66
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.63
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.6
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.59
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	92.57
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.53
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.52
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.51
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.5
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.49
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.41
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.4
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.39
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.38
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	92.36
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.35
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.31
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.3
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.26
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.26
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.26
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.17
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.15
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	92.09
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.05
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	92.01
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.99
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.95
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	91.94
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.94
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	91.92
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	91.9
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.9
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.89
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	91.89
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	91.89
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.89
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.86
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.85
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	91.78
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	91.7
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.64
d2isya1	63	Iron-dependent regulator IdeR {Mycobacterium tuber	91.64
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.6
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.57
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.56
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	91.56
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	91.54
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	91.52
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	91.5
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	91.42
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.41
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	91.37
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.36
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	91.33
d1sfxa_	109	Hypothetical protein AF2008 {Archaeoglobus fulgidu	91.3
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.28
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	91.28
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	91.27
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.18
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.17
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.13
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.08
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.06
d3ctaa1	85	Ta1064 (RFK), N-terminal domain {Thermoplasma acid	90.99
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.94
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.93
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	90.73
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.54
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	90.09
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	89.98
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.59
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	89.56
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	89.5
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	89.29
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	89.17
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	89.14
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	89.05
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.02
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	88.94
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.91
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	88.88
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	88.87
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.86
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	88.85
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	88.79
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	88.77
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	88.55
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	88.52
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	88.44
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	88.3
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	88.3
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	88.18
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	88.09
d2zfia1	349	Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090	88.09
d1lj9a_	144	Transcriptional regulator SlyA {Enterococcus faeca	88.07
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	88.03
d1r1ua_	94	Metal-sensing transcriptional repressor CzrA {Stap	87.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	87.89
d1u2wa1	108	Cadmium efflux system accessory protein CadC {Stap	87.86
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	87.8
d1r1ta_	98	SmtB repressor {Cyanobacteria (Synechococcus), pcc	87.48
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	87.38
d2ev0a1	61	Manganese transport regulator MntR {Bacillus subti	87.34
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	87.09
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	86.95
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	86.72
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.67
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	86.48
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	86.35
d1hsja1	115	Staphylococcal accessory regulator A homolog, SarR	86.12
d2d1ha1	109	Hypothetical transcriptional regulator ST1889 {Sul	85.85
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	85.8
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	85.69
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	85.67
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	85.66
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	85.43
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	85.33
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	85.1
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	84.91
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	84.75
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	84.43
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	84.05
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.83
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	83.53
d1lnwa_	141	MexR repressor {Pseudomonas aeruginosa [TaxId: 287	82.28
d2frha1	115	Pleiotropic regulator of virulence genes, SarA {St	82.09
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	81.78
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.65
d2fxaa1	162	Protease production regulatory protein Hpr {Bacill	81.58
d3broa1	135	Transcriptional regulator OEOE1854 {Oenococcus oen	81.55
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.53
d1dp7p_	76	Class II MHC transcription factor RFX1 {Human (Hom	81.49
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	81.43
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	81.43
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	81.03
d1p4xa1	125	Staphylococcal accessory regulator A homolog, SarS	80.93
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	80.7
d1jgsa_	138	Multiple antibiotic resistance repressor, MarR {Es	80.29
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	80.22
d1p4xa2	125	Staphylococcal accessory regulator A homolog, SarS	80.19

>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=99.97  E-value=9.3e-30  Score=246.81  Aligned_cols=263  Identities=19%  Similarity=0.215  Sum_probs=202.5

Q ss_pred             HHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCC-----eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCce
Q 010136          112 AVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAG-----SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPE  186 (517)
Q Consensus       112 ~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~-----~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~  186 (517)
                      .+++.|+++|+|+.++||+.|++.|..++...+..+..+     +++|+||||||||++++++++++.+........ +.
T Consensus         4 ~~~~~l~~~~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~-~~   82 (287)
T d1w5sa2           4 KDRRVFDENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLT-VK   82 (287)
T ss_dssp             SCGGGGSTTCCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCC-EE
T ss_pred             cChhhcCCccCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCC-ce
Confidence            456789999999999999999999999987666544322     367889999999999999999998877655544 68


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC---chHHHHHh
Q 010136          187 VFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD---RAVLHDLF  263 (517)
Q Consensus       187 ~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~---~~~L~~l~  263 (517)
                      +++++|....+....+..++..+....... +.. ...+...+... ........++++||+|.+....   .+.++.++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~l~~~-~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~  159 (287)
T d1w5sa2          83 QAYVNAFNAPNLYTILSLIVRQTGYPIQVR-GAP-ALDILKALVDN-LYVENHYLLVILDEFQSMLSSPRIAAEDLYTLL  159 (287)
T ss_dssp             EEEEEGGGCCSHHHHHHHHHHHHTCCCCCT-TCC-HHHHHHHHHHH-HHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHH
T ss_pred             eeeeccccccchhhHHHHHhhhcccccccc-cch-HHHHHHHHHHH-HHhccCccccceeEEEEeccccccchhHHHHHH
Confidence            999999999999999999988886554332 333 33333333211 1134567889999999997653   34454443


Q ss_pred             ---cc--CCCCCCcEEEEEEECCCCcchhh---cccccccCCCceEEEeCCCCHHHHHHHHHHHHhh-hccCCCChhHHH
Q 010136          264 ---ML--TTFPFSRFILIGIANAIDLADRF---LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALE  334 (517)
Q Consensus       264 ---~~--~~~~~~~v~lI~ian~~~~~~~l---~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~-~~~~~~~~~ai~  334 (517)
                         ++  ......++.+|+++|..++.+.+   .+++.+| + ...++|++|+.+|+.+|+..|++. .....+++++++
T Consensus       160 ~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r-~-~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~  237 (287)
T d1w5sa2         160 RVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQ-I-GFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLE  237 (287)
T ss_dssp             THHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTT-C-SEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHH
T ss_pred             HHHHhcchhhcccceeEEeecccHHHHHHHHhhccchhcc-c-ceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHH
Confidence               22  33456788899999977655543   4677777 4 469999999999999999999973 445678999999


Q ss_pred             HHHHHHHH---HhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHH
Q 010136          335 LCARKVAA---ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSN  408 (517)
Q Consensus       335 ~ia~~~~~---~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~  408 (517)
                      +||++++.   ..||+|+|+++|+.|+.+|+.++..                            .|+.+||.+|+.+
T Consensus       238 ~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~----------------------------~It~~~V~~A~~e  286 (287)
T d1w5sa2         238 LISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRD----------------------------SLSEDLVRKAVSE  286 (287)
T ss_dssp             HHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCS----------------------------SCCHHHHHHHHHH
T ss_pred             HHHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCC----------------------------CCCHHHHHHHHhc
Confidence            99997754   3699999999999999999988766                            8999999999875

>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=99.96  E-value=2.5e-29  Score=242.37  Aligned_cols=260  Identities=18%  Similarity=0.207  Sum_probs=207.0

Q ss_pred             HHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEE
Q 010136          113 VREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSI  190 (517)
Q Consensus       113 ~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~v  190 (517)
                      ++..|+++|+|+.++||+.+++.|.++|...+..  ..+++++|+||||||||++++.+++.+...      ..+.++++
T Consensus         5 ~~~~l~~~y~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~------~~~~~~~~   78 (276)
T d1fnna2           5 DDSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDK------TTARFVYI   78 (276)
T ss_dssp             CGGGGSTTCCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTS------CCCEEEEE
T ss_pred             CcccCCCCCCCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcc------cCCcEEEe
Confidence            3567999999999999999999999999988754  456799999999999999999999988531      23679999


Q ss_pred             eCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhcc-CCCC
Q 010136          191 NCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFML-TTFP  269 (517)
Q Consensus       191 n~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~-~~~~  269 (517)
                      +|........++..+...+...... .+......+..+... . .......++++|++|.+.......+..++.+ ....
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~  155 (276)
T d1fnna2          79 NGFIYRNFTAIIGEIARSLNIPFPR-RGLSRDEFLALLVEH-L-RERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLG  155 (276)
T ss_dssp             ETTTCCSHHHHHHHHHHHTTCCCCS-SCCCHHHHHHHHHHH-H-HHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHS
T ss_pred             cchhhhhhhhhhhhhHHhhhhhhhh-hccchhHHHHHHHHH-H-hhcccccccchhHHHHhhhhhhhhHHHHHhcccccc
Confidence            9999999999999999887655432 233323333333321 1 1345567889999999876655555555554 2335


Q ss_pred             CCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhh-hccCCCChhHHHHHHHHHH------H
Q 010136          270 FSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLME-LSYIVFQPQALELCARKVA------A  342 (517)
Q Consensus       270 ~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~-~~~~~~~~~ai~~ia~~~~------~  342 (517)
                      ..++.+|++++..++.+.+.+++.+| +....|.|+||+.+++.+||..++.. .....++++++++|++.++      .
T Consensus       156 ~~~~~~i~~~~~~~~~~~~~~~~~~r-~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~  234 (276)
T d1fnna2         156 AFRIALVIVGHNDAVLNNLDPSTRGI-MGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDT  234 (276)
T ss_dssp             SCCEEEEEEESSTHHHHTSCHHHHHH-HTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCT
T ss_pred             ccceEEeecCCchhhhhhcchhhhhh-hcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhh
Confidence            56889999999888888889999998 66678999999999999999999873 3345789999999998753      3


Q ss_pred             HhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          343 ASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      ..||+|+|+++|+.|+..|..+++.                            .|+.+||.+|..++.
T Consensus       235 ~~G~~R~a~~ll~~a~~~A~~~~~~----------------------------~I~~edv~~A~~~~~  274 (276)
T d1fnna2         235 NRGDARLAIDILYRSAYAAQQNGRK----------------------------HIAPEDVRKSSKEVL  274 (276)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHHTTCS----------------------------SCCHHHHHHHHHHHS
T ss_pred             cCCCHHHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHHHHHHh
Confidence            5799999999999999999988766                            899999999998864

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=99.89  E-value=3.3e-22  Score=189.44  Aligned_cols=222  Identities=14%  Similarity=0.136  Sum_probs=159.1

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhh--------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNL--------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l--------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+++++|.++..++|.+.+....        ....+.+++|+||||||||+++++++++++          .+++++++.
T Consensus        10 t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~----------~~~~~i~~~   79 (256)
T d1lv7a_          10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK----------VPFFTISGS   79 (256)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT----------CCEEEECSC
T ss_pred             CHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcC----------CCEEEEEhH
Confidence            34678999999988887664321        122367899999999999999999998874          479999999


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHDL  262 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~l  262 (517)
                      .+.+.+.                 +.. ...++.+|..   +....|+||||||+|.+...+.           ..+..+
T Consensus        80 ~l~~~~~-----------------g~~-~~~l~~~f~~---A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~l  138 (256)
T d1lv7a_          80 DFVEMFV-----------------GVG-ASRVRDMFEQ---AKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQM  138 (256)
T ss_dssp             SSTTSCC-----------------CCC-HHHHHHHHHH---HHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHH
T ss_pred             Hhhhcch-----------------hHH-HHHHHHHHHH---HHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHH
Confidence            8755322                 333 6678888873   2366889999999999875421           233334


Q ss_pred             hccC--CCCCCcEEEEEEECCCCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          263 FMLT--TFPFSRFILIGIANAIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       263 ~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      +.+.  .....++++||+||   .++.+++.+.+. +| .+.|.|++++.+++.+|++..+.+...  -.+..+..+++.
T Consensus       139 l~~~d~~~~~~~v~vIatTn---~~~~ld~al~R~gRf-d~~i~i~~P~~~~R~~il~~~l~~~~~--~~~~~~~~la~~  212 (256)
T d1lv7a_         139 LVEMDGFEGNEGIIVIAATN---RPDVLDPALLRPGRF-DRQVVVGLPDVRGREQILKVHMRRVPL--APDIDAAIIARG  212 (256)
T ss_dssp             HHHHHTCCSSSCEEEEEEES---CTTTSCGGGGSTTSS-CEEEECCCCCHHHHHHHHHHHHTTSCB--CTTCCHHHHHHT
T ss_pred             HHHhhCCCCCCCEEEEEeCC---CcccCCHhHcCCCCC-CEEEECCCcCHHHHHHHHHHhccCCCc--CcccCHHHHHHh
Confidence            4331  12456799999999   577888998862 24 469999999999999999988876522  234456677764


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          340 VAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      +...  ..+..-.+|+.|...|.++++.                            .|+.+|+.+|++++.
T Consensus       213 t~G~--s~adi~~l~~~A~~~a~~~~~~----------------------------~i~~~d~~~Al~rv~  253 (256)
T d1lv7a_         213 TPGF--SGADLANLVNEAALFAARGNKR----------------------------VVSMVEFEKAKDKIM  253 (256)
T ss_dssp             CTTC--CHHHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHHHHHT
T ss_pred             CCCC--CHHHHHHHHHHHHHHHHHcCCC----------------------------ccCHHHHHHHHHHHh
Confidence            3322  3445557888888777765544                            799999999998764

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=99.88  E-value=1.5e-22  Score=191.09  Aligned_cols=218  Identities=13%  Similarity=0.114  Sum_probs=150.6

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhh--------ccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          122 APSTIVCREDEQKKVLEFCKKNL--------EEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l--------~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .+++++|.++..++|.+.+....        ....+.+++|+||||||||+++++++++++          .+++++++.
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~----------~~~~~i~~~   76 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR----------VPFITASGS   76 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT----------CCEEEEEHH
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcC----------CCEEEEEhH
Confidence            34567888888888777654321        122356899999999999999999998764          479999985


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc-----------hHHHHH
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR-----------AVLHDL  262 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~-----------~~L~~l  262 (517)
                      .+.+.                 +.| ...+.++++|..   +....|+||||||+|.|.....           .++..|
T Consensus        77 ~l~~~-----------------~~g-~~~~~l~~~f~~---a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~l  135 (247)
T d1ixza_          77 DFVEM-----------------FVG-VGAARVRDLFET---AKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQL  135 (247)
T ss_dssp             HHHHS-----------------CTT-HHHHHHHHHHHH---HTTSSSEEEEEETHHHHHC---------CHHHHHHHHHH
T ss_pred             Hhhhc-----------------ccc-HHHHHHHHHHHH---HHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHH
Confidence            43211                 112 235667888863   3466789999999999975421           133333


Q ss_pred             hccC--CCCCCcEEEEEEECCCCcchhhccccccc-CCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHH
Q 010136          263 FMLT--TFPFSRFILIGIANAIDLADRFLPRLQSM-NCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARK  339 (517)
Q Consensus       263 ~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~sr-~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~  339 (517)
                      +.+.  ...+.+|+|||+||   .++.+++.+.+. +| ...|+|++++.+++.+|++..+....  .-.+..++.+|+.
T Consensus       136 l~~~d~~~~~~~vivi~tTn---~~~~ld~al~R~~Rf-~~~i~~~~P~~~eR~~il~~~l~~~~--~~~~~~~~~la~~  209 (247)
T d1ixza_         136 LVEMDGFEKDTAIVVMAATN---RPDILDPALLRPGRF-DRQIAIDAPDVKGREQILRIHARGKP--LAEDVDLALLAKR  209 (247)
T ss_dssp             HHHHHTCCTTCCEEEEEEES---CGGGSCGGGGSTTSS-CEEEECCSCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHT
T ss_pred             HHHhhCCCCCCCEEEEEeCC---CccccCHhHcCCCCC-cEEEEECCcCHHHHHHHHHHHhcccC--CccccCHHHHHHH
Confidence            3321  12456899999999   578888998852 25 46999999999999999998887542  2233346777775


Q ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHH
Q 010136          340 VAAASGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVAL  406 (517)
Q Consensus       340 ~~~~~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~  406 (517)
                      +.+.  ..+..-++|+.|+..|..++..                            .|+++|+.+|+
T Consensus       210 t~g~--s~~di~~lv~~A~l~a~~~~~~----------------------------~i~~~d~~~A~  246 (247)
T d1ixza_         210 TPGF--VGADLENLLNEAALLAAREGRR----------------------------KITMKDLEEAA  246 (247)
T ss_dssp             CTTC--CHHHHHHHHHHHHHHHHHTTCS----------------------------SBCHHHHHHHT
T ss_pred             CCCC--CHHHHHHHHHHHHHHHHHcCCC----------------------------CcCHHHHHHhh
Confidence            4333  2344456888998877766554                            79999999986

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.87  E-value=2.7e-21  Score=182.24  Aligned_cols=212  Identities=15%  Similarity=0.208  Sum_probs=161.5

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc-cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE-EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~-~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      .++++|.++..+.|..|+..... +...++++|+||||||||++|+.+++++.          ..+..+|+........+
T Consensus         8 ~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~----------~~~~~~~~~~~~~~~~~   77 (238)
T d1in4a2           8 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ----------TNIHVTSGPVLVKQGDM   77 (238)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT----------CCEEEEETTTCCSHHHH
T ss_pred             HHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccC----------CCcccccCcccccHHHH
Confidence            36799999999999999987654 34577999999999999999999999875          46888888877655442


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------------
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------------  267 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------------  267 (517)
                                              ...+.     ......+++|||+|.+....++.++..++...              
T Consensus        78 ------------------------~~~~~-----~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  128 (238)
T d1in4a2          78 ------------------------AAILT-----SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSI  128 (238)
T ss_dssp             ------------------------HHHHH-----HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC-----------
T ss_pred             ------------------------HHHHH-----hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCccccccc
Confidence                                    22222     12234689999999998766777766554421              


Q ss_pred             -CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          268 -FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       268 -~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                       ....++++|+++|.   ...+++.+++| |. ..+.|.+++.+++..++...... ....+++++++.+++   .+.||
T Consensus       129 ~~~~~~~~~I~at~~---~~~~~~~~~~r-~~-~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~l~~i~~---~s~gd  199 (238)
T d1in4a2         129 RIDIQPFTLVGATTR---SGLLSSPLRSR-FG-IILELDFYTVKELKEIIKRAASL-MDVEIEDAAAEMIAK---RSRGT  199 (238)
T ss_dssp             ----CCCEEEEEESC---GGGSCHHHHTT-CS-EEEECCCCCHHHHHHHHHHHHHH-TTCCBCHHHHHHHHH---TSTTC
T ss_pred             ccCCCCeEEEEecCC---Cccccccceee-ee-EEEEecCCCHHHHHHHHHHhhhh-ccchhhHHHHHHHHH---hCCCC
Confidence             12347889998984   56677888888 53 57899999999999999876653 234678899999877   57899


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      +|.|+++|+.+...+...+..                            .||.+.+.+|+..+.
T Consensus       200 ~R~ai~~l~~~~~~~~~~~~~----------------------------~it~~~~~~al~~l~  235 (238)
T d1in4a2         200 PRIAIRLTKRVRDMLTVVKAD----------------------------RINTDIVLKTMEVLN  235 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCS----------------------------SBCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhcCC----------------------------ccCHHHHHHHHHhhC
Confidence            999999999998777665544                            799999999987653

>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=99.87  E-value=3.2e-21  Score=179.99  Aligned_cols=198  Identities=21%  Similarity=0.314  Sum_probs=148.3

Q ss_pred             cCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          119 VSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       119 ~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +.|.|   ++++|.++.++.|..++.    .+..++++|+||||+|||++|+.+++++......     ..++++|+...
T Consensus         7 eKyrP~~~~d~ig~~~~~~~L~~~~~----~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~-----~~~~~~n~~~~   77 (224)
T d1sxjb2           7 EKYRPQVLSDIVGNKETIDRLQQIAK----DGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYA-----DGVLELNASDD   77 (224)
T ss_dssp             HHTCCSSGGGCCSCTHHHHHHHHHHH----SCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHH-----HHEEEECTTSC
T ss_pred             hHhCCCCHHHhcCCHHHHHHHHHHHH----cCCCCeEEEECCCCCCchhhHHHHHHHHhccccc-----ccccccccccc
Confidence            34556   479999988888777764    4566789999999999999999999998743211     35889999988


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEE
Q 010136          196 TNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFIL  275 (517)
Q Consensus       196 ~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~l  275 (517)
                      .+...+...+....                    .........+..++||||+|.+....+..|...++..   .....+
T Consensus        78 ~~~~~i~~~~~~~~--------------------~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~---~~~~~~  134 (224)
T d1sxjb2          78 RGIDVVRNQIKHFA--------------------QKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELY---SNSTRF  134 (224)
T ss_dssp             CSHHHHHTHHHHHH--------------------HBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHT---TTTEEE
T ss_pred             CCceehhhHHHHHH--------------------HhhccCCCcceEEEEEecccccchhHHHHHhhhcccc---ccceee
Confidence            77665433222211                    1111112345579999999999888787777666653   346667


Q ss_pred             EEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHH
Q 010136          276 IGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCR  355 (517)
Q Consensus       276 I~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~  355 (517)
                      +.+++.   ...+.+.++|| |  ..|.|++++.+++..+|...+... ...+++++++.+++   .+.||+|.|++.|+
T Consensus       135 i~~~~~---~~~i~~~l~sr-~--~~i~~~~~~~~~i~~~l~~i~~~e-~~~i~~~~l~~I~~---~s~Gd~R~ai~~Lq  204 (224)
T d1sxjb2         135 AFACNQ---SNKIIEPLQSQ-C--AILRYSKLSDEDVLKRLLQIIKLE-DVKYTNDGLEAIIF---TAEGDMRQAINNLQ  204 (224)
T ss_dssp             EEEESC---GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHH-TCCBCHHHHHHHHH---HHTTCHHHHHHHHH
T ss_pred             eeccCc---hhhhhhHHHHH-H--HHhhhcccchhhhHHHHHHHHHhc-ccCCCHHHHHHHHH---HcCCcHHHHHHHHH
Confidence            777774   56678899999 7  789999999999999999877643 24789999999887   57899999999998


Q ss_pred             HHH
Q 010136          356 SAI  358 (517)
Q Consensus       356 ~A~  358 (517)
                      .++
T Consensus       205 ~~~  207 (224)
T d1sxjb2         205 STV  207 (224)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>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=99.87  E-value=2.8e-21  Score=182.16  Aligned_cols=200  Identities=21%  Similarity=0.233  Sum_probs=142.9

Q ss_pred             cCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC-------------
Q 010136          119 VSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL-------------  182 (517)
Q Consensus       119 ~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~-------------  182 (517)
                      ..|.|   ++++|.++.++.|..++..   +..+..++|+||||+|||++|+.+++.+.........             
T Consensus         4 ~KyrP~~~~dlig~~~~~~~L~~~i~~---~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~   80 (239)
T d1njfa_           4 RKWRPQTFADVVGQEHVLTALANGLSL---GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQ   80 (239)
T ss_dssp             HHTCCSSGGGSCSCHHHHHHHHHHHHT---TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHH
T ss_pred             hhhCCCCHHHccChHHHHHHHHHHHHc---CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHc
Confidence            34566   4789999988877777654   2234569999999999999999999988632110000             


Q ss_pred             -CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHH
Q 010136          183 -QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLH  260 (517)
Q Consensus       183 -~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~  260 (517)
                       ..+.+++++......                        .+.++.++... .....++..|+||||+|.|....|+.|.
T Consensus        81 ~~~~~~~~~~~~~~~~------------------------i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Ll  136 (239)
T d1njfa_          81 GRFVDLIEIDAASRTK------------------------VEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALL  136 (239)
T ss_dssp             TCCTTEEEEETTCSSS------------------------HHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHH
T ss_pred             CCCCeEEEecchhcCC------------------------HHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHH
Confidence             012345555543322                        22333333321 1112345579999999999877788888


Q ss_pred             HHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHH
Q 010136          261 DLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKV  340 (517)
Q Consensus       261 ~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~  340 (517)
                      .+++.   +...+.+|+++|.   ...+.+.++|| |  ..+.|++++.+++.+++...+... ...+++++++.+++  
T Consensus       137 k~lE~---~~~~~~~il~tn~---~~~i~~~i~SR-c--~~i~~~~~~~~~i~~~l~~i~~~e-~~~~~~~~l~~i~~--  204 (239)
T d1njfa_         137 KTLEE---PPEHVKFLLATTD---PQKLPVTILSR-C--LQFHLKALDVEQIRHQLEHILNEE-HIAHEPRALQLLAR--  204 (239)
T ss_dssp             HHHHS---CCTTEEEEEEESC---GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHH-TCCBCHHHHHHHHH--
T ss_pred             HHHhc---CCCCeEEEEEcCC---ccccChhHhhh-h--cccccccCcHHHhhhHHHHHHhhh-ccCCCHHHHHHHHH--
Confidence            88765   3457788888985   67788999999 7  799999999999999999777643 24789999999977  


Q ss_pred             HHHhCCHHHHHHHHHHHH
Q 010136          341 AAASGDMRKALSVCRSAI  358 (517)
Q Consensus       341 ~~~~Gd~R~al~ll~~A~  358 (517)
                       .+.||+|+|+++|+.|.
T Consensus       205 -~s~Gd~R~ain~l~~~~  221 (239)
T d1njfa_         205 -AAEGSLRDALSLTDQAI  221 (239)
T ss_dssp             -HTTTCHHHHHHHHHHHH
T ss_pred             -HcCCCHHHHHHHHHHHH
Confidence             56899999999997765

>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=99.87  E-value=3.6e-21  Score=181.01  Aligned_cols=209  Identities=18%  Similarity=0.178  Sum_probs=150.0

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|+++.++.|..+    +..+..++++|+||||+|||++++.+++++.......    ...+++++........+..
T Consensus        12 ~diig~~~~~~~l~~~----i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~   83 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKT----LKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMK----SRILELNASDERGISIVRE   83 (237)
T ss_dssp             TTCCSCCTTHHHHHHH----TTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHT----TSEEEECSSSCCCHHHHTT
T ss_pred             HHccCcHHHHHHHHHH----HHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccc----cchhheeccccccchHHHH
Confidence            4789999877766665    4556677899999999999999999999986543321    3578899988877666544


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                      .+-.......... ..   ..+..       .......||||||+|.+....+..+..+++..   .....+|.+++.  
T Consensus        84 ~~~~~~~~~~~~~-~~---~~~~~-------~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~---~~~~~~i~~~~~--  147 (237)
T d1sxjd2          84 KVKNFARLTVSKP-SK---HDLEN-------YPCPPYKIIILDEADSMTADAQSALRRTMETY---SGVTRFCLICNY--  147 (237)
T ss_dssp             HHHHHHHSCCCCC-CT---THHHH-------SCCCSCEEEEETTGGGSCHHHHHHHHHHHHHT---TTTEEEEEEESC--
T ss_pred             HHHHHhhhhhhhh-hH---HHHhh-------ccccCceEEEEecccccCHHHHHHHhhccccc---cccccccccccc--
Confidence            4433321111110 10   11111       12334568999999999887777777777654   245556666773  


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIEILEA  363 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~~a~~  363 (517)
                       ...+.+.+++| |  ..+.|.||+.+++..+|...+... ...+++++++.+++   .+.||+|.|+++|+.+...+..
T Consensus       148 -~~~~~~~l~sr-~--~~i~f~~~~~~~~~~~L~~i~~~e-~i~i~~~~l~~ia~---~s~gd~R~ai~~L~~~~~~~~~  219 (237)
T d1sxjd2         148 -VTRIIDPLASQ-C--SKFRFKALDASNAIDRLRFISEQE-NVKCDDGVLERILD---ISAGDLRRGITLLQSASKGAQY  219 (237)
T ss_dssp             -GGGSCHHHHHH-S--EEEECCCCCHHHHHHHHHHHHHTT-TCCCCHHHHHHHHH---HTSSCHHHHHHHHHHTHHHHHH
T ss_pred             -cccccccccch-h--hhhccccccccccchhhhhhhhhh-cCcCCHHHHHHHHH---HcCCCHHHHHHHHHHHHHhchh
Confidence             55677889998 7  799999999999999999877642 23789999999988   4689999999999988766655


Q ss_pred             H
Q 010136          364 E  364 (517)
Q Consensus       364 ~  364 (517)
                      .
T Consensus       220 ~  220 (237)
T d1sxjd2         220 L  220 (237)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=99.86  E-value=8.8e-22  Score=184.21  Aligned_cols=193  Identities=21%  Similarity=0.279  Sum_probs=142.4

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|.++.++.|..++..    +..++++|+||||+|||++++.+++++......     ..++.+++....+......
T Consensus        14 ~divg~~~~~~~L~~~i~~----~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~-----~~~~e~~~~~~~~~~~~~~   84 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDE----GKLPHLLFYGPPGTGKTSTIVALAREIYGKNYS-----NMVLELNASDDRGIDVVRN   84 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHT----TCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHH-----HHEEEECTTSCCSHHHHHT
T ss_pred             HHccCcHHHHHHHHHHHHc----CCCCeEEEECCCCCChhHHHHHHHHHhhcCCCc-----ceeEEecccccCCeeeeec
Confidence            4799999988888777654    556789999999999999999999998632110     2467888877665443211


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                      .+                    ..... ..........+|||||+|.+....+..|..+++..   ...+.++.++|.  
T Consensus        85 ~~--------------------~~~~~-~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~---~~~~~~~~~~~~--  138 (227)
T d1sxjc2          85 QI--------------------KDFAS-TRQIFSKGFKLIILDEADAMTNAAQNALRRVIERY---TKNTRFCVLANY--  138 (227)
T ss_dssp             HH--------------------HHHHH-BCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHT---TTTEEEEEEESC--
T ss_pred             ch--------------------hhccc-cccccCCCeEEEEEeccccchhhHHHHHHHHhhhc---ccceeeccccCc--
Confidence            11                    11111 01112344579999999999888888888877654   346677777884  


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAIE  359 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~~  359 (517)
                       ...+.+.+++| |  ..+.|.+++.+++..+|...+... ...+++++++.+++   .+.||+|.|+++|+.+..
T Consensus       139 -~~~i~~~i~sr-~--~~i~~~~~~~~~i~~~l~~I~~~e-~i~i~~~~l~~i~~---~s~Gd~R~ain~Lq~~~~  206 (227)
T d1sxjc2         139 -AHKLTPALLSQ-C--TRFRFQPLPQEAIERRIANVLVHE-KLKLSPNAEKALIE---LSNGDMRRVLNVLQSCKA  206 (227)
T ss_dssp             -GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHTT-TCCBCHHHHHHHHH---HHTTCHHHHHHHTTTTTT
T ss_pred             -HHHhHHHHHHH-H--hhhccccccccccccccccccccc-cccCCHHHHHHHHH---HcCCcHHHHHHHHHHHHH
Confidence             56788889998 7  799999999999999999777532 24789999999988   468999999999987653

>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=99.85  E-value=4.8e-21  Score=179.65  Aligned_cols=192  Identities=20%  Similarity=0.261  Sum_probs=143.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ++++|.++.++.|..++..    +..++++|+||||+|||++|+.+++++......     ..++++||....+...+  
T Consensus        24 ~diig~~~~~~~l~~~i~~----~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~-----~~~~e~n~s~~~~~~~~--   92 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKT----GSMPHLLFAGPPGVGKTTAALALARELFGENWR-----HNFLELNASDERGINVI--   92 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHH----TCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHH-----HHEEEEETTCHHHHHTT--
T ss_pred             HHccCcHHHHHHHHHHHHc----CCCCeEEEECCCCCcHHHHHHHHHHHHHhcccC-----CCeeEEecCcccchhHH--
Confidence            5799999988888888754    567889999999999999999999988642111     36889998764322211  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCC
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAID  283 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~  283 (517)
                                        ...+...... .........||++||+|.+....+..|..+++..   ..++.+|+++|.  
T Consensus        93 ------------------~~~~~~~~~~-~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~---~~~~~~i~~~n~--  148 (231)
T d1iqpa2          93 ------------------REKVKEFART-KPIGGASFKIIFLDEADALTQDAQQALRRTMEMF---SSNVRFILSCNY--  148 (231)
T ss_dssp             ------------------HHHHHHHHHS-CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHT---TTTEEEEEEESC--
T ss_pred             ------------------HHHHHHHHhh-hhccCCCceEEeehhhhhcchhHHHHHhhhcccC---CcceEEEeccCC--
Confidence                              1111111110 1112345679999999999888888888777653   356788888884  


Q ss_pred             cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Q 010136          284 LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       284 ~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                       ...+++.+.+| +  ..+.|.+++.+++..+|+..+... ...+++++++.|++   .+.||+|.|+++|+.|.
T Consensus       149 -~~~i~~~l~sR-~--~~i~~~~~~~~~~~~~l~~~~~~e-~i~i~~~~l~~I~~---~~~gdiR~ai~~Lq~~~  215 (231)
T d1iqpa2         149 -SSKIIEPIQSR-C--AIFRFRPLRDEDIAKRLRYIAENE-GLELTEEGLQAILY---IAEGDMRRAINILQAAA  215 (231)
T ss_dssp             -GGGSCHHHHHT-E--EEEECCCCCHHHHHHHHHHHHHTT-TCEECHHHHHHHHH---HHTTCHHHHHHHHHHHH
T ss_pred             -hhhchHhHhCc-c--ccccccccchhhHHHHHHHHHHHh-CCCCCHHHHHHHHH---HcCCCHHHHHHHHHHHH
Confidence             56678889998 6  689999999999999999887643 23578999999987   47899999999998775

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.84  E-value=1.3e-20  Score=179.38  Aligned_cols=236  Identities=17%  Similarity=0.183  Sum_probs=155.7

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhc---------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLE---------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~---------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      ++++.|.++..++|.+.+...+.         ...+.+++|+||||||||+++++++.++.          .+++++++.
T Consensus         3 ~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~----------~~~~~i~~~   72 (258)
T d1e32a2           3 YDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG----------AFFFLINGP   72 (258)
T ss_dssp             GGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTT----------CEEEEECHH
T ss_pred             hhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhC----------CeEEEEEch
Confidence            35689999999999888654222         12366899999999999999999998864          478899876


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHHhcc
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDLFML  265 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l~~~  265 (517)
                      .+.+.+.                  ......++.+|..   +....|+||+|||+|.+.....        ..+..++.+
T Consensus        73 ~l~~~~~------------------g~~~~~l~~~f~~---A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~  131 (258)
T d1e32a2          73 EIMSKLA------------------GESESNLRKAFEE---AEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTL  131 (258)
T ss_dssp             HHTTSCT------------------THHHHHHHHHHHH---HHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHH
T ss_pred             hhccccc------------------ccHHHHHHHHHHH---HHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccc
Confidence            5433211                  1125566777763   2356789999999999975421        123333322


Q ss_pred             --CCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHH
Q 010136          266 --TTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       266 --~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~  343 (517)
                        ......+++|||+||   .++.+++.+++.......|+|++++.+++.+||+..+.+..  .-++..++.+|+.+.++
T Consensus       132 ~~~~~~~~~vlvi~tTn---~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~--~~~~~~~~~la~~t~G~  206 (258)
T d1e32a2         132 MDGLKQRAHVIVMAATN---RPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMK--LADDVDLEQVANETHGH  206 (258)
T ss_dssp             HHTCCCSSCEEEEEEES---CGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSC--BCTTCCHHHHHHHCTTC
T ss_pred             cccccccCCccEEEeCC---CccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcc--cccccchhhhhhcccCC
Confidence              234556799999999   57888999887322356999999999999999998877542  12333477787755443


Q ss_pred             hCCHHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHH
Q 010136          344 SGDMRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALS  407 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~  407 (517)
                      +  .+..-.+|+.|...|.++.......... ......          .....|+++|+..|++
T Consensus       207 s--~adl~~lv~~A~~~a~~~~~~~~~~~~~-~~~~~~----------~~~~~it~~Df~~AL~  257 (258)
T d1e32a2         207 V--GADLAALCSEAALQAIRKKMDLIDLEDE-TIDAEV----------MNSLAVTMDDFRWALS  257 (258)
T ss_dssp             C--HHHHHHHHHHHHHHHHHHHHHHHCCCSS-CCBHHH----------HHHCCBCHHHHHHHHT
T ss_pred             C--HHHHHHHHHHHHHHHHHhhccccchhhh-hhhhhh----------hccCccCHHHHHHHhC
Confidence            3  3344478888887776665542111000 000000          0112699999999985

>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=99.84  E-value=4.8e-20  Score=173.63  Aligned_cols=213  Identities=17%  Similarity=0.181  Sum_probs=155.0

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhcc-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEE-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      .++++|.++..+.|..++...... ...++++|+||||||||++|+.+++++.          +.+..+++.........
T Consensus         8 ~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~----------~~~~~~~~~~~~~~~~~   77 (239)
T d1ixsb2           8 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG----------VNLRVTSGPAIEKPGDL   77 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHT----------CCEEEEETTTCCSHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhC----------CCeEeccCCccccchhh
Confidence            357899999999999998776543 3578999999999999999999998875          46888898876554332


Q ss_pred             HHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccC---------------
Q 010136          202 FSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLT---------------  266 (517)
Q Consensus       202 ~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~---------------  266 (517)
                      .                        ..+..    ......|++|||+|.+....++.++..++-.               
T Consensus        78 ~------------------------~~~~~----~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~  129 (239)
T d1ixsb2          78 A------------------------AILAN----SLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTI  129 (239)
T ss_dssp             H------------------------HHHHT----TCCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEE
T ss_pred             H------------------------HHHHh----hccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhc
Confidence            1                        11110    1122358899999999877777776655321               


Q ss_pred             CCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCC
Q 010136          267 TFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGD  346 (517)
Q Consensus       267 ~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd  346 (517)
                      .....++++|+++|...   ...+...++.+  ..+.|.+++.+++..|+...+... ...+++++++.+++   .+.||
T Consensus       130 ~~~~~~~~~i~~~~~~~---~~~~~~l~~~~--~~~~~~~~~~~~~~~i~~~~~~~~-~i~~~~~~l~~ia~---~s~gd  200 (239)
T d1ixsb2         130 RLELPRFTLIGATTRPG---LITAPLLSRFG--IVEHLEYYTPEELAQGVMRDARLL-GVRITEEAALEIGR---RSRGT  200 (239)
T ss_dssp             EEECCCCEEEEEESCCS---SCSCGGGGGCS--EEEECCCCCHHHHHHHHHHHHGGG-CCCBCHHHHHHHHH---HTTSS
T ss_pred             ccCCCCEEEEeeccCcc---cccchhhcccc--eeeEeeccChhhhhHHHHHHHHHh-CCccchHHHHHHHH---HcCCC
Confidence            01234677888888533   23334444424  689999999999999999766543 34778899999887   57899


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          347 MRKALSVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       347 ~R~al~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      +|.|+++++.+...|...+..                            .||.+++.+++..+.
T Consensus       201 ~R~a~~~l~~~~~~a~~~~~~----------------------------~It~~~~~~~l~~l~  236 (239)
T d1ixsb2         201 MRVAKRLFRRVRDFAQVAGEE----------------------------VITRERALEALAALG  236 (239)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCS----------------------------CBCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhCCC----------------------------CcCHHHHHHHHhhhC
Confidence            999999999988766544433                            799999999987654

>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=99.83  E-value=5.7e-20  Score=174.53  Aligned_cols=210  Identities=17%  Similarity=0.212  Sum_probs=145.0

Q ss_pred             cCCCC---CCCCCcHHHHHHHHHHHHHhhc-------------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC
Q 010136          119 VSTAP---STIVCREDEQKKVLEFCKKNLE-------------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL  182 (517)
Q Consensus       119 ~~~~p---~~l~gRe~e~~~l~~~L~~~l~-------------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~  182 (517)
                      +.|.|   ++++|.++.+++|..+|..+..             .+..++++|+||||||||++|+++++++.        
T Consensus         6 eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~--------   77 (253)
T d1sxja2           6 VKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG--------   77 (253)
T ss_dssp             HHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT--------
T ss_pred             cCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH--------
Confidence            34555   4799999999999999876431             22356899999999999999999998875        


Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHH
Q 010136          183 QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDL  262 (517)
Q Consensus       183 ~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l  262 (517)
                        ..++++++....+...+...+-..+...........    ..     ..........++++||+|.+....+..+..+
T Consensus        78 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~-----~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~  146 (253)
T d1sxja2          78 --YDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKH----NE-----EAQNLNGKHFVIIMDEVDGMSGGDRGGVGQL  146 (253)
T ss_dssp             --CEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC-------------CCSSTTSEEEEECSGGGCCTTSTTHHHHH
T ss_pred             --hhhhccccccchhhHHHHHHHHHHhhcchhhhhhhh----hh-----hcccccccceEEEeeeccccccchhhhhHHH
Confidence              478999999988877654433222211111000000    00     0112355678999999999988888777777


Q ss_pred             hccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHH
Q 010136          263 FMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAA  342 (517)
Q Consensus       263 ~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~  342 (517)
                      +++.......+++++  |+..  ......++++ +  ..|.|++++.+++..+|+..+... ...+++++++.+++   .
T Consensus       147 ~~~~~~~~~~ii~i~--~~~~--~~~~~~l~~~-~--~~i~f~~~~~~~i~~~l~~i~~~e-~i~i~~~~l~~i~~---~  215 (253)
T d1sxja2         147 AQFCRKTSTPLILIC--NERN--LPKMRPFDRV-C--LDIQFRRPDANSIKSRLMTIAIRE-KFKLDPNVIDRLIQ---T  215 (253)
T ss_dssp             HHHHHHCSSCEEEEE--SCTT--SSTTGGGTTT-S--EEEECCCCCHHHHHHHHHHHHHHH-TCCCCTTHHHHHHH---H
T ss_pred             hhhhccccccccccc--cccc--ccccccccce-e--eeeeccccchhHHHHHHHHHHHHh-CCCCCHHHHHHHHH---h
Confidence            776433344555554  4322  1123355665 5  799999999999999999877532 23688999999887   4


Q ss_pred             HhCCHHHHHHHHHHHH
Q 010136          343 ASGDMRKALSVCRSAI  358 (517)
Q Consensus       343 ~~Gd~R~al~ll~~A~  358 (517)
                      +.||+|.|++.|+.+.
T Consensus       216 s~GDiR~ai~~L~~~~  231 (253)
T d1sxja2         216 TRGDIRQVINLLSTIS  231 (253)
T ss_dssp             TTTCHHHHHHHHTHHH
T ss_pred             CCCcHHHHHHHHHHHH
Confidence            6899999999886543

>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=99.80  E-value=2.4e-19  Score=170.02  Aligned_cols=213  Identities=16%  Similarity=0.195  Sum_probs=131.8

Q ss_pred             cCCCC---CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHh--------c-------
Q 010136          119 VSTAP---STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE--------A-------  180 (517)
Q Consensus       119 ~~~~p---~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~--------~-------  180 (517)
                      +.|.|   ++++|+++..+.|..++..   ....++++|+||||||||++|+.+++++......        .       
T Consensus         3 eky~P~~~~diig~~~~~~~L~~~~~~---~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~   79 (252)
T d1sxje2           3 DKYRPKSLNALSHNEELTNFLKSLSDQ---PRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRK   79 (252)
T ss_dssp             TTTCCCSGGGCCSCHHHHHHHHTTTTC---TTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC---------------
T ss_pred             cccCCCCHHHccCcHHHHHHHHHHHHc---CCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccch
Confidence            44555   4799998877666655432   2346689999999999999999999987310000        0       


Q ss_pred             ----CCCCceEEEEeCCCCCC-HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC
Q 010136          181 ----GLQQPEVFSINCTSLTN-TSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD  255 (517)
Q Consensus       181 ----~~~~~~~v~vn~~~~~s-~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~  255 (517)
                          .........+.+..... ...................          ...  ..........+++|||+|.+....
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~--~~~~~~~~~~iiiide~d~l~~~~  147 (252)
T d1sxje2          80 LELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD----------FQD--SKDGLAHRYKCVIINEANSLTKDA  147 (252)
T ss_dssp             ---CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------------CCEEEEEECTTSSCHHH
T ss_pred             hhhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhh----------hhh--cccccCCCceEEEecccccccccc
Confidence                00000112222222211 1111111111111100000          000  000112345699999999997777


Q ss_pred             chHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHH
Q 010136          256 RAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALEL  335 (517)
Q Consensus       256 ~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~  335 (517)
                      +..|..+++..   ..++.+|+++|.   .+.+.+.++|| |  ..|+|+||+.+++.++|...+........++++++.
T Consensus       148 ~~~l~~~~e~~---~~~~~~Il~tn~---~~~i~~~l~sR-~--~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~  218 (252)
T d1sxje2         148 QAALRRTMEKY---SKNIRLIMVCDS---MSPIIAPIKSQ-C--LLIRCPAPSDSEISTILSDVVTNERIQLETKDILKR  218 (252)
T ss_dssp             HHHHHHHHHHS---TTTEEEEEEESC---SCSSCHHHHTT-S--EEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHH
T ss_pred             chhhhcccccc---cccccceeeecc---ccchhhhhhcc-h--heeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHH
Confidence            77777777653   456778888985   55678889998 7  689999999999999998877643334556788888


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHH
Q 010136          336 CARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       336 ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      ++.   .+.||+|+|++.|+.+.
T Consensus       219 i~~---~s~Gd~R~ai~~Lq~~~  238 (252)
T d1sxje2         219 IAQ---ASNGNLRVSLLMLESMA  238 (252)
T ss_dssp             HHH---HHTTCHHHHHHHHTHHH
T ss_pred             HHH---HcCCcHHHHHHHHHHHH
Confidence            877   57899999999998665

>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=99.78  E-value=2.3e-18  Score=162.41  Aligned_cols=235  Identities=14%  Similarity=0.154  Sum_probs=164.6

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      .++||++|++++...|..    ....+++|+|+||+|||+++..+++.+........+....++.++...+.....    
T Consensus        19 ~~igRd~Ei~~l~~iL~r----~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~----   90 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCR----RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTK----   90 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTS----SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCC----
T ss_pred             cccChHHHHHHHHHHHhc----CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCc----
Confidence            479999999999988754    355799999999999999999999988753211122334688888776532110    


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----chHHHHHhccCCCCCCcEEEEEEE
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----RAVLHDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----~~~L~~l~~~~~~~~~~v~lI~ia  279 (517)
                                 + .+...+.+..++.+.   ......|+||||++.|....     ...+.+++. +......+.+||++
T Consensus        91 -----------~-~g~~e~r~~~i~~~~---~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lk-p~L~rg~i~vIgat  154 (268)
T d1r6bx2          91 -----------Y-RGDFEKRFKALLKQL---EQDTNSILFIDEIHTIIGAGAASGGQVDAANLIK-PLLSSGKIRVIGST  154 (268)
T ss_dssp             -----------C-SSCHHHHHHHHHHHH---SSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHS-SCSSSCCCEEEEEE
T ss_pred             -----------c-chhHHHHHHHHHHHh---hccCCceEEecchHHHhcCCCCCCccccHHHHhh-HHHhCCCCeEEEeC
Confidence                       1 223356666666632   34566899999999997542     134666664 34456789999988


Q ss_pred             CCCCcchhh--cccccccCCCceEEEeCCCCHHHHHHHHHHHH---hhhccCCCChhHHHHHHHHHHHHhCC---HHHHH
Q 010136          280 NAIDLADRF--LPRLQSMNCKPLVVTFRAYSKDQIIRILQERL---MELSYIVFQPQALELCARKVAAASGD---MRKAL  351 (517)
Q Consensus       280 n~~~~~~~l--~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl---~~~~~~~~~~~ai~~ia~~~~~~~Gd---~R~al  351 (517)
                      +..++...+  ++.+.+| |  +.|.+.+++.++...||....   +......+++++++.+.+....+-.+   +.+|+
T Consensus       155 T~eey~~~~e~d~al~rr-F--~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAI  231 (268)
T d1r6bx2         155 TYQEFSNIFEKDRALARR-F--QKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAI  231 (268)
T ss_dssp             CHHHHHCCCCCTTSSGGG-E--EEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHH
T ss_pred             CHHHHHHHHhhcHHHHhh-h--cccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHH
Confidence            755443333  5778887 7  899999999999999998654   34455789999999888877665554   88999


Q ss_pred             HHHHHHHHHHHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhc
Q 010136          352 SVCRSAIEILEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTF  410 (517)
Q Consensus       352 ~ll~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~  410 (517)
                      ++++.|+..+.......                        ....|+.+|+...+.++.
T Consensus       232 dllDea~a~~~~~~~~~------------------------~~~~i~~~di~~~i~~~~  266 (268)
T d1r6bx2         232 DVIDEAGARARLMPVSK------------------------RKKTVNVADIESVVARIA  266 (268)
T ss_dssp             HHHHHHHHHHHHSSSCC------------------------CCCSCCHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhhcccc------------------------CcccCCHHHHHHHHHHHh
Confidence            99999986554422110                        011588899988887754

>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=99.78  E-value=5.8e-20  Score=175.35  Aligned_cols=209  Identities=18%  Similarity=0.218  Sum_probs=138.5

Q ss_pred             CCCCCCCCcHHHHHHHHHHHHHhhc--------c-CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          121 TAPSTIVCREDEQKKVLEFCKKNLE--------E-EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       121 ~~p~~l~gRe~e~~~l~~~L~~~l~--------~-~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      ...+++.|-++..++|.+++...+.        + ..+.+++|+||||||||+++++++.+++          .++++++
T Consensus         4 ~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~----------~~~~~~~   73 (265)
T d1r7ra3           4 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ----------ANFISIK   73 (265)
T ss_dssp             CSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTT----------CEEEEEC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhC----------CcEEEEE
Confidence            3455677888777777777643322        1 2356899999999999999999998875          4788998


Q ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-----------chHHH
Q 010136          192 CTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-----------RAVLH  260 (517)
Q Consensus       192 ~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-----------~~~L~  260 (517)
                      +..+.+.                 + .......++.+|...   ....|+||+|||+|.+....           ..++.
T Consensus        74 ~~~l~~~-----------------~-~~~~~~~l~~~f~~A---~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~  132 (265)
T d1r7ra3          74 GPELLTM-----------------W-FGESEANVREIFDKA---RQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVIN  132 (265)
T ss_dssp             HHHHHTS-----------------C-TTTHHHHHHHHHHHH---HHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHH
T ss_pred             HHHhhhc-----------------c-ccchHHHHHHHHHHH---HhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHH
Confidence            6443111                 1 223366777888632   34578999999999997531           12344


Q ss_pred             HHhccCC--CCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHH
Q 010136          261 DLFMLTT--FPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCAR  338 (517)
Q Consensus       261 ~l~~~~~--~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~  338 (517)
                      .++.+..  ....+++|||+||   .++.+++.+.++.....+|.|++++.+++.+||+..+....  .-.+..++.+++
T Consensus       133 ~ll~~l~~~~~~~~v~vi~ttn---~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~--~~~~~~l~~la~  207 (265)
T d1r7ra3         133 QILTEMDGMSTKKNVFIIGATN---RPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSP--VAKDVDLEFLAK  207 (265)
T ss_dssp             HHHHTCC------CCEEEECCB---SCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC------CCCCHHHHH
T ss_pred             HHHHHhhCcCCCCCEEEEEeCC---CchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCC--chhhhhHHHHHh
Confidence            5555532  2345689999999   57778899886322346999999999999999998776431  112334677777


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHHh
Q 010136          339 KVAAASGDMRKALSVCRSAIEILEAEMRE  367 (517)
Q Consensus       339 ~~~~~~Gd~R~al~ll~~A~~~a~~~~~~  367 (517)
                      .+.+.+|  +..-.+|++|...|.++...
T Consensus       208 ~t~g~s~--~di~~lv~~A~~~A~~~~~~  234 (265)
T d1r7ra3         208 MTNGFSG--ADLTEICQRACKLAIRESIE  234 (265)
T ss_dssp             HHCSSCC--HHHHHHHHHHHHHHHHHC--
T ss_pred             cCCCCCH--HHHHHHHHHHHHHHHHHHHH
Confidence            6544443  33446888998888765443

>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=99.72  E-value=2.7e-17  Score=154.65  Aligned_cols=195  Identities=14%  Similarity=0.151  Sum_probs=124.6

Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHHhhc------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          120 STAPSTIVCREDEQKKVLEFCKKNLE------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       120 ~~~p~~l~gRe~e~~~l~~~L~~~l~------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      .|+-+.++|..+.++.+.+-+...+.      ..++.+++|+||||||||+++++++++++          ++++.+++.
T Consensus         5 ~~~~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~----------~~~~~i~~~   74 (246)
T d1d2na_           5 SYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN----------FPFIKICSP   74 (246)
T ss_dssp             TTCTTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT----------CSEEEEECG
T ss_pred             HhhccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccc----------ccccccccc
Confidence            46667788988888777776554332      22345799999999999999999998764          478999886


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC-------c---hHHHHHh
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-------R---AVLHDLF  263 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-------~---~~L~~l~  263 (517)
                      .....+.                 +....+.++.+|...   ....|+||||||||.+....       .   ..|..++
T Consensus        75 ~~~~g~~-----------------~~~~~~~i~~if~~A---~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l  134 (246)
T d1d2na_          75 DKMIGFS-----------------ETAKCQAMKKIFDDA---YKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLL  134 (246)
T ss_dssp             GGCTTCC-----------------HHHHHHHHHHHHHHH---HTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHT
T ss_pred             ccccccc-----------------ccchhhhhhhhhhhh---hhcccceeehhhhhhHhhhcccccchhHHHHHHHHHHh
Confidence            5321100                 111134566777632   35678999999999986532       1   2344444


Q ss_pred             ccCCCCCCcEEEEEEECCCCcchhhccc-ccccCCCceEEEeCCCC-HHHHHHHHHHHHhhhccCCCChhHHHHHHHHHH
Q 010136          264 MLTTFPFSRFILIGIANAIDLADRFLPR-LQSMNCKPLVVTFRAYS-KDQIIRILQERLMELSYIVFQPQALELCARKVA  341 (517)
Q Consensus       264 ~~~~~~~~~v~lI~ian~~~~~~~l~~~-l~sr~~~~~~i~f~p~~-~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~  341 (517)
                      +.......+++|||+||.   ++.+++. +.+| |. ..|.|+.+. .+++.+++...      ..+++..+..+++.+.
T Consensus       135 ~~~~~~~~~v~vi~tTn~---~~~ld~~~~~~r-F~-~~i~~P~~~~r~~il~~l~~~------~~~~~~~~~~i~~~~~  203 (246)
T d1d2na_         135 KKAPPQGRKLLIIGTTSR---KDVLQEMEMLNA-FS-TTIHVPNIATGEQLLEALELL------GNFKDKERTTIAQQVK  203 (246)
T ss_dssp             TCCCSTTCEEEEEEEESC---HHHHHHTTCTTT-SS-EEEECCCEEEHHHHHHHHHHH------TCSCHHHHHHHHHHHT
T ss_pred             cCCCccccceeeeeccCC---hhhccchhhcCc-cc-eEEecCCchhHHHHHHHHHhc------cCCChHHHHHHHHHcC
Confidence            444444568999999994   6666643 5555 53 588886653 55665555421      2566777777777543


Q ss_pred             HHhC--CHHHHHHHHH
Q 010136          342 AASG--DMRKALSVCR  355 (517)
Q Consensus       342 ~~~G--d~R~al~ll~  355 (517)
                      ...+  +++.++.++.
T Consensus       204 g~~~~~~ik~ll~~ie  219 (246)
T d1d2na_         204 GKKVWIGIKKLLMLIE  219 (246)
T ss_dssp             TSEEEECHHHHHHHHH
T ss_pred             CCccchhHHHHHHHHH
Confidence            3222  3666655443

>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=99.71  E-value=2.4e-16  Score=144.35  Aligned_cols=185  Identities=14%  Similarity=0.201  Sum_probs=126.0

Q ss_pred             CCcHHHHHHHHHHHHHhhccCC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHh---------------cCCCCceEEEE
Q 010136          127 VCREDEQKKVLEFCKKNLEEEK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKE---------------AGLQQPEVFSI  190 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~---------------~~~~~~~~v~v  190 (517)
                      +..++.++++...+.    .+. +..++|+||||+|||++++.+++.+.....+               .+. ...+..+
T Consensus         5 Pw~~~~~~~l~~~~~----~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~~   79 (207)
T d1a5ta2           5 PWLRPDFEKLVASYQ----AGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGT-HPDYYTL   79 (207)
T ss_dssp             GGGHHHHHHHHHHHH----TTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTC-CTTEEEE
T ss_pred             cccHHHHHHHHHHHH----cCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhcc-ccccchh
Confidence            455555555555543    344 5569999999999999999999987521100               000 0122222


Q ss_pred             eCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCC
Q 010136          191 NCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFP  269 (517)
Q Consensus       191 n~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~  269 (517)
                      +....                     .+....+.++++.... .....++..|++|||+|.+....++.|..+++.+   
T Consensus        80 ~~~~~---------------------~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep---  135 (207)
T d1a5ta2          80 APEKG---------------------KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEP---  135 (207)
T ss_dssp             CCCTT---------------------CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC---
T ss_pred             hhhhc---------------------ccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhh---
Confidence            22111                     0111134444444321 1123456679999999999988889999998874   


Q ss_pred             CCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHH
Q 010136          270 FSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRK  349 (517)
Q Consensus       270 ~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~  349 (517)
                      ..++.+|++++.   +..+.+.++|| |  ..+.|++++.+++..+|...      ..+++++++.+++   .+.||+|.
T Consensus       136 ~~~~~fIl~t~~---~~~ll~tI~SR-c--~~i~~~~~~~~~~~~~L~~~------~~~~~~~~~~i~~---~s~Gs~r~  200 (207)
T d1a5ta2         136 PAETWFFLATRE---PERLLATLRSR-C--RLHYLAPPPEQYAVTWLSRE------VTMSQDALLAALR---LSAGSPGA  200 (207)
T ss_dssp             CTTEEEEEEESC---GGGSCHHHHTT-S--EEEECCCCCHHHHHHHHHHH------CCCCHHHHHHHHH---HTTTCHHH
T ss_pred             cccceeeeeecC---hhhhhhhhcce-e--EEEecCCCCHHHHHHHHHHc------CCCCHHHHHHHHH---HcCCCHHH
Confidence            467888888885   56789999999 7  79999999999999988743      2568889999887   46799999


Q ss_pred             HHHHHH
Q 010136          350 ALSVCR  355 (517)
Q Consensus       350 al~ll~  355 (517)
                      |+++++
T Consensus       201 al~~le  206 (207)
T d1a5ta2         201 ALALFQ  206 (207)
T ss_dssp             HHHTTS
T ss_pred             HHHHhC
Confidence            998763

>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=99.65  E-value=1.1e-15  Score=151.87  Aligned_cols=213  Identities=16%  Similarity=0.187  Sum_probs=137.1

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||++|++++...|.+    ...+|++|.|+||+|||+++..++..+........+....++.++...+......  
T Consensus        22 d~~~gr~~ei~~~~~~L~r----~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~--   95 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLR----RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY--   95 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHC----SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------
T ss_pred             CCCcCcHHHHHHHHHHHhc----CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCc--
Confidence            3479999999999998765    3557789999999999999999998876522112233457888888776432221  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc----hHHHHHhccCCCCCCcEEEEEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR----AVLHDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~----~~L~~l~~~~~~~~~~v~lI~ia  279 (517)
                                    .+...+.+..++.+.  .....++||||||++.|.....    ..+.+++. +......+-+||+|
T Consensus        96 --------------~g~~e~r~~~i~~~~--~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lk-p~L~rg~~~~I~~t  158 (387)
T d1qvra2          96 --------------RGEFEERLKAVIQEV--VQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLK-PALARGELRLIGAT  158 (387)
T ss_dssp             ----------------CHHHHHHHHHHHH--HTTCSSEEEEECCC-------------------H-HHHHTTCCCEEEEE
T ss_pred             --------------chhHHHHHHHHHHHh--ccCCCceEEEeccHHHHhcCCCCCCcccHHHHHH-HHHhCCCcceeeec
Confidence                          122245555555431  1244578999999999975421    11222221 22234677799988


Q ss_pred             CCCCcchhh--cccccccCCCceEEEeCCCCHHHHHHHHHHHHh---hhccCCCChhHHHHHHHHHHHHhC---CHHHHH
Q 010136          280 NAIDLADRF--LPRLQSMNCKPLVVTFRAYSKDQIIRILQERLM---ELSYIVFQPQALELCARKVAAASG---DMRKAL  351 (517)
Q Consensus       280 n~~~~~~~l--~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~---~~~~~~~~~~ai~~ia~~~~~~~G---d~R~al  351 (517)
                      +..++. .+  ++.+.+| |  +.|.+.+++.++...||+....   ......++++++..+.+...++-.   -+.+||
T Consensus       159 T~~ey~-~~e~d~al~rr-F--~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAi  234 (387)
T d1qvra2         159 TLDEYR-EIEKDPALERR-F--QPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAI  234 (387)
T ss_dssp             CHHHHH-HHTTCTTTCSC-C--CCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHH
T ss_pred             CHHHHH-HhcccHHHHHh-c--ccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHH
Confidence            855442 23  6777777 7  7899999999999999986654   344567999999998887766554   489999


Q ss_pred             HHHHHHHHHHHH
Q 010136          352 SVCRSAIEILEA  363 (517)
Q Consensus       352 ~ll~~A~~~a~~  363 (517)
                      ++++.|+..+..
T Consensus       235 dlld~a~a~~~i  246 (387)
T d1qvra2         235 DLIDEAAARLRM  246 (387)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999865543

>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=99.57  E-value=1.3e-14  Score=141.08  Aligned_cols=166  Identities=19%  Similarity=0.299  Sum_probs=108.3

Q ss_pred             CCCCcHHHHHHHHHHHHHhhc----------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLE----------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~----------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++|+++.++.+...+...+.          ...+++++|+||||||||.+|+++++.+.          ..++.+++..
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~----------~~~~~i~~s~   84 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN----------APFIKVEATK   84 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT----------CCEEEEEGGG
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc----------cchhcccccc
Confidence            579999999999887743221          22568999999999999999999999874          3689999988


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhc--cCCCceEEEEEeCcchhcccCc---------hHHHHHh
Q 010136          195 LTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLH--SSVMKMMLIIADELDYLITRDR---------AVLHDLF  263 (517)
Q Consensus       195 ~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~vI~iDEiD~L~~~~~---------~~L~~l~  263 (517)
                      +.....+                +......+..+|.....  .....++||||||||.+.....         .++..|+
T Consensus        85 ~~~~~~~----------------~~~~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL  148 (309)
T d1ofha_          85 FTEVGYV----------------GKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLL  148 (309)
T ss_dssp             GSSCCSG----------------GGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHH
T ss_pred             cccceeE----------------eeeccccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhh
Confidence            7433211                11113445555552110  0012468999999999986532         1333333


Q ss_pred             ccC---CC-------CCCcEEEEEEEC-CCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHH
Q 010136          264 MLT---TF-------PFSRFILIGIAN-AIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQE  318 (517)
Q Consensus       264 ~~~---~~-------~~~~v~lI~ian-~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~  318 (517)
                      .+.   ..       ...++++|++.+ ....+..+.|.+..| + ...+.|.+++..++.+|+..
T Consensus       149 ~~~dg~~~~~~~~~i~~s~ilfi~~ga~~~~~~~~~~p~l~~R-~-~~~i~~~~~~~~~~~~Il~~  212 (309)
T d1ofha_         149 PLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGR-L-PIRVELTALSAADFERILTE  212 (309)
T ss_dssp             HHHHCCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHHT-C-CEEEECCCCCHHHHHHHHHS
T ss_pred             HHhcCCEEecCCeEEEccceeEEeccchhhcCcccchhhhhhh-h-heeeeccCCCHHHHHHHHHH
Confidence            221   10       123455665322 123466788999988 5 46899999999999999753

>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=99.54  E-value=3.9e-14  Score=129.76  Aligned_cols=201  Identities=14%  Similarity=0.249  Sum_probs=124.5

Q ss_pred             cCcCCCCCCCC-CcHHHHHHHHHHHHHhhccC--CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          117 LHVSTAPSTIV-CREDEQKKVLEFCKKNLEEE--KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       117 l~~~~~p~~l~-gRe~e~~~l~~~L~~~l~~~--~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      |++.+..++++ |.+.+.  ...++.......  ..+.++|+||+|||||+++.++++++...    +   ..++|+++.
T Consensus         3 ln~~~tFdnF~vg~~N~~--a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~----~---~~~~~~~~~   73 (213)
T d1l8qa2           3 LNPKYTLENFIVGEGNRL--AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR----G---YRVIYSSAD   73 (213)
T ss_dssp             CCTTCCSSSCCCCTTTHH--HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT----T---CCEEEEEHH
T ss_pred             CCCCCChhhccCCCcHHH--HHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccC----c---cceEEechH
Confidence            66777777754 544433  333333333322  23459999999999999999999988653    2   357888764


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccC--chHHHHHhccCCCCCC
Q 010136          194 SLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRD--RAVLHDLFMLTTFPFS  271 (517)
Q Consensus       194 ~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~--~~~L~~l~~~~~~~~~  271 (517)
                      .      +...+...+..       .. ...+...+.        ..-+|+||++|.+..+.  +..|..+++.....+.
T Consensus        74 ~------~~~~~~~~~~~-------~~-~~~~~~~~~--------~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~  131 (213)
T d1l8qa2          74 D------FAQAMVEHLKK-------GT-INEFRNMYK--------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEK  131 (213)
T ss_dssp             H------HHHHHHHHHHH-------TC-HHHHHHHHH--------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTC
T ss_pred             H------HHHHHHHHHHc-------cc-hhhHHHHHh--------hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccc
Confidence            3      33333333311       01 223333333        23589999999997653  4667888877543333


Q ss_pred             cEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHH
Q 010136          272 RFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKAL  351 (517)
Q Consensus       272 ~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al  351 (517)
                      .+ |++....+.-...+.+++.||......+.++ ++.+++.+||+.++.. ..-.++++++++++++    ..++|...
T Consensus       132 ~i-iits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~-rgl~l~~~v~~yl~~~----~~~~R~L~  204 (213)
T d1l8qa2         132 QI-ILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKE-FNLELRKEVIDYLLEN----TKNVREIE  204 (213)
T ss_dssp             EE-EEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHH-TTCCCCHHHHHHHHHH----CSSHHHHH
T ss_pred             eE-EEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHH-cCCCCCHHHHHHHHHh----cCcHHHHH
Confidence            33 3332333322233568888884344567775 5778899999988863 2347899999999874    35777654


Q ss_pred             HHHH
Q 010136          352 SVCR  355 (517)
Q Consensus       352 ~ll~  355 (517)
                      .++.
T Consensus       205 ~~l~  208 (213)
T d1l8qa2         205 GKIK  208 (213)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>d1fnna1 a.4.5.11 (A:277-388) CDC6, C-terminal domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Helicase DNA-binding domain
domain: CDC6, C-terminal domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.54  E-value=1.3e-14  Score=117.74  Aligned_cols=92  Identities=17%  Similarity=0.317  Sum_probs=78.5

Q ss_pred             HHHhccCCHHHHHHHHHHHHHHhc-CCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec-------c
Q 010136          415 VDTIKSLPQHQQILLCSAVKFFRG-GKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-------R  486 (517)
Q Consensus       415 ~~~i~~L~~~~k~iL~al~~l~~~-~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-------~  486 (517)
                      .+.+++||.|||++|+|++.+... +...+++++||+.|..+|+..+.+|+++++|+++|+.|+.+|||...       +
T Consensus         3 ee~i~~Lp~h~klvL~ai~~~~~~~~~~~ittgevy~~Y~~lc~~~~~~pls~rr~~~~l~~Le~lGiI~~r~~~~g~G~   82 (112)
T d1fnna1           3 EEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERPRVHSQLWSYLNDLREKGIVETRQNKRGEGV   82 (112)
T ss_dssp             HHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSSEEEEC------
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHhCCCeeeeecccCCCC
Confidence            467899999999999999987655 66679999999999999999999999999999999999999999743       2


Q ss_pred             CCceeEEEeecCHHHHHHHH
Q 010136          487 DDKLKRVTLKADESDITFAL  506 (517)
Q Consensus       487 ~~~~~~~~l~~~~~~i~~~l  506 (517)
                      +|+++.|+|.+++.++...+
T Consensus        83 rGrt~~Isl~~~~~~~l~~~  102 (112)
T d1fnna1          83 RGRTTLISIGTEPLDTLEAV  102 (112)
T ss_dssp             ---CEEEECCSSCHHHHHHH
T ss_pred             CCcceEEeecCChHHHHHHH
Confidence            58999999999877766553

>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=99.53  E-value=4.2e-15  Score=132.30  Aligned_cols=164  Identities=15%  Similarity=0.253  Sum_probs=108.7

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      +.++||++|++++...|..    ....+++|+|+||+|||+++..+++.+........+....++.++...+......  
T Consensus        22 d~~igRd~Ei~~l~~iL~r----~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~--   95 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQR----RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKY--   95 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTS----SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCS--
T ss_pred             CCCcCcHHHHHHHHHHHhc----cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCc--
Confidence            3479999999999888654    3567999999999999999999999887532111223356888886543110000  


Q ss_pred             HHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCc--------hHHHHHhccCCCCCCcEEE
Q 010136          204 KILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--------AVLHDLFMLTTFPFSRFIL  275 (517)
Q Consensus       204 ~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--------~~L~~l~~~~~~~~~~v~l  275 (517)
                                    .....+.+..++.+.  .......||||||++.|....+        +.|...+.     ...+.+
T Consensus        96 --------------rG~~E~rl~~il~e~--~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-----rg~l~~  154 (195)
T d1jbka_          96 --------------RGEFEERLKGVLNDL--AKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-----RGELHC  154 (195)
T ss_dssp             --------------HHHHHHHHHHHHHHH--HHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-----TTSCCE
T ss_pred             --------------cHHHHHHHHHHHHHH--hcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh-----CCCceE
Confidence                          001134455555421  1244568999999999975422        34444442     457789


Q ss_pred             EEEECCCCcchhh--cccccccCCCceEEEeCCCCHHHHHHHHH
Q 010136          276 IGIANAIDLADRF--LPRLQSMNCKPLVVTFRAYSKDQIIRILQ  317 (517)
Q Consensus       276 I~ian~~~~~~~l--~~~l~sr~~~~~~i~f~p~~~~e~~~IL~  317 (517)
                      ||+++..++...+  ++.+.+| |  +.|.+.+++.++...||+
T Consensus       155 IgatT~eey~~~~e~d~aL~rr-F--~~I~V~Ep~~e~t~~IL~  195 (195)
T d1jbka_         155 VGATTLDEYRQYIEKDAALERR-F--QKVFVAEPSVEDTIAILR  195 (195)
T ss_dssp             EEEECHHHHHHHTTTCHHHHTT-E--EEEECCCCCHHHHHTTCC
T ss_pred             EecCCHHHHHHHHHcCHHHHhc-C--CEeecCCCCHHHHHHHhC
Confidence            9988755444333  6788888 7  899999999999988763

>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=99.46  E-value=9.8e-14  Score=134.60  Aligned_cols=195  Identities=17%  Similarity=0.195  Sum_probs=132.2

Q ss_pred             CCCCcHHHHHHHHHHHHHhhcc----CCCC-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEE----EKAG-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS  199 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~----~~~~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~  199 (517)
                      .++|+++.++.+...+..+..+    ..+. +++++||+|+|||.+|+.+++.+....       ..++.+++..+....
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~-------~~~~~~~~~~~~~~~   96 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE-------EAMIRIDMTEYMEKH   96 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG-------GGEEEECTTTCCSSG
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCC-------cceEEEeccccccch
Confidence            5799999999999998876442    2233 678999999999999999999884211       368999999987655


Q ss_pred             HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCC
Q 010136          200 EIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFS  271 (517)
Q Consensus       200 ~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~  271 (517)
                      .+     ..|.+...++.|......|.+.+.      .....||+|||||.....-++.|..+++...        ..-.
T Consensus        97 ~~-----~~L~g~~~gyvG~~~~~~l~~~~~------~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~  165 (315)
T d1qvra3          97 AV-----SRLIGAPPGYVGYEEGGQLTEAVR------RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFR  165 (315)
T ss_dssp             GG-----GGC--------------CHHHHHH------HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECT
T ss_pred             hh-----hhhcCCCCCCcCcccCChHHHHHH------hCCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCc
Confidence            42     122222222222221223444443      2346899999999998888888988887621        1235


Q ss_pred             cEEEEEEECCCC-----------------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhc----
Q 010136          272 RFILIGIANAID-----------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELS----  324 (517)
Q Consensus       272 ~v~lI~ian~~~-----------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~----  324 (517)
                      ++++|+++|--.                       +.+.+.|.+.+| + ...+.|.|++.+++..|+...+..+.    
T Consensus       166 ~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEflnR-i-d~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~  243 (315)
T d1qvra3         166 NTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNR-L-DEIVVFRPLTKEQIRQIVEIQLSYLRARLA  243 (315)
T ss_dssp             TEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHT-C-SBCCBCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHhc-C-CeeeeccchhhhhhHHHHHHHHHHHHHHHH
Confidence            789999888310                       123356777788 6 45889999999999999886654321    


Q ss_pred             ----cCCCChhHHHHHHHH
Q 010136          325 ----YIVFQPQALELCARK  339 (517)
Q Consensus       325 ----~~~~~~~ai~~ia~~  339 (517)
                          ...+++++++++++.
T Consensus       244 ~~~i~l~i~~~~~~~L~~~  262 (315)
T d1qvra3         244 EKRISLELTEAAKDFLAER  262 (315)
T ss_dssp             TTTCEEEECHHHHHHHHHH
T ss_pred             hccccccccHHHHHHHHHh
Confidence                246789999999886

>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=99.46  E-value=2e-13  Score=132.64  Aligned_cols=205  Identities=16%  Similarity=0.181  Sum_probs=138.6

Q ss_pred             hHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhcc----CC-CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCC
Q 010136          108 EQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEE----EK-AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGL  182 (517)
Q Consensus       108 ~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~----~~-~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~  182 (517)
                      ..+...++.|+.     .++|+++.++.+...+..+..+    .. .++++++||+|+|||.+|+.+++.+.        
T Consensus        11 ~~l~~l~~~L~~-----~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~--------   77 (315)
T d1r6bx3          11 DTLKNLGDRLKM-----LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG--------   77 (315)
T ss_dssp             HHHHHHHHHHTT-----TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT--------
T ss_pred             HHHHHHHHHhCC-----eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc--------
Confidence            345555555554     5799999999999988765532    22 23789999999999999999998864        


Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHH
Q 010136          183 QQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDL  262 (517)
Q Consensus       183 ~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l  262 (517)
                        ..++.++|..+.....+     ..|-+...++.|......+...+.      .....|+++||+|.....-++.|.++
T Consensus        78 --~~~i~~d~s~~~~~~~~-----~~l~g~~~gy~g~~~~~~l~~~~~------~~~~~vvl~DeieKa~~~V~~~lLqi  144 (315)
T d1r6bx3          78 --IELLRFDMSEYMERHTV-----SRLIGAPPGYVGFDQGGLLTDAVI------KHPHAVLLLDEIEKAHPDVFNILLQV  144 (315)
T ss_dssp             --CEEEEEEGGGCSSSSCC-----SSSCCCCSCSHHHHHTTHHHHHHH------HCSSEEEEEETGGGSCHHHHHHHHHH
T ss_pred             --CCeeEeccccccchhhh-----hhhcccCCCccccccCChhhHHHH------hCccchhhhcccccccchHhhhhHHh
Confidence              37999999988654331     112222221111111122333333      34567999999999988777888888


Q ss_pred             hccCC--------CCCCcEEEEEEECCCC----------------------cchhhcccccccCCCceEEEeCCCCHHHH
Q 010136          263 FMLTT--------FPFSRFILIGIANAID----------------------LADRFLPRLQSMNCKPLVVTFRAYSKDQI  312 (517)
Q Consensus       263 ~~~~~--------~~~~~v~lI~ian~~~----------------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~  312 (517)
                      ++-..        ....+.++|+++|--.                      +...+.|.+..| + ...+.|.|++.+++
T Consensus       145 ld~G~ltd~~Gr~vdf~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnR-i-d~ii~f~~l~~~~~  222 (315)
T d1r6bx3         145 MDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNR-L-DNIIWFDHLSTDVI  222 (315)
T ss_dssp             HHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHTT-C-SEEEECCCCCHHHH
T ss_pred             hccceecCCCCCccCccceEEEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhh-h-hhhhcccchhhhHH
Confidence            76421        2346788899888421                      112356777787 5 46999999999999


Q ss_pred             HHHHHHHHhhh--------ccCCCChhHHHHHHHHH
Q 010136          313 IRILQERLMEL--------SYIVFQPQALELCARKV  340 (517)
Q Consensus       313 ~~IL~~rl~~~--------~~~~~~~~ai~~ia~~~  340 (517)
                      ..|+...+..+        ....+++++++++++..
T Consensus       223 ~~I~~~~l~~~~~~l~~~~i~l~~~~~a~~~l~~~~  258 (315)
T d1r6bx3         223 HQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKG  258 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHTTEEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCcchhhHHHHHHHHHHhC
Confidence            99987666422        12467899999998753

>d1w5sa1 a.4.5.11 (A:300-409) CDC6-like protein APE0152, C-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Helicase DNA-binding domain
domain: CDC6-like protein APE0152, C-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.43  E-value=3e-13  Score=107.74  Aligned_cols=85  Identities=18%  Similarity=0.273  Sum_probs=72.8

Q ss_pred             HhccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH-HHhcCCCCCChHHHHHHHHHHhhcCceeec-----cCCce
Q 010136          417 TIKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNI-CKTSLIPPVGTLEFFSMCRVLHDQGVLKVG-----RDDKL  490 (517)
Q Consensus       417 ~i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~-~~~~~~~~~~~~~~~~~~~~L~~~glI~~~-----~~~~~  490 (517)
                      .+++||.||++||++++.+..++...+++++||+.|.++ |+.++++|+++++|+++++.|+.+|||...     ++|++
T Consensus         3 ~l~~L~~H~~lvL~~I~~~~~~~~~~~~tGei~~~Y~ev~c~~~~~~P~~~t~~~~~l~~Le~lGiI~~r~~~~G~rGrt   82 (110)
T d1w5sa1           3 ELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAKPSGRGMRGRT   82 (110)
T ss_dssp             SSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEECC-------C
T ss_pred             hhhccCHhHHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCCeEEEeccCCCCCCe
Confidence            478999999999999999877788899999999999986 899999999999999999999999999854     57899


Q ss_pred             eEEEeecC-HHH
Q 010136          491 KRVTLKAD-ESD  501 (517)
Q Consensus       491 ~~~~l~~~-~~~  501 (517)
                      +.|.|..+ +.|
T Consensus        83 ~~isl~~~~p~d   94 (110)
T d1w5sa1          83 TLFRLAPHLPAD   94 (110)
T ss_dssp             CEEEECTTSCHH
T ss_pred             eEEeeCCCCchH
Confidence            99999754 444

>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=99.39  E-value=2.9e-15  Score=144.20  Aligned_cols=141  Identities=13%  Similarity=0.094  Sum_probs=96.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNL  228 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~  228 (517)
                      .++++++||||||||++|++++.++...        +.++.+++..+.+.|.                 |.. .+.++.+
T Consensus       123 ~g~~l~~G~pG~GKT~la~ala~~~~~~--------~~~~~~~~~~~~~~~~-----------------G~~-e~~~~~~  176 (321)
T d1w44a_         123 SGMVIVTGKGNSGKTPLVHALGEALGGK--------DKYATVRFGEPLSGYN-----------------TDF-NVFVDDI  176 (321)
T ss_dssp             SEEEEEECSSSSCHHHHHHHHHHHHHTT--------SCCEEEEBSCSSTTCB-----------------CCH-HHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHHhcCC--------CCeEEEEhhHhhhccc-----------------chH-HHHHHHH
Confidence            4456779999999999999999998631        4578899988765332                 333 7788999


Q ss_pred             HHhhhccCCCceEEEEEeCcchhcccCc---------hHHHHHhccC--CCCCCcEEEEEEECCCCcchhhcccccc--c
Q 010136          229 YSQKLHSSVMKMMLIIADELDYLITRDR---------AVLHDLFMLT--TFPFSRFILIGIANAIDLADRFLPRLQS--M  295 (517)
Q Consensus       229 ~~~~~~~~~~~~~vI~iDEiD~L~~~~~---------~~L~~l~~~~--~~~~~~v~lI~ian~~~~~~~l~~~l~s--r  295 (517)
                      |.+..     .++||||||||.+....+         ..+.+++...  ......|+||++||..++.+.+++++.+  |
T Consensus       177 f~~a~-----~~~ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~~~~~~~i~~~~~r~~R  251 (321)
T d1w44a_         177 ARAML-----QHRVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLNPTSNDDKIVELVKEASR  251 (321)
T ss_dssp             HHHHH-----HCSEEEEECCTTTC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECCCCCCCHHHHHHHHHHHH
T ss_pred             HHHHh-----hccEEEeehhhhhccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCCCcccccchhhhhhccCc
Confidence            97431     367999999999976532         3344443221  0123469999999976666666654443  3


Q ss_pred             CCCceEEEeCCCCHHHHHHHHHHHHhh
Q 010136          296 NCKPLVVTFRAYSKDQIIRILQERLME  322 (517)
Q Consensus       296 ~~~~~~i~f~p~~~~e~~~IL~~rl~~  322 (517)
                       | .+.+.+.+++.++..+||.....+
T Consensus       252 -f-~~~v~v~~pd~~~r~~il~~~~~~  276 (321)
T d1w44a_         252 -S-NSTSLVISTDVDGEWQVLTRTGEG  276 (321)
T ss_dssp             -H-SCSEEEEECSSTTEEEEEEECBTT
T ss_pred             -c-cceeecCCCChHHHHHHHHHhccC
Confidence             3 257888888988888888755443

>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=99.38  E-value=5.5e-12  Score=113.69  Aligned_cols=143  Identities=9%  Similarity=0.129  Sum_probs=98.3

Q ss_pred             HHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-CHHHHHHHHHHHhCCCCCCCC
Q 010136          139 FCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-NTSEIFSKILLKLQPRKKLNG  217 (517)
Q Consensus       139 ~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-s~~~i~~~i~~~l~~~~~~~~  217 (517)
                      +|+..+..+.+.+++|+||||+|||+++..+++.+...    ......+++++..... .                    
T Consensus         5 ~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~----~~~h~D~~~i~~~~~~I~--------------------   60 (198)
T d2gnoa2           5 TLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKF----PPKASDVLEIDPEGENIG--------------------   60 (198)
T ss_dssp             HHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTS----CCCTTTEEEECCSSSCBC--------------------
T ss_pred             HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc----ccCCCCEEEEeCCcCCCC--------------------
Confidence            44555555678899999999999999999999876431    2223468888764321 1                    


Q ss_pred             CCCHHHHHHHHHHhh-hccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccC
Q 010136          218 STSPLQYLQNLYSQK-LHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMN  296 (517)
Q Consensus       218 ~~~~~~~l~~~~~~~-~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~  296 (517)
                          .+.++++.... .....++..|++|||+|.|....+++|..+++.+   ..+..+|.+++.   ++.+.|.++|| 
T Consensus        61 ----Id~IR~i~~~~~~~~~~~~~KviIId~ad~l~~~aqNaLLK~LEEP---p~~t~fiLit~~---~~~ll~TI~SR-  129 (198)
T d2gnoa2          61 ----IDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEP---PEYAVIVLNTRR---WHYLLPTIKSR-  129 (198)
T ss_dssp             ----HHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSC---CTTEEEEEEESC---GGGSCHHHHTT-
T ss_pred             ----HHHHHHHHHHHhhCcccCCCEEEEEeCccccchhhhhHHHHHHhCC---CCCceeeeccCC---hhhCHHHHhcc-
Confidence                22233322211 1222355679999999999988889999888764   457777777884   67889999999 


Q ss_pred             CCceEEEeCCCCHHHHHHHHHHHH
Q 010136          297 CKPLVVTFRAYSKDQIIRILQERL  320 (517)
Q Consensus       297 ~~~~~i~f~p~~~~e~~~IL~~rl  320 (517)
                      |  +.+.|+++.  +...++...+
T Consensus       130 C--~~i~~~~p~--~~~~~~~~~~  149 (198)
T d2gnoa2         130 V--FRVVVNVPK--EFRDLVKEKI  149 (198)
T ss_dssp             S--EEEECCCCH--HHHHHHHHHH
T ss_pred             e--EEEeCCCch--HHHHHHHHHH
Confidence            7  789998764  3444444443

>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=99.34  E-value=1.4e-11  Score=116.84  Aligned_cols=197  Identities=16%  Similarity=0.143  Sum_probs=110.2

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-----
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-----  196 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-----  196 (517)
                      -++.++||++++++|...        .+.+++|+||+|+|||++++.+++.+.          ..+.++++....     
T Consensus        10 ~~~~f~GR~~el~~l~~~--------~~~~i~i~G~~G~GKTsLl~~~~~~~~----------~~~~~i~~~~~~~~~~~   71 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL--------RAPITLVLGLRRTGKSSIIKIGINELN----------LPYIYLDLRKFEERNYI   71 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT--------CSSEEEEEESTTSSHHHHHHHHHHHHT----------CCEEEEEGGGGTTCSCC
T ss_pred             ChhhCCChHHHHHHHHhc--------cCCEEEEEcCCCCcHHHHHHHHHHHCC----------CCeEEEEeccccccccc
Confidence            467899999999887542        457899999999999999999887764          246677664332     


Q ss_pred             CHHHHHHHHHHHhC--------------CCC-------------CCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcc
Q 010136          197 NTSEIFSKILLKLQ--------------PRK-------------KLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELD  249 (517)
Q Consensus       197 s~~~i~~~i~~~l~--------------~~~-------------~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD  249 (517)
                      ....++..+.....              ...             ...........+..+..     ...++.+|++||++
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~-----~~~~~~~i~id~~~  146 (283)
T d2fnaa2          72 SYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQ-----ASKDNVIIVLDEAQ  146 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHH-----TCSSCEEEEEETGG
T ss_pred             cHHHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHh-----hcccccccccchhh
Confidence            22334433333221              000             00001111222222222     35667899999999


Q ss_pred             hhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhccc------ccccCCCceEEEeCCCCHHHHHHHHHHHHhhh
Q 010136          250 YLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPR------LQSMNCKPLVVTFRAYSKDQIIRILQERLMEL  323 (517)
Q Consensus       250 ~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~------l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~  323 (517)
                      .+.......+...+.+.......+..+.++........+...      +..+  ....+.+.|++.++..+++...+...
T Consensus       147 ~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~L~~l~~~e~~~~l~~~~~~~  224 (283)
T d2fnaa2         147 ELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGR--AFSTVELKPFSREEAIEFLRRGFQEA  224 (283)
T ss_dssp             GGGGCTTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTC--CCEEEEECCCCHHHHHHHHHHHHHHH
T ss_pred             hhcccchHHHHHHHHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhccc--ceeEEeeCCCCHHHHHHHHHhhhhhc
Confidence            987654322222222110011244444444432222222211      1112  23689999999999999999887643


Q ss_pred             ccCCCChhHHHHHHHHHHHHhCCHHH
Q 010136          324 SYIVFQPQALELCARKVAAASGDMRK  349 (517)
Q Consensus       324 ~~~~~~~~ai~~ia~~~~~~~Gd~R~  349 (517)
                         .++.+.++.+.+   ...|.+..
T Consensus       225 ---~~~~~~~~~i~~---~~~G~P~~  244 (283)
T d2fnaa2         225 ---DIDFKDYEVVYE---KIGGIPGW  244 (283)
T ss_dssp             ---TCCCCCHHHHHH---HHCSCHHH
T ss_pred             ---CCCHHHHHHHHH---HhCCCHHH
Confidence               344444555544   45666653

>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=99.26  E-value=9.7e-12  Score=121.87  Aligned_cols=140  Identities=21%  Similarity=0.214  Sum_probs=97.0

Q ss_pred             EEEEEeCcchhcccCchHHHHHhccCCC----------CCCcEEEEEEECCCCcchhhcccccccCCCceEEEeC-CCCH
Q 010136          241 MLIIADELDYLITRDRAVLHDLFMLTTF----------PFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFR-AYSK  309 (517)
Q Consensus       241 ~vI~iDEiD~L~~~~~~~L~~l~~~~~~----------~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~-p~~~  309 (517)
                      -|+||||++.+....++.|.+.++....          -...+.+|+++|..+  ..+.+.+.+| |.. .+.+. |.+.
T Consensus       129 gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~--~~l~~~llDR-f~~-~i~v~~~~~~  204 (333)
T d1g8pa_         129 GYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEE--GDLRPQLLDR-FGL-SVEVLSPRDV  204 (333)
T ss_dssp             EEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCS--CCCCHHHHTT-CSE-EEECCCCCSH
T ss_pred             cEeecccHHHHHHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccc--cccccchhhh-hcc-eeeccCcchh
Confidence            5999999999988888888888764211          125789999999753  4577888888 644 45554 4455


Q ss_pred             HHHHHHHHHHHh----------------------------hhccCCCChhHHHHHHHHHHHHhC-CHHHHHHHHHHHHHH
Q 010136          310 DQIIRILQERLM----------------------------ELSYIVFQPQALELCARKVAAASG-DMRKALSVCRSAIEI  360 (517)
Q Consensus       310 ~e~~~IL~~rl~----------------------------~~~~~~~~~~ai~~ia~~~~~~~G-d~R~al~ll~~A~~~  360 (517)
                      .+..+++..+..                            .+....+.++....++........ .+|..+.+++-|..+
T Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~llrvArti  284 (333)
T d1g8pa_         205 ETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARAL  284 (333)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHhhhhcccChHHHHHHHHHHHHHHHHHHHHHhhcccceecCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHH
Confidence            555544433211                            111244566666666665544444 689999999999999


Q ss_pred             HHHHHHhhhhccccccccccchhhhhhhhhhccCccccHHHHHHHHHHhccC
Q 010136          361 LEAEMRESVSKMNSASAEQGLFDQQAASAFEFFNSQVRVDHMAVALSNTFKS  412 (517)
Q Consensus       361 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vt~~~v~~a~~~~~~~  412 (517)
                      |..++++                            .|+.+||.+|+.-+...
T Consensus       285 A~L~gr~----------------------------~V~~~di~~a~~lvL~h  308 (333)
T d1g8pa_         285 AALEGAT----------------------------AVGRDHLKRVATMALSH  308 (333)
T ss_dssp             HHHTTCS----------------------------BCCHHHHHHHHHHHHGG
T ss_pred             HHHcCCC----------------------------CCCHHHHHHHHHHHHHh
Confidence            9988877                            89999999988766544

>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=99.25  E-value=2.2e-11  Score=119.90  Aligned_cols=206  Identities=17%  Similarity=0.231  Sum_probs=122.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhhc--------------------------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLE--------------------------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAK  178 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~--------------------------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~  178 (517)
                      .++|+++..+.+...+.+..+                          ...++++|+.||+|||||.+|+.+++.+.    
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~----   93 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD----   93 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTT----
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhcc----
Confidence            589999999888877642211                          23578999999999999999999987642    


Q ss_pred             hcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHhhh-ccCCCceEEEEEeCcchhccc---
Q 010136          179 EAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGSTSPLQYLQNLYSQKL-HSSVMKMMLIIADELDYLITR---  254 (517)
Q Consensus       179 ~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~vI~iDEiD~L~~~---  254 (517)
                            ..++.++++.+....-+                +......+.+++.... .-......|+++||+|.....   
T Consensus        94 ------~~~ir~D~s~~~e~gyv----------------g~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~  151 (364)
T d1um8a_          94 ------IPIAISDATSLTEAGYV----------------GEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSEN  151 (364)
T ss_dssp             ------CCEEEEEGGGCC------------------------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC------
T ss_pred             ------cceeehhhhhcccchhh----------------HhhhccchhhhhhhchhHHHHhhcccchhhhhhhhcccccc
Confidence                  36899999988653221                1111233444443210 001223468999999996542   


Q ss_pred             -----------CchHHHHHhccC--CC--------CCCcEEEEEEECC--------CC----------------------
Q 010136          255 -----------DRAVLHDLFMLT--TF--------PFSRFILIGIANA--------ID----------------------  283 (517)
Q Consensus       255 -----------~~~~L~~l~~~~--~~--------~~~~v~lI~ian~--------~~----------------------  283 (517)
                                 .++.|.++++-.  ..        ...+.++|.++|-        ..                      
T Consensus       152 ~~~~~d~a~~~V~~~lLqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~  231 (364)
T d1um8a_         152 RSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMS  231 (364)
T ss_dssp             --------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCC
T ss_pred             ccccccccchHHHHhhhhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccc
Confidence                       256677777731  10        1122233322221        00                      


Q ss_pred             ----------------cchhhcccccccCCCceEEEeCCCCHHHHHHHHHHH-------Hhh-hc----cCCCChhHHHH
Q 010136          284 ----------------LADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQER-------LME-LS----YIVFQPQALEL  335 (517)
Q Consensus       284 ----------------~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~r-------l~~-~~----~~~~~~~ai~~  335 (517)
                                      ....+.|.+..| + +..+.|.|++.+++.+|+...       +.. +.    .-.|+++++++
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~f~PEf~gR-i-~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~  309 (364)
T d1um8a_         232 KKEQEAILHLVQTHDLVTYGLIPELIGR-L-PVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKE  309 (364)
T ss_dssp             TTTTTTSGGGCCHHHHHHTTCCHHHHTT-C-CEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHH
T ss_pred             hhhhhhhhccccHHHHhhhhhHHHHHHH-h-cchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHH
Confidence                            011245677777 4 568999999999999999631       111 10    13579999999


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHH
Q 010136          336 CARKVAAASGDMRKALSVCRSAI  358 (517)
Q Consensus       336 ia~~~~~~~Gd~R~al~ll~~A~  358 (517)
                      ||+......-.+|..-.++.+.+
T Consensus       310 la~~g~d~~~GAR~L~riie~~l  332 (364)
T d1um8a_         310 IAQLALERKTGARGLRAIIEDFC  332 (364)
T ss_dssp             HHHHHHHTTCTGGGHHHHHHHHH
T ss_pred             HHHhccCCCCCchHHHHHHHHHH
Confidence            99976554445665555555544

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.24  E-value=1.4e-11  Score=115.10  Aligned_cols=211  Identities=16%  Similarity=0.142  Sum_probs=134.7

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSK  204 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~  204 (517)
                      +++|....++.+.+.+.....  ....++|+|++|||||++|+.+.....       .....++.++|.... .......
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~--~~~pvlI~Ge~GtGK~~~A~~ih~~s~-------~~~~~~~~~~~~~~~-~~~~~~~   70 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISC--AECPVLITGESGVGKEVVARLIHKLSD-------RSKEPFVALNVASIP-RDIFEAE   70 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT--CCSCEEEECSTTSSHHHHHHHHHHHST-------TTTSCEEEEETTTSC-HHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhC--CCCCEEEECCCCcCHHHHHHHHHHhcC-------Ccccccccchhhhhh-hcccHHH
Confidence            368888889999999888654  455799999999999999999864321       122468899998873 3343333


Q ss_pred             HHHHhCCCCCCCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCC--------CCCCcEEEE
Q 010136          205 ILLKLQPRKKLNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTT--------FPFSRFILI  276 (517)
Q Consensus       205 i~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~--------~~~~~v~lI  276 (517)
                      ++..-.+........     ...+|.      ....-.|||||||.|....|..|..+++...        ....++-+|
T Consensus        71 lfg~~~~~~~~~~~~-----~~g~l~------~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI  139 (247)
T d1ny5a2          71 LFGYEKGAFTGAVSS-----KEGFFE------LADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRIL  139 (247)
T ss_dssp             HHCBCTTSSTTCCSC-----BCCHHH------HTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEE
T ss_pred             hcCcccCCcCCcccc-----cCCHHH------ccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEE
Confidence            332211111000000     011222      1112368999999998888888888775421        112345677


Q ss_pred             EEECCCCcch-----hhcccccccCCCceEEEeCCCC--HHHHHHHHHHHHhhh------ccCCCChhHHHHHHHHHHHH
Q 010136          277 GIANAIDLAD-----RFLPRLQSMNCKPLVVTFRAYS--KDQIIRILQERLMEL------SYIVFQPQALELCARKVAAA  343 (517)
Q Consensus       277 ~ian~~~~~~-----~l~~~l~sr~~~~~~i~f~p~~--~~e~~~IL~~rl~~~------~~~~~~~~ai~~ia~~~~~~  343 (517)
                      ++++. ++.+     .+.+.+..+ +....|.+||+.  .+++..++...+..+      ....|++++++.+.++  ..
T Consensus       140 ~~s~~-~l~~l~~~~~f~~~L~~~-l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~--~W  215 (247)
T d1ny5a2         140 AATNR-NIKELVKEGKFREDLYYR-LGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSY--PW  215 (247)
T ss_dssp             EEESS-CHHHHHHTTSSCHHHHHH-HTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHS--CC
T ss_pred             EecCC-CHHHHHHcCCCcHHHHhh-cCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhC--CC
Confidence            77764 2211     234455555 456689999995  578887777766422      2245899999998763  45


Q ss_pred             hCCHHHHHHHHHHHHHH
Q 010136          344 SGDMRKALSVCRSAIEI  360 (517)
Q Consensus       344 ~Gd~R~al~ll~~A~~~  360 (517)
                      .|++|...+++++|+..
T Consensus       216 PGNl~EL~~~l~~a~~~  232 (247)
T d1ny5a2         216 YGNVRELKNVIERAVLF  232 (247)
T ss_dssp             TTHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            79999988888888754

>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=99.07  E-value=3.5e-12  Score=125.50  Aligned_cols=55  Identities=16%  Similarity=0.056  Sum_probs=41.9

Q ss_pred             HHHHHHHhhccC-CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          136 VLEFCKKNLEEE-KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       136 l~~~L~~~l~~~-~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      +.+++...+.+. ..++++|+||||||||++++++++.++          ..++++|++...+.+.
T Consensus       140 i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~----------~~~i~in~s~~rs~~~  195 (362)
T d1svma_         140 VYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCG----------GKALNVNLPLDRLNFE  195 (362)
T ss_dssp             HHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHHC----------CEEECCSSCTTTHHHH
T ss_pred             HHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHcC----------CCEEEEECcchhhHHH
Confidence            345555544433 356899999999999999999999886          4799999988765543

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.01  E-value=2.7e-09  Score=107.32  Aligned_cols=63  Identities=16%  Similarity=0.270  Sum_probs=50.8

Q ss_pred             CCCCcHHHHHHHHHHHHHhhc----------cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          125 TIVCREDEQKKVLEFCKKNLE----------EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~----------~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .++|+++..+.|.-.+.+..+          .-.+.|+|+.||+|||||.+|+.+++.+.          ++|+.++|+.
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~----------VPFv~~daT~   84 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN----------APFIKVEATK   84 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTT----------CCEEEEEGGG
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhC----------CCEEEeecce
Confidence            479999999888887765431          11266999999999999999999998764          6799999998


Q ss_pred             CCC
Q 010136          195 LTN  197 (517)
Q Consensus       195 ~~s  197 (517)
                      ++.
T Consensus        85 fTe   87 (443)
T d1g41a_          85 FTE   87 (443)
T ss_dssp             GC-
T ss_pred             eee
Confidence            765

>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=98.97  E-value=1.6e-08  Score=95.73  Aligned_cols=203  Identities=13%  Similarity=0.037  Sum_probs=113.6

Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHH
Q 010136          124 STIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFS  203 (517)
Q Consensus       124 ~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~  203 (517)
                      ..++||+.++++|.+.|... .......+.|+|++|+|||++|+.+++....... ..+  -.+++++.....+...+..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~-~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~-~~f--~~~~Wv~vs~~~~~~~l~~   95 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEM-CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIG-INY--DSIVWLKDSGTAPKSTFDL   95 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHH-TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBT-TTB--SEEEEEECCCCSTTHHHHH
T ss_pred             CceeCcHHHHHHHHHHHHhc-cCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhh-hcC--ceEEEEEecCCCCHHHHHH
Confidence            36889999999999998763 2334567889999999999999999765221000 001  1467787766666555544


Q ss_pred             HHHH---HhCCCCCC---CCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          204 KILL---KLQPRKKL---NGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       204 ~i~~---~l~~~~~~---~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                      .+..   .+......   .........+...+-...  -..+.++||||+++..     ..+..+..    .+++  +|.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--L~~kr~LlVLDDv~~~-----~~~~~~~~----~~sr--ilv  162 (277)
T d2a5yb3          96 FTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNAL--IDRPNTLFVFDDVVQE-----ETIRWAQE----LRLR--CLV  162 (277)
T ss_dssp             HHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHH--TTSTTEEEEEEEECCH-----HHHHHHHH----TTCE--EEE
T ss_pred             HHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHH--hccCCeeEecchhhHH-----hhhhhhcc----cCce--EEE
Confidence            4433   33322111   111111222222221111  1445689999998753     23332221    1233  444


Q ss_pred             EECCCCcchhhcccccccCCCceEEEeCCCCHHHHHHHHHHHHhhhccCCCChhHHHHHHHHHHHHhCCHHHHHHHH
Q 010136          278 IANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQIIRILQERLMELSYIVFQPQALELCARKVAAASGDMRKALSVC  354 (517)
Q Consensus       278 ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~~~IL~~rl~~~~~~~~~~~ai~~ia~~~~~~~Gd~R~al~ll  354 (517)
                      +|...    .+...+... .  +.+.+.+++.++..+++..+...  ...  ++..+.+++.+....|....|+.++
T Consensus       163 TTR~~----~v~~~~~~~-~--~~~~l~~L~~~ea~~Lf~~~~~~--~~~--~~~~~~~~~~iv~~c~GlPLAl~~i  228 (277)
T d2a5yb3         163 TTRDV----EISNAASQT-C--EFIEVTSLEIDECYDFLEAYGMP--MPV--GEKEEDVLNKTIELSSGNPATLMMF  228 (277)
T ss_dssp             EESBG----GGGGGCCSC-E--EEEECCCCCHHHHHHHHHHTSCC--CC----CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             EeehH----HHHHhcCCC-C--ceEECCCCCHHHHHHHHHHHhCC--ccC--chhhHHHHHHHHHHhCCCHHHHHHH
Confidence            45532    222233222 2  57889999999999999754321  111  1223444555555667777888776

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.14  E-value=6.6e-06  Score=71.23  Aligned_cols=72  Identities=10%  Similarity=0.126  Sum_probs=39.9

Q ss_pred             CCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEECCCCcchhhcccccccCCCceEEEeCCCCHHHH
Q 010136          237 VMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIANAIDLADRFLPRLQSMNCKPLVVTFRAYSKDQI  312 (517)
Q Consensus       237 ~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ian~~~~~~~l~~~l~sr~~~~~~i~f~p~~~~e~  312 (517)
                      ...+.+|++||++............+.+....  ....+|+++...... .+..++..+ .....+.....+.+.+
T Consensus        97 ~~~~~vlllDE~~~~~~~~~~~~~~l~~~l~~--~~~~il~~~h~~~~~-~~~~~i~~~-~~~~i~~v~~~nrd~~  168 (178)
T d1ye8a1          97 KDRRKVIIIDEIGKMELFSKKFRDLVRQIMHD--PNVNVVATIPIRDVH-PLVKEIRRL-PGAVLIELTPENRDVI  168 (178)
T ss_dssp             HCTTCEEEECCCSTTGGGCHHHHHHHHHHHTC--TTSEEEEECCSSCCS-HHHHHHHTC-TTCEEEECCTTTTTTH
T ss_pred             hcCCCceeecCCCccchhhHHHHHHHHHHhcc--CCCEEEEEEccHHHH-HhhceEEEE-eCCEEEEECCccHHHH
Confidence            45678999999977655544443333333221  234455556554332 344555555 4556777776665543

>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=98.09  E-value=7.5e-07  Score=83.15  Aligned_cols=38  Identities=21%  Similarity=0.308  Sum_probs=31.3

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      ..+.+++|+||||||||+++++++.++.          ..++.+|+..
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~----------~~~~~i~~d~   67 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQ----------GNVIVIDNDT   67 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTT----------TCCEEECTHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh----------cceEEEecHH
Confidence            3466799999999999999999998874          3578888744

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=97.80  E-value=2.6e-05  Score=75.50  Aligned_cols=120  Identities=15%  Similarity=0.188  Sum_probs=58.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHH---hCCCCCC----CCCCC-
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLK---LQPRKKL----NGSTS-  220 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~---l~~~~~~----~~~~~-  220 (517)
                      .+..+|+|+||||||+++..++..+.......+.    -+.+-+........+-..+...   +......    ..... 
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~----~I~l~ApTgkAA~~L~e~~~~~~~~~~~~~~~~~~~~~~~~t  238 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERC----RIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEDAST  238 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCC----CEEEEBSSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBT
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCC----eEEEecCcHHHHHHHHHHHHHHHhhcCchhhhhhhhhhhhhH
Confidence            4689999999999999998887777643222221    2444444432222322222211   1110000    00000 


Q ss_pred             -----HHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEE
Q 010136          221 -----PLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIG  277 (517)
Q Consensus       221 -----~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~  277 (517)
                           ....-...|.. .........+|||||+-.+.   ...++.++.... .+.+++++|
T Consensus       239 ~~~ll~~~~~~~~~~~-~~~~~l~~d~lIIDEaSmv~---~~l~~~ll~~~~-~~~~lILvG  295 (359)
T d1w36d1         239 LHRLLGAQPGSQRLRH-HAGNPLHLDVLVVDEASMID---LPMMSRLIDALP-DHARVIFLG  295 (359)
T ss_dssp             TTSCC------------CTTSCCSCSEEEECSGGGCB---HHHHHHHHHTCC-TTCEEEEEE
T ss_pred             HHHHHhhhhcchHHHH-hhhcccccceeeehhhhccC---HHHHHHHHHHhc-CCCEEEEEC
Confidence                 00001111211 11122334699999998874   355666766532 456888887

>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=97.50  E-value=3e-05  Score=66.98  Aligned_cols=26  Identities=27%  Similarity=0.528  Sum_probs=24.1

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+++|+||||||||++++.++..+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            58999999999999999999998865

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.37  E-value=3.8e-05  Score=64.85  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=22.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+|+|.||||+||||+++.+++.|+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999998874

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.33  E-value=8.5e-05  Score=61.12  Aligned_cols=115  Identities=12%  Similarity=-0.013  Sum_probs=57.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCC---------
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGST---------  219 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~---------  219 (517)
                      -...+|.+|.|+|||+++-.++..       .+.   .+++ -+....-..+....+.+.+..........         
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~~-------~~~---~vli-~~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYAA-------QGY---KVLV-LNPSVAATLGFGAYMSKAHGVDPNIRTGVRTITTGSPI   76 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHHT-------TTC---CEEE-EESCHHHHHHHHHHHHHHHSCCCEEECSSCEECCCCSE
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHH-------cCC---cEEE-EcChHHHHHHHHHHHHHHhhccccccccccccccccce
Confidence            457899999999999877544322       121   3343 34433334455555555553322110000         


Q ss_pred             --CHHHHHHHHHHhhhccCCCceEEEEEeCcchhcccCchHHHHHhccCCCCCCcEEEEEEE
Q 010136          220 --SPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITRDRAVLHDLFMLTTFPFSRFILIGIA  279 (517)
Q Consensus       220 --~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~~~L~~l~~~~~~~~~~v~lI~ia  279 (517)
                        .....+.....    ......-+|||||+|.+.......+..+++..... .+..+|+.|
T Consensus        77 ~~~~~~~~~~~~~----~~~~~~~~vIiDE~H~~~~~~~~~~~~~l~~~~~~-~~~~~l~~T  133 (136)
T d1a1va1          77 TYSTYGKFLADGG----CSGGAYDIIICDECHSTDATSILGIGTVLDQAETA-GARLVVLAT  133 (136)
T ss_dssp             EEEEHHHHHHTTG----GGGCCCSEEEEETTTCCSHHHHHHHHHHHHHTTTT-TCSEEEEEE
T ss_pred             EEEeeeeeccccc----hhhhcCCEEEEecccccCHHHHHHHHHHHHHHHHC-CCCcEEEEe
Confidence              01111111111    11234468999999988554444555566544332 344444444

>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=97.31  E-value=5.7e-05  Score=64.48  Aligned_cols=25  Identities=20%  Similarity=0.327  Sum_probs=22.5

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +.++|+|+||+||||+++.+++.++
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            5789999999999999999988764

>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=97.30  E-value=6.8e-05  Score=64.37  Aligned_cols=28  Identities=18%  Similarity=0.275  Sum_probs=25.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+-.|+|+|+||+||||+++.+++.|..
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4567899999999999999999999875

>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=97.30  E-value=4.2e-05  Score=66.10  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=23.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...|+|.|+|||||||+++.+++.++
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            56899999999999999999988753

>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=97.20  E-value=8.4e-05  Score=63.55  Aligned_cols=28  Identities=32%  Similarity=0.449  Sum_probs=24.0

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +.+-+|+|+|+||+||||+++.+++.+.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            3456799999999999999999988753

>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=97.15  E-value=6.8e-05  Score=64.23  Aligned_cols=35  Identities=23%  Similarity=0.303  Sum_probs=27.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINC  192 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~  192 (517)
                      .+..++|.|+||+||||+++.+++.++          ..+++++.
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~lg----------~~~~~~~~   37 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLPG----------VPKVHFHS   37 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCSS----------SCEEEECT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC----------CCEEEecH
Confidence            355788999999999999999877643          35777765

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.13  E-value=0.00058  Score=60.18  Aligned_cols=97  Identities=19%  Similarity=0.195  Sum_probs=57.6

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-HHHHHHHHHHHhCCCCCC-CCCCCHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN-TSEIFSKILLKLQPRKKL-NGSTSPLQY  224 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s-~~~i~~~i~~~l~~~~~~-~~~~~~~~~  224 (517)
                      +.+..++|+||+|+||||++-.++..+..    .|.   ++..|++-.++. ..+-++...+.++-.... ..+..+...
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~----~g~---kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~   76 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQN----LGK---KVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAAL   76 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHT----TTC---CEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHH----CCC---cEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHH
Confidence            35678899999999999999999876542    232   466777766543 334455566666554322 223334444


Q ss_pred             HHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          225 LQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       225 l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      +.+.....   .....-+|+||=+-....
T Consensus        77 ~~~~~~~~---~~~~~d~ilIDTaGr~~~  102 (207)
T d1okkd2          77 AYDAVQAM---KARGYDLLFVDTAGRLHT  102 (207)
T ss_dssp             HHHHHHHH---HHHTCSEEEECCCCCCTT
T ss_pred             HHHHHHHH---HHCCCCEEEcCccccchh
Confidence            44333211   112235889997766543

>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=97.13  E-value=0.00011  Score=64.03  Aligned_cols=27  Identities=26%  Similarity=0.507  Sum_probs=24.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +..|+|+|+||+||||+++.+++.+..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            457889999999999999999998874

>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=97.12  E-value=0.00012  Score=64.18  Aligned_cols=27  Identities=26%  Similarity=0.527  Sum_probs=23.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+..++|.||||+||||+++.+++.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456789999999999999999998875

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.11  E-value=0.00053  Score=60.52  Aligned_cols=156  Identities=10%  Similarity=0.056  Sum_probs=80.1

Q ss_pred             cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH-HHHHHHHHHHhCCCCCC-CCCCCHHH
Q 010136          146 EEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT-SEIFSKILLKLQPRKKL-NGSTSPLQ  223 (517)
Q Consensus       146 ~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~~-~~~~~~~~  223 (517)
                      +..+..++|+||+|+||||++-.++..+..    .+   ..+.-|++-.++.. .+-+....+.++..... ..+.....
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~----~g---~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~   78 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQ----QG---KSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSAS   78 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHT----TT---CCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHH----CC---CcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHH
Confidence            344667889999999999999999877642    23   24677777665432 22334445555544322 22334455


Q ss_pred             HHHHHHHhhhccCCCceEEEEEeCcchhcccCc--hHHHHHhccCC----CCCCcEEEEEEECC-CCcchhhcccccccC
Q 010136          224 YLQNLYSQKLHSSVMKMMLIIADELDYLITRDR--AVLHDLFMLTT----FPFSRFILIGIANA-IDLADRFLPRLQSMN  296 (517)
Q Consensus       224 ~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~--~~L~~l~~~~~----~~~~~v~lI~ian~-~~~~~~l~~~l~sr~  296 (517)
                      .+.+.....   .....-+|+||=+-......+  +.|..+.+...    .....+.++.-++. .+-..........  
T Consensus        79 ~l~~~~~~a---~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~--  153 (211)
T d2qy9a2          79 VIFDAIQAA---KARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEA--  153 (211)
T ss_dssp             HHHHHHHHH---HHTTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHH---HHcCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhc--
Confidence            555554421   122345899998766543221  23333333211    12234444443331 1111111111111  


Q ss_pred             CCceEEEeCCCCHHHHH
Q 010136          297 CKPLVVTFRAYSKDQII  313 (517)
Q Consensus       297 ~~~~~i~f~p~~~~e~~  313 (517)
                      .....+.|..+|.....
T Consensus       154 ~~~~~lIlTKlDe~~~~  170 (211)
T d2qy9a2         154 VGLTGITLTKLDGTAKG  170 (211)
T ss_dssp             SCCCEEEEECCTTCTTT
T ss_pred             cCCceEEEeecCCCCCc
Confidence            35577888888775543

>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=97.09  E-value=0.00014  Score=62.48  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=21.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..+..++++|+||+||||+++.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45678999999999999999987543

>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=97.08  E-value=0.0001  Score=62.69  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++|+||||+||||+++.+++.+.
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999988753

>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=97.05  E-value=0.00018  Score=61.04  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +++|.|+||+||||+++.+++.++
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhC
Confidence            688999999999999999999884

>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=97.02  E-value=0.00018  Score=61.23  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=22.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|+|+||+||||+++.+++.++
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45677899999999999999998874

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.96  E-value=0.00019  Score=61.20  Aligned_cols=26  Identities=23%  Similarity=0.216  Sum_probs=23.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ...|+|+|+||+||||+++.+++.++
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46789999999999999999998864

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.95  E-value=0.0002  Score=59.67  Aligned_cols=22  Identities=32%  Similarity=0.566  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .|+|+|+||+||||+++.+++.
T Consensus         4 lIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5789999999999999987654

>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=96.95  E-value=0.00026  Score=59.98  Aligned_cols=26  Identities=27%  Similarity=0.298  Sum_probs=23.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +.+.|+|++|+||||+++.+++.+..
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~~   28 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALCA   28 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            57889999999999999999998764

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.93  E-value=0.00021  Score=60.82  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +.++|.|+||+||||+++.+++.++
T Consensus         2 p~IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhC
Confidence            4577779999999999999998874

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.91  E-value=0.00023  Score=60.85  Aligned_cols=25  Identities=16%  Similarity=0.329  Sum_probs=22.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..++|.|+||+||||+++.+++.|+
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688899999999999999998885

>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=96.90  E-value=0.0012  Score=58.17  Aligned_cols=158  Identities=13%  Similarity=0.038  Sum_probs=74.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH-HHHHHHHHHhCCCCCC-CCCCCHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS-EIFSKILLKLQPRKKL-NGSTSPLQYL  225 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~~~-~~~~~~~~~l  225 (517)
                      .+..++|+||+|+||||++-.++..+..    .+.   ++..|++-.++... +-+....+.++..... .........+
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~----~g~---kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~   83 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKK----KGF---KVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIA   83 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHH----TTC---CEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH----CCC---ceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHH
Confidence            4667889999999999999999876643    232   45666665554322 2334445555544322 1223333333


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcccCc----hHHHHHhccCCCCCCcEEEEEEECC-CCcchhhcccccccCCCce
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLITRDR----AVLHDLFMLTTFPFSRFILIGIANA-IDLADRFLPRLQSMNCKPL  300 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~~----~~L~~l~~~~~~~~~~v~lI~ian~-~~~~~~l~~~l~sr~~~~~  300 (517)
                      .+.+...   .....-+|+||=+-.......    +.|..+.+...  ...+.++.-++. .+-.+.+......  +...
T Consensus        84 ~~a~~~~---~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~--~~~~~LVl~a~~~~~~~~~~~~~~~~--~~~~  156 (211)
T d1j8yf2          84 KRGVEKF---LSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIK--PDEVTLVIDASIGQKAYDLASKFNQA--SKIG  156 (211)
T ss_dssp             HHHHHHH---HHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHC--CSEEEEEEEGGGGGGHHHHHHHHHHH--CTTE
T ss_pred             HHHHHHh---hccCCceEEEecCCcCccchhhHHHHHHHHHHhhcC--CceEEEEEecccCcchHHHHhhhhcc--cCcc
Confidence            3322210   122345889996654322211    22333333322  223444443332 1112222222222  4557


Q ss_pred             EEEeCCCCHHHHHHHHHHH
Q 010136          301 VVTFRAYSKDQIIRILQER  319 (517)
Q Consensus       301 ~i~f~p~~~~e~~~IL~~r  319 (517)
                      .+.|..+|.....--+-..
T Consensus       157 ~lI~TKlDet~~~G~~l~~  175 (211)
T d1j8yf2         157 TIIITKMDGTAKGGGALSA  175 (211)
T ss_dssp             EEEEECTTSCSCHHHHHHH
T ss_pred             eEEEecccCCCcccHHHHH
Confidence            7889888876655444333

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.90  E-value=0.0012  Score=59.41  Aligned_cols=94  Identities=18%  Similarity=0.181  Sum_probs=52.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCC---------C----
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRK---------K----  214 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~---------~----  214 (517)
                      .+..++|+|+||+|||+++..++.....    .+   ..++|++...  +...++... ..++...         .    
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~----~~---~~~~~is~e~--~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   94 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACA----NK---ERAILFAYEE--SRAQLLRNA-YSWGMDFEEMERQNLLKIVCA   94 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHT----TT---CCEEEEESSS--CHHHHHHHH-HTTSCCHHHHHHTTSEEECCC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH----hc---cccceeeccC--CHHHHHHHH-HHcCCChHHHhhcCceEEEEe
Confidence            3557999999999999999999887542    22   2467777643  344443332 2221100         0    


Q ss_pred             CCCCCCHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          215 LNGSTSPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       215 ~~~~~~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                      ........+.+..+.. ..  ...++.+++||-++.+...
T Consensus        95 ~~~~~~~~~~~~~i~~-~i--~~~~~~~vviDs~~~~~~~  131 (242)
T d1tf7a2          95 YPESAGLEDHLQIIKS-EI--NDFKPARIAIDSLSALARG  131 (242)
T ss_dssp             CGGGSCHHHHHHHHHH-HH--HTTCCSEEEEECHHHHTSS
T ss_pred             ecchhhHHHHHHHHHH-HH--HhcCCceeeeecchhhhcC
Confidence            0001122222333222 11  2445678999999988754

>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=96.88  E-value=0.00083  Score=59.39  Aligned_cols=95  Identities=19%  Similarity=0.202  Sum_probs=50.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH-HHHHHHHHHhCCCCCCCC-CCCHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS-EIFSKILLKLQPRKKLNG-STSPLQY  224 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~-~i~~~i~~~l~~~~~~~~-~~~~~~~  224 (517)
                      ..+..++|+||+|+||||++-.++..+..    .+.   ++.-+++-.++-.. +-+...++.++....... +......
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~----~~~---kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~   81 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVD----EGK---SVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAV   81 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHH----TTC---CEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHH----CCC---ceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHH
Confidence            34567889999999999999999877643    232   35555555544322 223444455544332211 2232332


Q ss_pred             HHHHHHhhhccCCCceEEEEEeCcchh
Q 010136          225 LQNLYSQKLHSSVMKMMLIIADELDYL  251 (517)
Q Consensus       225 l~~~~~~~~~~~~~~~~vI~iDEiD~L  251 (517)
                      +.......   .....-+|+||=+-..
T Consensus        82 ~~~~~~~~---~~~~~d~ilIDTaGr~  105 (213)
T d1vmaa2          82 AFDAVAHA---LARNKDVVIIDTAGRL  105 (213)
T ss_dssp             HHHHHHHH---HHTTCSEEEEEECCCC
T ss_pred             HHHHHHHH---HHcCCCEEEEeccccc
Confidence            22222110   1123358899976544

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.87  E-value=0.00095  Score=58.80  Aligned_cols=95  Identities=16%  Similarity=0.163  Sum_probs=52.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH-HHHHHHHHHHhCCCCCCCC-CCCHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT-SEIFSKILLKLQPRKKLNG-STSPLQYLQ  226 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~-~~i~~~i~~~l~~~~~~~~-~~~~~~~l~  226 (517)
                      .+.++|.||+|+||||++-.++..+..    .+   .++.-+++-.++.. .+-+....+.++....... ...+.....
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~~~----~g---~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~   82 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYYKG----KG---RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRR   82 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHH----TT---CCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH----CC---CcEEEEecccccchHHHHHHHHHHhcCCccccccccchhhHHHH
Confidence            456788999999999999999887753    23   24667777665432 2334445555554432222 222222221


Q ss_pred             HHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          227 NLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       227 ~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .....   ......-+|+||=+-....
T Consensus        83 ~~~~~---~~~~~~d~vlIDTaGr~~~  106 (207)
T d1ls1a2          83 RVEEK---ARLEARDLILVDTAGRLQI  106 (207)
T ss_dssp             HHHHH---HHHHTCCEEEEECCCCSSC
T ss_pred             HHHHH---HhhccCcceeecccccchh
Confidence            11110   0112234788887766543

>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=96.86  E-value=0.00053  Score=55.80  Aligned_cols=20  Identities=25%  Similarity=0.233  Sum_probs=17.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~  167 (517)
                      .+.+.+|++|+|+|||..+-
T Consensus         6 ~~~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           6 KGMTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             TTCEEEECCCTTSSTTTTHH
T ss_pred             cCCcEEEEcCCCCChhHHHH
Confidence            46789999999999997764

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.83  E-value=0.0003  Score=61.19  Aligned_cols=25  Identities=20%  Similarity=0.393  Sum_probs=22.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      |-.++|.||||+||||+++.+++.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5579999999999999999998776

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.81  E-value=0.0003  Score=61.34  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=22.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      |..|+|.||||+||||.++.+++.+
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999998876

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.79  E-value=0.00044  Score=60.09  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=22.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +-.++|.||||+||||+++.+++.++
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34677899999999999999988763

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.78  E-value=0.00024  Score=62.16  Aligned_cols=26  Identities=31%  Similarity=0.556  Sum_probs=22.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+.++|.||||+||||+++.+++.+
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999998765

>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=96.73  E-value=0.00053  Score=60.70  Aligned_cols=44  Identities=18%  Similarity=0.342  Sum_probs=33.1

Q ss_pred             hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCC
Q 010136          144 LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCT  193 (517)
Q Consensus       144 l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~  193 (517)
                      ..+..+..++|+|.||+||||+++.+.+.+....   +   ..++.+++-
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l~~~~---~---~~~~~ldgD   62 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQLVRDR---R---VHAYRLDGD   62 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHHHHHH---C---CCEEEECHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHHHHhc---C---ceEEEEcch
Confidence            4455677899999999999999999998886432   1   246666653

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.73  E-value=0.00041  Score=59.70  Aligned_cols=23  Identities=35%  Similarity=0.557  Sum_probs=21.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .|+|.||||+||||+++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48899999999999999998876

>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=96.72  E-value=0.00037  Score=60.07  Aligned_cols=24  Identities=29%  Similarity=0.425  Sum_probs=21.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +++|.||||+||||+++.+++.++
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578999999999999999988763

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.69  E-value=0.00052  Score=58.88  Aligned_cols=26  Identities=27%  Similarity=0.388  Sum_probs=23.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..|+|.|+||+||||+++.+++.|..
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            56899999999999999999988764

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.68  E-value=0.00098  Score=57.70  Aligned_cols=42  Identities=12%  Similarity=0.076  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          133 QKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       133 ~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ++.|...+.. ++...+-.|-|.|++|+||||+++.+...+..
T Consensus         7 ~~~~~~~~~~-~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_           7 IDFLCKTILA-IKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             HHHHHHHHHT-SCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh-ccCCCCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3344444422 33333334669999999999999999888765

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.67  E-value=0.00062  Score=60.47  Aligned_cols=26  Identities=23%  Similarity=0.264  Sum_probs=23.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++.|.|.||||+||||+++.+++.++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46788999999999999999998874

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.51  E-value=0.00061  Score=59.45  Aligned_cols=26  Identities=35%  Similarity=0.625  Sum_probs=23.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..++|.||||+||||+++.+++.+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998764

>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=96.49  E-value=0.00072  Score=58.23  Aligned_cols=24  Identities=21%  Similarity=0.470  Sum_probs=21.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .|+|.||||+||||+++.+++.++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            478999999999999999998763

>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=96.45  E-value=0.0008  Score=59.12  Aligned_cols=27  Identities=26%  Similarity=0.413  Sum_probs=23.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      |..++++|.||+||||+++++++.+..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            345889999999999999999988763

>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=96.42  E-value=0.0077  Score=54.94  Aligned_cols=91  Identities=11%  Similarity=0.040  Sum_probs=57.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTSPLQY  224 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~~~~~  224 (517)
                      .+....|+|++|||||+++..++.....    .|   ..++|++...-.++.     .++.++.....   ......++ 
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk----~g---~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~-  122 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQK----AG---GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQ-  122 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH----TT---CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHH-
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHh----CC---CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHH-
Confidence            3456889999999999999998877653    22   358999988766664     35556443211   01122222 


Q ss_pred             HHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          225 LQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       225 l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ..+++...  .......+||||-+..|.+
T Consensus       123 ~~~~~~~l--~~~~~~~liIiDSi~al~~  149 (268)
T d1xp8a1         123 ALEIMELL--VRSGAIDVVVVDSVAALTP  149 (268)
T ss_dssp             HHHHHHHH--HTTTCCSEEEEECTTTCCC
T ss_pred             HHHHHHHH--HhcCCCcEEEEeccccccc
Confidence            22333321  1244567999999988874

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.39  E-value=0.0011  Score=57.67  Aligned_cols=25  Identities=20%  Similarity=0.384  Sum_probs=21.7

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .-.++|.||||+||||+++.+++.+
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            4468899999999999999998764

>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=96.35  E-value=0.00095  Score=57.39  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.||||+||||+++.+++.+
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47788999999999999998875

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.34  E-value=0.006  Score=53.47  Aligned_cols=44  Identities=16%  Similarity=0.120  Sum_probs=31.0

Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          123 PSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       123 p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..+.-|+-|.+.+..++    .   .+..+|.+|+|+|||.++-.++..+
T Consensus        66 ~~~~~Lr~yQ~eav~~~~----~---~~~~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          66 DAEISLRDYQEKALERWL----V---DKRGCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             CCCCCCCHHHHHHHHHHT----T---TSEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CCCCCcCHHHHHHHHHHH----h---CCCcEEEeCCCCCceehHHhHHHHh
Confidence            345667777776665543    2   2456788999999999987776554

>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=96.31  E-value=0.00099  Score=57.13  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.||||+||||.++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998775

>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=96.30  E-value=0.0065  Score=55.44  Aligned_cols=90  Identities=11%  Similarity=0.059  Sum_probs=56.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTSPLQYL  225 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~~~~~l  225 (517)
                      +....|+|+||+|||+++..++.....    .+   ..++||+...-.++..     +++++.....   ..... .+.+
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~~q~----~g---~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~-~E~~  126 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVANAQA----AG---GVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDT-GEQA  126 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHHHHH----TT---CEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSS-HHHH
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHHHhc----CC---CEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCC-HHHH
Confidence            556889999999999999888766543    22   3689999988766654     3444432211   01122 2333


Q ss_pred             HHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          226 QNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       226 ~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .+.++..  .......+||||-+..+..
T Consensus       127 ~~~~~~l--~~~~~~~liIiDSi~al~~  152 (269)
T d1mo6a1         127 LEIADML--IRSGALDIVVIDSVAALVP  152 (269)
T ss_dssp             HHHHHHH--HHTTCEEEEEEECSTTCCC
T ss_pred             HHHHHHH--HhcCCCCEEEEeccccccc
Confidence            3333321  1245678999999988874

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.17  E-value=0.0013  Score=56.46  Aligned_cols=25  Identities=40%  Similarity=0.525  Sum_probs=22.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .++|.|+||+||||+++.+++.|..
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5789999999999999999988864

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.10  E-value=0.0093  Score=51.84  Aligned_cols=19  Identities=26%  Similarity=0.305  Sum_probs=16.5

Q ss_pred             CCeEEEEcCCCCcHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~  167 (517)
                      +.++++.+|+|+|||+++-
T Consensus        40 ~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             CSCEEEECSSHHHHHHHHH
T ss_pred             CCCEEEEcCCCCchhHHHH
Confidence            4689999999999998863

>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=96.10  E-value=0.0017  Score=57.64  Aligned_cols=40  Identities=13%  Similarity=0.179  Sum_probs=29.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLK  208 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~  208 (517)
                      .|.|.||||+||||+++.+++.++            +.+++      ...+|+.++..
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg------------~~~is------tGdl~R~~a~~   44 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFG------------FTYLD------TGAMYRAATYM   44 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHC------------CEEEE------HHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC------------CcEEC------HHHHHHHHHHH
Confidence            356789999999999999998874            45555      45666665544

>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=96.09  E-value=0.0028  Score=52.78  Aligned_cols=46  Identities=22%  Similarity=0.120  Sum_probs=35.0

Q ss_pred             cHHHHHHHHHHHHHhhcc---CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEE---EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~---~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      -+++..++...|...+..   ..+..++|.|+=|+|||++++.+++.++
T Consensus        10 ~e~~t~~lg~~la~~l~~~~~~~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          10 DEFSMLRFGKKFAEILLKLHTEKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             SHHHHHHHHHHHHHHHHHHCCSSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            455666777777776632   2344688999999999999999998875

>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=96.05  E-value=0.0037  Score=54.30  Aligned_cols=24  Identities=21%  Similarity=0.246  Sum_probs=18.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+.++++|.|+|||.++-.++...
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~   47 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYR   47 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHH
Confidence            468899999999998776665443

>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=96.02  E-value=0.007  Score=55.11  Aligned_cols=91  Identities=12%  Similarity=0.016  Sum_probs=54.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC---CCCCCHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL---NGSTSPLQY  224 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~---~~~~~~~~~  224 (517)
                      .+....|+||||+|||+++..++......    +   -.++|++...-.++..     ++.++.....   ..... .+.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~----g---~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~-~E~  119 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQRE----G---KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDT-GEQ  119 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSS-HHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcC----C---CEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCC-HHH
Confidence            35578899999999999999988776542    2   2589999887666543     3455432111   01112 222


Q ss_pred             HHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          225 LQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       225 l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ..+.+....  ......+||||-+..+.+
T Consensus       120 ~~~~i~~l~--~~~~~~liViDSi~al~~  146 (263)
T d1u94a1         120 ALEICDALA--RSGAVDVIVVDSVAALTP  146 (263)
T ss_dssp             HHHHHHHHH--HHTCCSEEEEECGGGCCC
T ss_pred             HHHHHHHHH--hcCCCCEEEEECcccccc
Confidence            222222111  133456889999987753

>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=95.95  E-value=0.012  Score=53.70  Aligned_cols=39  Identities=18%  Similarity=0.210  Sum_probs=29.5

Q ss_pred             HHHHHHHhhcc--CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEE--EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       136 l~~~L~~~l~~--~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+|..++.+  +....++|+|||+||||+++..+...++
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg  129 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP  129 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            44456666643  3456899999999999999999987764

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.94  E-value=0.0045  Score=55.65  Aligned_cols=52  Identities=21%  Similarity=0.179  Sum_probs=35.6

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEI  201 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i  201 (517)
                      +..++|+|+||+|||+++..++..........+.. ..++++.+........+
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLN-GSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCS-CEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCC-ceEEEEeccchhHHHHH
Confidence            44688999999999999999887654222222222 36788888776665443

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.88  E-value=0.016  Score=52.65  Aligned_cols=47  Identities=13%  Similarity=0.045  Sum_probs=31.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhc---CCCCceEEEEeCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEA---GLQQPEVFSINCTSL  195 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~---~~~~~~~v~vn~~~~  195 (517)
                      +...+|+|+||+|||+++..++..+.....-.   ......++|+++...
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~   78 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP   78 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccch
Confidence            45788999999999999999887654211000   011236888887653

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.87  E-value=0.0034  Score=54.26  Aligned_cols=40  Identities=30%  Similarity=0.360  Sum_probs=30.3

Q ss_pred             HHHHHHHHhhccC-CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          135 KVLEFCKKNLEEE-KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       135 ~l~~~L~~~l~~~-~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .....|...+++. ..++++|+|||+||||+++.++++-+.
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            3455556656543 356899999999999999999988764

>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=95.87  E-value=0.003  Score=53.17  Aligned_cols=25  Identities=32%  Similarity=0.260  Sum_probs=22.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .+-|+|.+|+||||++..++..|..
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~   27 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVR   27 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            4669999999999999999999875

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.78  E-value=0.0027  Score=55.02  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=21.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .|+|+||+|+|||++++.+++.+.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            488999999999999999988764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.73  E-value=0.0029  Score=54.58  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=21.7

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..|+|+||+|+|||++++.+++++.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            3589999999999999999987754

>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=95.71  E-value=0.039  Score=50.43  Aligned_cols=93  Identities=15%  Similarity=0.145  Sum_probs=48.9

Q ss_pred             HHHHHHHHHhhccCCC-C-eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCC
Q 010136          134 KKVLEFCKKNLEEEKA-G-SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQP  211 (517)
Q Consensus       134 ~~l~~~L~~~l~~~~~-~-~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~  211 (517)
                      +.+..++......... + .|-|.|++|+||||++..+...|.......    ..++.++--.+.-...-...+.+....
T Consensus        10 ~~~~~~~~~~~~~~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~----~~v~~iS~DdfY~t~~~r~~L~~~~~~   85 (286)
T d1odfa_          10 EFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGE----KSIGYASIDDFYLTHEDQLKLNEQFKN   85 (286)
T ss_dssp             HHHHHHHHHHHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGG----SCEEEEEGGGGBCCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhcCCCCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCC----cceEeeccCCCCCCHHHHHHHhhhccc
Confidence            3444445554443332 2 455899999999999999998886643211    134444433332222223345555422


Q ss_pred             CC----CCCCCCCHHHHHHHHHH
Q 010136          212 RK----KLNGSTSPLQYLQNLYS  230 (517)
Q Consensus       212 ~~----~~~~~~~~~~~l~~~~~  230 (517)
                      ..    .+..|......+.+.+.
T Consensus        86 ~pl~~~RG~PgThD~~ll~~~l~  108 (286)
T d1odfa_          86 NKLLQGRGLPGTHDMKLLQEVLN  108 (286)
T ss_dssp             CGGGSSSCSTTSBCHHHHHHHHH
T ss_pred             cccceecCCCcchhHHHHHHHHH
Confidence            21    11223333566666665

>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=95.62  E-value=0.0035  Score=53.77  Aligned_cols=25  Identities=16%  Similarity=0.256  Sum_probs=21.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|+||+|+||||+++.+.+..
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            4568899999999999999987664

>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=95.54  E-value=0.0024  Score=60.22  Aligned_cols=37  Identities=19%  Similarity=0.488  Sum_probs=28.7

Q ss_pred             HHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          136 VLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       136 l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..+|..++.  ...+++|+|++|+||||++++++..+.
T Consensus       155 ~~~~l~~~v~--~~~nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         155 AISAIKDGIA--IGKNVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             HHHHHHHHHH--HTCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHH--hCCCEEEEeeccccchHHHHHHhhhcc
Confidence            4455555554  346799999999999999999987654

>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=95.36  E-value=0.02  Score=51.08  Aligned_cols=49  Identities=12%  Similarity=-0.029  Sum_probs=32.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNT  198 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~  198 (517)
                      +..++|+|+||+|||+++..++........ .+.....++++........
T Consensus        37 G~~~~i~G~~GsGKT~lalq~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   85 (258)
T d1v5wa_          37 MAITEAFGEFRTGKTQLSHTLCVTAQLPGA-GGYPGGKIIFIDTENTFRP   85 (258)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBT-TTBCCCEEEEEESSSCCCH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhhhh-cccccceEEEechHHHHHH
Confidence            347889999999999999999865432111 1122245777777665443

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=95.31  E-value=0.021  Score=53.54  Aligned_cols=49  Identities=29%  Similarity=0.365  Sum_probs=31.4

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      +....|-|+|+||+||||++..++..+...    |. .+.++.++..+-.+...
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~~~----g~-~vavlavDpss~~~gga  100 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLIRE----GL-KVAVIAVDPSSPVTGGS  100 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHT----TC-CEEEEEECCC-------
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHHhc----CC-ceeeecCCCceeeeccc
Confidence            446678899999999999999998876542    32 25566676655444333

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.28  E-value=0.012  Score=51.09  Aligned_cols=51  Identities=12%  Similarity=-0.014  Sum_probs=32.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTS  199 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~  199 (517)
                      .+..++|+|+||+|||+++..++..........+. .....++.........
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGG-EGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCC-SSEEEEEESSSCCCHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccc-cceehhhhhhhhhHHH
Confidence            35578899999999999999987655432221121 2345666665544433

>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=95.17  E-value=0.0053  Score=57.45  Aligned_cols=33  Identities=12%  Similarity=0.085  Sum_probs=22.1

Q ss_pred             HHHHHHHhccChhHHHhccCCHHHHHHHHHHHH
Q 010136          402 MAVALSNTFKSPVVDTIKSLPQHQQILLCSAVK  434 (517)
Q Consensus       402 v~~a~~~~~~~~~~~~i~~L~~~~k~iL~al~~  434 (517)
                      +.......+...+.+-.++++..+..++..+..
T Consensus       209 ~~~~~~~~~~~i~iDE~QD~s~~q~~~~~~l~~  241 (318)
T d1pjra1         209 VLHYYQYKFQYIHIDEYQDTNRAQYTLVKKLAE  241 (318)
T ss_dssp             HHHHHHHHCSEEEESSGGGCCHHHHHHHHHHHT
T ss_pred             HHHHHhhccchhhhHHHHHHHHHHHHHHHHHHH
Confidence            344444445555667788999999888886643

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.16  E-value=0.006  Score=54.38  Aligned_cols=49  Identities=14%  Similarity=-0.015  Sum_probs=30.9

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTN  197 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s  197 (517)
                      .+..++|+|+||+|||+++..++....... ..+...-.++|++......
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~-~~~~~~~~~~~i~~~~~~~   81 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPL-DIGGGEGKCLYIDTEGTFR   81 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCT-TTTCCSCEEEEEESSSCCC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhh-hhccCCceEEEEeecchHH
Confidence            355799999999999999998864432100 0011113577887765544

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=95.08  E-value=0.016  Score=53.54  Aligned_cols=93  Identities=15%  Similarity=0.072  Sum_probs=48.7

Q ss_pred             CCCeEEEEcCCCCcHHHH-HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCCCCCC-------
Q 010136          148 KAGSLYVCGCPGTGKSLS-MEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKLNGST-------  219 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l-~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~~~~~-------  219 (517)
                      ...++++.+|+|+|||+. +-.++.....    .+   ..++++.-     ...+..++++.+.+........       
T Consensus         8 ~~~~~lv~~~TGsGKT~~~l~~~~~~~~~----~~---~~~lvi~P-----tr~La~q~~~~l~~~~~~~~~~~~~~~~~   75 (305)
T d2bmfa2           8 KKRLTIMDLHPGAGKTKRYLPAIVREAIK----RG---LRTLILAP-----TRVVAAEMEEALRGLPIRYQTPAIRAEHT   75 (305)
T ss_dssp             TTCEEEECCCTTSSTTTTHHHHHHHHHHH----HT---CCEEEEES-----SHHHHHHHHHHTTTSCCBCCC--------
T ss_pred             cCCcEEEEECCCCCHHHHHHHHHHHHHHh----cC---CEEEEEcc-----HHHHHHHHHHHHhcCCcceeeeEEeeccc
Confidence            467899999999999963 3333333222    12   24666643     2345556666664332111100       


Q ss_pred             -------CHHHHHHHHHHhhhccCCCceEEEEEeCcchhccc
Q 010136          220 -------SPLQYLQNLYSQKLHSSVMKMMLIIADELDYLITR  254 (517)
Q Consensus       220 -------~~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~  254 (517)
                             .....+...+..  .......-+|||||+|.+...
T Consensus        76 ~~~~i~~~t~~~l~~~~~~--~~~~~~~~~vViDE~H~~~~~  115 (305)
T d2bmfa2          76 GREIVDLMCHATFTMRLLS--PIRVPNYNLIIMDEAHFTDPA  115 (305)
T ss_dssp             CCCSEEEEEHHHHHHHHTS--SSCCCCCSEEEEESTTCCSHH
T ss_pred             CccccccCCcHHHHHHHhc--CccccceeEEEeeeeeecchh
Confidence                   012233333321  111234458999999988543

>d1jhfa1 a.4.5.2 (A:2-72) LexA repressor, N-terminal DNA-binding domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: LexA repressor, N-terminal DNA-binding domain
domain: LexA repressor, N-terminal DNA-binding domain
species: Escherichia coli [TaxId: 562]

Probab=95.07  E-value=0.045  Score=38.62  Aligned_cols=68  Identities=15%  Similarity=0.089  Sum_probs=51.6

Q ss_pred             ccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEee
Q 010136          419 KSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLK  496 (517)
Q Consensus       419 ~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~  496 (517)
                      +.|+..|+.||..|...........++.+|       |+.+++.  +.+.+..++..|+..|+|... .++.|-|.+.
T Consensus         1 ~~LT~rQ~~vL~~I~~~~~~~G~~Ps~rei-------~~~~g~~--S~stv~~~l~~Le~kG~I~r~-~~~~R~i~i~   68 (71)
T d1jhfa1           1 KALTARQQEVFDLIRDHISQTGMPPTRAEI-------AQRLGFR--SPNAAEEHLKALARKGVIEIV-SGASRGIRLL   68 (71)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHSSCCCHHHH-------HHHTTCS--SHHHHHHHHHHHHHTTSEEEC-SSSSSCEEEC
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCCCHHHH-------HHHcCCC--CHHHHHHHHHHHHHCcCeecC-CCCCceeEec
Confidence            368899999999888876653445677665       8888764  778899999999999999864 4455555554

>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=95.05  E-value=0.0072  Score=52.89  Aligned_cols=25  Identities=20%  Similarity=0.189  Sum_probs=21.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      +..++|+||+|+|||++.+.+++..
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            4568899999999999999987763

>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=94.93  E-value=0.017  Score=50.86  Aligned_cols=41  Identities=20%  Similarity=0.055  Sum_probs=28.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .+..++|+|+||+|||+++..++......   .+   ..+.|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~~---~~---~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIE---FD---EPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHH---HC---CCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHh---cC---CCcccccccC
Confidence            46678999999999999998766543221   12   2467776643

>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=94.86  E-value=0.007  Score=56.07  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=17.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKV  169 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v  169 (517)
                      ..++++|.|+||||||+++-..
T Consensus        13 ~~~~~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1          13 VTGPCLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             CSSEEEECCCTTSCHHHHHHHH
T ss_pred             CCCCEEEEeeCCccHHHHHHHH
Confidence            3567999999999999875443

>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=94.82  E-value=0.0089  Score=51.01  Aligned_cols=24  Identities=17%  Similarity=0.235  Sum_probs=20.9

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..++|+||+|+|||++++.++++.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            468999999999999999887654

>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=94.77  E-value=0.024  Score=50.41  Aligned_cols=26  Identities=23%  Similarity=0.174  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+.++|+||.+.|||+.+|.++-..
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHH
Confidence            34679999999999999999997554

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=94.76  E-value=0.025  Score=53.01  Aligned_cols=43  Identities=28%  Similarity=0.476  Sum_probs=31.0

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      +....+-|.|+||+||||++..++..+..    .|.. +-++.++..+
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~~~----~g~~-vaViavDpss   91 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLLTA----AGHK-VAVLAVDPSS   91 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHH----TTCC-EEEEEECGGG
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHHhh----cCCc-eeeeeccccc
Confidence            34556889999999999999999877643    2322 5566666554

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.73  E-value=0.0083  Score=49.45  Aligned_cols=21  Identities=19%  Similarity=0.360  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|+||+|||++++.+..
T Consensus         2 kivlvG~~~vGKSsLi~~l~~   22 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKL   22 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            378999999999999999854

>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=94.51  E-value=0.009  Score=52.34  Aligned_cols=26  Identities=27%  Similarity=0.224  Sum_probs=22.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      -.|-|.|++|+||||+++.+++.++.
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhch
Confidence            34669999999999999999988764

>d2g9wa1 a.4.5.39 (A:3-124) Hypothetical protein Rv1846c {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Penicillinase repressor
domain: Hypothetical protein Rv1846c
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.50  E-value=0.088  Score=41.44  Aligned_cols=77  Identities=10%  Similarity=0.143  Sum_probs=59.8

Q ss_pred             hccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeec
Q 010136          418 IKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKA  497 (517)
Q Consensus       418 i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~  497 (517)
                      +..|+..+..|+.++-..    ...+++.+|++.+   .+.   .+..++.+..+++.|++.|+|...+.|+...|.-.+
T Consensus         2 ~~~L~~~E~~IM~~lW~~----g~~~t~~eI~~~l---~~~---~~~~~sTV~T~L~rL~~Kg~l~~~~~gr~~~Y~~~i   71 (122)
T d2g9wa1           2 LTRLGDLERAVMDHLWSR----TEPQTVRQVHEAL---SAR---RDLAYTTVMAVLQRLAKKNLVLQIRDDRAHRYAPVH   71 (122)
T ss_dssp             GGGCCHHHHHHHHHHHTC----SSCEEHHHHHHHH---TTT---CCCCHHHHHHHHHHHHHTTSEEEEC---CCEEEESS
T ss_pred             CCCCCHHHHHHHHHHHcC----CCCccHHHHHHHH---hcc---CCCcHHHHHHHHHHHHHCCCEEEeecCCeEEEEeCC
Confidence            457899999999877632    2457999997743   222   478899999999999999999988899999999999


Q ss_pred             CHHHHHH
Q 010136          498 DESDITF  504 (517)
Q Consensus       498 ~~~~i~~  504 (517)
                      +.++...
T Consensus        72 ~~e~~~~   78 (122)
T d2g9wa1          72 GRDELVA   78 (122)
T ss_dssp             CHHHHHH
T ss_pred             CHHHHHH
Confidence            9988753

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=94.41  E-value=0.17  Score=44.51  Aligned_cols=115  Identities=15%  Similarity=0.143  Sum_probs=59.1

Q ss_pred             HHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC----
Q 010136          140 CKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL----  215 (517)
Q Consensus       140 L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~----  215 (517)
                      +...+....+...||+|..|+|||.++-..+...-.    .|   ..++.+- +...-..+.|..+-+.+..-...    
T Consensus        67 i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~----~g---~qv~~l~-Pt~~La~Q~~~~~~~~~~~~~~~v~~l  138 (233)
T d2eyqa3          67 VLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVD----NH---KQVAVLV-PTTLLAQQHYDNFRDRFANWPVRIEMI  138 (233)
T ss_dssp             HHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHT----TT---CEEEEEC-SSHHHHHHHHHHHHHHSTTTTCCEEEE
T ss_pred             HHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHH----cC---CceEEEc-cHHHhHHHHHHHHHHHHhhCCCEEEec
Confidence            333355567788999999999999998776655432    12   1334333 33333445555555544321110    


Q ss_pred             CCCCCHH--HHHHHHHHh---------h--h--ccCCCceEEEEEeCcchhcccCchHHHHH
Q 010136          216 NGSTSPL--QYLQNLYSQ---------K--L--HSSVMKMMLIIADELDYLITRDRAVLHDL  262 (517)
Q Consensus       216 ~~~~~~~--~~l~~~~~~---------~--~--~~~~~~~~vI~iDEiD~L~~~~~~~L~~l  262 (517)
                      ....+..  ..+...+..         +  .  .-....--+|||||=|.+.-+..+.|...
T Consensus       139 ~~~~~~~~~~~~~~~~~~g~~~iviGths~l~~~~~f~~LgLiIiDEeH~fg~kQ~~~l~~~  200 (233)
T d2eyqa3         139 SRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLIVDEEHRFGVRHKERIKAM  200 (233)
T ss_dssp             STTSCHHHHHHHHHHHHTTCCSEEEECTHHHHSCCCCSSEEEEEEESGGGSCHHHHHHHHHH
T ss_pred             cCcccchhHHHHHHHHhCCCCCEEEeehhhhccCCccccccceeeechhhhhhHHHHHHHhh
Confidence            1111211  112221211         0  0  01124556999999998876544555443

>d1p6ra_ a.4.5.39 (A:) Penicillinase repressor BlaI {Bacillus licheniformis [TaxId: 1402]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Penicillinase repressor
domain: Penicillinase repressor BlaI
species: Bacillus licheniformis [TaxId: 1402]

Probab=94.39  E-value=0.062  Score=39.08  Aligned_cols=74  Identities=20%  Similarity=0.201  Sum_probs=59.7

Q ss_pred             hccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeec
Q 010136          418 IKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKA  497 (517)
Q Consensus       418 i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~  497 (517)
                      +..|+..+..|+.++-.     ..++++.+|++....   ..   +..++.+..++..|++.|+|...+.|+...|.-.+
T Consensus         4 ~~~Ls~~E~~IM~~lW~-----~~~~t~~ei~~~l~~---~~---~~~~tTv~T~L~rL~~KG~l~~~k~gr~~~Y~p~i   72 (82)
T d1p6ra_           4 IPQISDAELEVMKVIWK-----HSSINTNEVIKELSK---TS---TWSPKTIQTMLLRLIKKGALNHHKEGRVFVYTPNI   72 (82)
T ss_dssp             CCCCCHHHHHHHHHHHT-----SSSEEHHHHHHHHHH---HS---CCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEESC
T ss_pred             CCCCCHHHHHHHHHHHh-----CCCCCHHHHHHHhcc---cc---CCcHhHHHHHHHHHHHCCCeEEEecCCeEEEEecC
Confidence            45789999999998763     246899999875433   32   56889999999999999999988889999998888


Q ss_pred             CHHHH
Q 010136          498 DESDI  502 (517)
Q Consensus       498 ~~~~i  502 (517)
                      +.+|.
T Consensus        73 s~eey   77 (82)
T d1p6ra_          73 DESDY   77 (82)
T ss_dssp             SSSTT
T ss_pred             CHHHH
Confidence            87653

>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=94.38  E-value=0.016  Score=56.14  Aligned_cols=45  Identities=20%  Similarity=0.258  Sum_probs=33.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          125 TIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       125 ~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+.-.+.+++.+..++.     ...+.++|+||.|+||||++..+++.+.
T Consensus       139 ~LG~~~~~~~~l~~l~~-----~~~GliLvtGpTGSGKSTTl~~~l~~~~  183 (401)
T d1p9ra_         139 SLGMTAHNHDNFRRLIK-----RPHGIILVTGPTGSGKSTTLYAGLQELN  183 (401)
T ss_dssp             GSCCCHHHHHHHHHHHT-----SSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hhcccHHHHHHHHHHHh-----hhhceEEEEcCCCCCccHHHHHHhhhhc
Confidence            34444555555554432     3568899999999999999999998874

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.026  Score=49.34  Aligned_cols=41  Identities=17%  Similarity=0.152  Sum_probs=29.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT  196 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~  196 (517)
                      +..|.|.|+.|+||||+++.+.+.|...    |   ..++.+......
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~----g---~~v~~~~~p~~~   43 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAA----G---HRAELLRFPERS   43 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHC----C---CcEEEEeCCCCC
Confidence            4567788999999999999998888653    3   345666554433

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.27  E-value=0.013  Score=48.30  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      +-++|.|+||+|||+++..+..
T Consensus         1 ~KI~liG~~nvGKSSLln~l~~   22 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLLHMLKN   22 (166)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3588999999999999998764

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.25  E-value=0.15  Score=46.47  Aligned_cols=61  Identities=13%  Similarity=0.098  Sum_probs=41.3

Q ss_pred             hHHHHHHhhcCcCCCCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          108 EQMSAVREALHVSTAPSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       108 ~~~~~~~~~l~~~~~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..+......+........+.-|+-|.+.+..++..       +..++.-|.|+|||.++-.++..+..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~rdyQ~~av~~~l~~-------~~~il~~pTGsGKT~i~~~i~~~~~~  154 (282)
T d1rifa_          94 KDFDEWLSKLEIYSGNKRIEPHWYQKDAVFEGLVN-------RRRILNLPTSAGRSLIQALLARYYLE  154 (282)
T ss_dssp             HHHHHHHHTCCCEETTEECCCCHHHHHHHHHHHHH-------SEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             hhcccccccccccccCCccccchHHHHHHHHHHhc-------CCceeEEEcccCccHHHHHHHHHhhh
Confidence            33333334333323333577899998888888765       45677889999999998887766543

>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=94.15  E-value=0.013  Score=52.08  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .++|.|++|+||||+++.+.+.+
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            37899999999999999998655

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.10  E-value=0.025  Score=50.33  Aligned_cols=22  Identities=18%  Similarity=0.093  Sum_probs=17.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +.++++.+|+|+|||.++-..+
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~   79 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMS   79 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHH
T ss_pred             CCCEEEEecCCChHHHHHHHHH
Confidence            4689999999999998765444

>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=93.95  E-value=0.014  Score=48.26  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|.||+|||++++++..
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~   27 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQV   27 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999998754

>d1okra_ a.4.5.39 (A:) Methicillin resistance regulatory protein MecI {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Penicillinase repressor
domain: Methicillin resistance regulatory protein MecI
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.84  E-value=0.19  Score=39.12  Aligned_cols=77  Identities=12%  Similarity=0.098  Sum_probs=62.3

Q ss_pred             ccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeecC
Q 010136          419 KSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKAD  498 (517)
Q Consensus       419 ~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~~  498 (517)
                      .+|+..|..||.++-..     ++++..+|.+...   ..   .+++++.+..+++.|++.|+|...+.|+...|.-.++
T Consensus         3 ~~lt~~E~~VM~~lW~~-----~~~t~~ei~~~l~---~~---~~~~~sTv~t~L~rL~~Kg~l~r~~~gr~~~Y~~~~~   71 (120)
T d1okra_           3 YEISSAEWEVMNIIWMK-----KYASANNIIEEIQ---MQ---KDWSPKTIRTLITRLYKKGFIDRKKDNKIFQYYSLVE   71 (120)
T ss_dssp             CCCCHHHHHHHHHHHHH-----SSEEHHHHHHHHH---HH---CCCCHHHHHHHHHHHHHHTSEEEEEETTEEEEEESSC
T ss_pred             CCCCHHHHHHHHHHHcC-----CCCCHHHHHHHHh---cc---cCccHHhHHHHHHHHHHCCCeEEEecCCceEEeecCC
Confidence            36888999999887742     3589999977443   33   3678999999999999999999888899999999999


Q ss_pred             HHHHHHHH
Q 010136          499 ESDITFAL  506 (517)
Q Consensus       499 ~~~i~~~l  506 (517)
                      .++.....
T Consensus        72 ~~~~~~~~   79 (120)
T d1okra_          72 ESDIKYKT   79 (120)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98876543

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.84  E-value=0.016  Score=50.29  Aligned_cols=22  Identities=18%  Similarity=0.321  Sum_probs=19.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|+|.|+||+|||++++.+..
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            4789999999999999999864

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.80  E-value=0.016  Score=48.82  Aligned_cols=21  Identities=24%  Similarity=0.349  Sum_probs=18.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|+||+|||++++.+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            378999999999999998764

>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=93.75  E-value=0.018  Score=48.44  Aligned_cols=26  Identities=23%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+...++|.|+||+|||+++.++...
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            44567999999999999999998543

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.66  E-value=0.02  Score=50.80  Aligned_cols=26  Identities=23%  Similarity=0.213  Sum_probs=22.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +..++|+|+||+|||+++..++..+.
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            45788999999999999999987654

>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=93.65  E-value=0.024  Score=49.33  Aligned_cols=27  Identities=22%  Similarity=0.294  Sum_probs=23.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +.-|.|.|+.|+||||.++.+.+.|..
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~~   28 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLEQ   28 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            456889999999999999999888764

>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=93.65  E-value=0.044  Score=50.74  Aligned_cols=27  Identities=22%  Similarity=0.261  Sum_probs=22.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      +-.|-|.|++|+||||+++.+...|..
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~~  106 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLSR  106 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHhh
Confidence            446779999999999999999888753

>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=93.58  E-value=0.3  Score=41.97  Aligned_cols=19  Identities=16%  Similarity=0.174  Sum_probs=16.2

Q ss_pred             CCeEEEEcCCCCcHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~  167 (517)
                      +.++++..|+|+|||...-
T Consensus        38 g~dvl~~A~TGsGKTla~~   56 (207)
T d1t6na_          38 GMDVLCQAKSGMGKTAVFV   56 (207)
T ss_dssp             TCCEEEECCTTSCHHHHHH
T ss_pred             CCCeEEEeccccccccccc
Confidence            4789999999999998743

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.55  E-value=0.02  Score=49.58  Aligned_cols=22  Identities=18%  Similarity=0.315  Sum_probs=19.9

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      +.++|.|+||+|||+|++++..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~   25 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTT   25 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5789999999999999999864

>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=93.49  E-value=0.032  Score=48.23  Aligned_cols=37  Identities=22%  Similarity=0.299  Sum_probs=27.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      |.|.|..|+||||+++.+.+.|...    |   ..++.+..+..
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~----g---~~v~~~~~P~~   39 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAA----G---RSVATLAFPRY   39 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEEESSCT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC----C---CCEEEEecCCC
Confidence            6789999999999999999888652    3   24566655543

>d1stza1 a.4.5.51 (A:14-100) Heat-inducible transcription repressor HrcA, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Heat-inducible transcription repressor HrcA, N-terminal domain
domain: Heat-inducible transcription repressor HrcA, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.46  E-value=0.14  Score=37.46  Aligned_cols=58  Identities=17%  Similarity=0.157  Sum_probs=45.9

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG  485 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~  485 (517)
                      .|+..|+.||.+++........+++..+|       ++.+++ .++...+++++..|++.|+|...
T Consensus         1 ~Lt~Rq~~IL~~Ive~y~~~g~Pv~s~~i-------~~~~~l-~~S~aTIRn~m~~LE~~G~l~~~   58 (87)
T d1stza1           1 KLNDRQRKVLYCIVREYIENKKPVSSQRV-------LEVSNI-EFSSATIRNDMKKLEYLGYIYQP   58 (87)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHCSCBCHHHH-------HHHSCC-CSCHHHHHHHHHHHHHTTSEECC
T ss_pred             CcCHHHHHHHHHHHHHHHHcCCccCHHHH-------HHHhCC-CCCHHHHHHHHHHHHHCCcccCC
Confidence            37788999999999877665567788776       555544 45677899999999999999865

>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=93.41  E-value=0.08  Score=47.89  Aligned_cols=53  Identities=15%  Similarity=0.050  Sum_probs=35.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHh
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKL  209 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l  209 (517)
                      +..++|.|+||+|||+++..++..+.   ...+.   .+++++...  +...+...+....
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a---~~~g~---~v~~~s~E~--~~~~~~~r~~~~~   87 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWG---TAMGK---KVGLAMLEE--SVEETAEDLIGLH   87 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHH---HTSCC---CEEEEESSS--CHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhh---hhccc---ceeEeeecc--chhhHHhHHHHHh
Confidence            45788999999999999999875442   22333   577887653  3555555554443

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.38  E-value=0.021  Score=47.66  Aligned_cols=21  Identities=24%  Similarity=0.360  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998864

>d1sd4a_ a.4.5.39 (A:) Penicillinase repressor BlaI {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Penicillinase repressor
domain: Penicillinase repressor BlaI
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.36  E-value=0.15  Score=39.96  Aligned_cols=76  Identities=12%  Similarity=0.118  Sum_probs=61.8

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeecCH
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADE  499 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~~~  499 (517)
                      .|+..+..|+.++-.     .++++..+|.+....   .   .+..++++..++..|++.|+|...+.|+...|.-.++.
T Consensus         3 ~ls~~E~~VM~~lW~-----~~~~t~~ei~~~l~~---~---~~~~~tTv~T~L~rL~~Kg~l~~~~~gr~~~Y~~~v~~   71 (122)
T d1sd4a_           3 EISMAEWDVMNIIWD-----KKSVSANEIVVEIQK---Y---KEVSDKTIRTLITRLYKKEIIKRYKSENIYFYSSNIKE   71 (122)
T ss_dssp             CCCHHHHHHHHHHHH-----SSSEEHHHHHHHHHT---T---SCCCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECSCH
T ss_pred             CCCHHHHHHHHHHHc-----CCCCCHHHHHHHhhc---c---CCCcHhHHHHHHHHHHhhhceeeeccCCeEEEeecCCH
Confidence            578888889887764     236899999874422   2   46799999999999999999998889999999999999


Q ss_pred             HHHHHHH
Q 010136          500 SDITFAL  506 (517)
Q Consensus       500 ~~i~~~l  506 (517)
                      ++.....
T Consensus        72 ~~~~~~~   78 (122)
T d1sd4a_          72 DDIKMKT   78 (122)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9876543

>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=93.34  E-value=0.021  Score=47.48  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=18.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|.||+|||++++.+..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998764

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.29  E-value=0.022  Score=47.48  Aligned_cols=21  Identities=29%  Similarity=0.325  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~   25 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVT   25 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            488999999999999998864

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=93.25  E-value=0.02  Score=47.63  Aligned_cols=21  Identities=24%  Similarity=0.384  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            588999999999999998743

>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=93.20  E-value=0.023  Score=47.49  Aligned_cols=20  Identities=30%  Similarity=0.413  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|++|+|||++++.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~   24 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLT   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999998865

>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=93.18  E-value=0.2  Score=44.92  Aligned_cols=42  Identities=17%  Similarity=0.143  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          132 EQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       132 e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      +.+.+.+...+ +..+.+-+-+|.|..|+|||.++-..+....
T Consensus        88 Q~~ai~ei~~d-~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~  129 (264)
T d1gm5a3          88 QKRAHQEIRND-MISEKPMNRLLQGDVGSGKTVVAQLAILDNY  129 (264)
T ss_dssp             HHHHHHHHHHH-HHSSSCCCCEEECCSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-hhccCcceeeeeccccccccHHHHHHHHHHH
Confidence            33333333333 5556677889999999999999887765544

>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=93.18  E-value=0.18  Score=44.01  Aligned_cols=42  Identities=17%  Similarity=0.336  Sum_probs=26.4

Q ss_pred             HHHHHHHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhcc
Q 010136          223 QYLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFML  265 (517)
Q Consensus       223 ~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~  265 (517)
                      ..+..++..... .......+|+||+|.|.... .+.+..+++.
T Consensus       140 ~rl~~~l~~~~~-~~~~l~~lVlDEaD~ll~~~f~~~~~~Il~~  182 (218)
T d2g9na1         140 GRVFDMLNRRYL-SPKYIKMFVLDEADEMLSRGFKDQIYDIFQK  182 (218)
T ss_dssp             HHHHHHHHTTSS-CSTTCCEEEEESHHHHHHTTCHHHHHHHHHH
T ss_pred             hhHHHHHhcCCc-ccccceEEEeeecchhhcCchHHHHHHHHHh
Confidence            345666653221 23445689999999998764 4556666654

>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=93.09  E-value=0.023  Score=50.26  Aligned_cols=25  Identities=20%  Similarity=0.320  Sum_probs=21.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.||+|+||||+++.++.-
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCC
Confidence            4668889999999999999987543

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.08  E-value=0.024  Score=47.39  Aligned_cols=20  Identities=15%  Similarity=0.293  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|.+|+|||++++.+..
T Consensus         8 i~vvG~~~vGKTsLi~~l~~   27 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYAD   27 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999998764

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.03  E-value=0.026  Score=47.10  Aligned_cols=21  Identities=14%  Similarity=0.107  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998764

>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=93.00  E-value=0.021  Score=49.78  Aligned_cols=42  Identities=24%  Similarity=0.465  Sum_probs=24.4

Q ss_pred             HHHHHHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhccC
Q 010136          224 YLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFMLT  266 (517)
Q Consensus       224 ~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~  266 (517)
                      .|..++..... .-..-..|++||+|.|.... ...+..+++..
T Consensus       129 ~l~~~l~~~~~-~l~~l~~lV~DEaD~l~~~~f~~~v~~I~~~l  171 (206)
T d1s2ma1         129 RVLDLASRKVA-DLSDCSLFIMDEADKMLSRDFKTIIEQILSFL  171 (206)
T ss_dssp             HHHHHHHTTCS-CCTTCCEEEEESHHHHSSHHHHHHHHHHHTTS
T ss_pred             cccccccccee-ecccceEEEeechhhhhhhhhHHHHHHHHHhC
Confidence            45555553211 12334578999999997642 34566666543

>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=92.97  E-value=0.069  Score=48.67  Aligned_cols=30  Identities=10%  Similarity=0.238  Sum_probs=25.8

Q ss_pred             cCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          146 EEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       146 ~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      -+.+..++|.|++|+|||+++..+++....
T Consensus        40 igrGQr~~I~g~~g~GKT~l~~~i~~~~~~   69 (289)
T d1xpua3          40 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAY   69 (289)
T ss_dssp             CBTTCEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             ccCCCeeeEeCCCCCCHHHHHHHHHHHHhh
Confidence            356889999999999999999999887653

>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=92.88  E-value=0.28  Score=44.40  Aligned_cols=28  Identities=14%  Similarity=0.004  Sum_probs=23.5

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..+..+.|.|++|+|||+++..++....
T Consensus        66 g~GQr~~If~~~g~GKt~ll~~~~~~~~   93 (285)
T d2jdia3          66 GRGQRELIIGDRQTGKTSIAIDTIINQK   93 (285)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHHHHTH
T ss_pred             cCCCEEEeecCCCCChHHHHHHHHHhHH
Confidence            4577899999999999999988876544

>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=92.86  E-value=0.032  Score=49.38  Aligned_cols=25  Identities=20%  Similarity=0.279  Sum_probs=21.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.||.|+||||+++.++..
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            4567889999999999999988654

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.84  E-value=0.026  Score=47.32  Aligned_cols=21  Identities=19%  Similarity=0.444  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999999864

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.83  E-value=0.026  Score=47.25  Aligned_cols=21  Identities=33%  Similarity=0.351  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999998864

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.82  E-value=0.028  Score=47.01  Aligned_cols=21  Identities=24%  Similarity=0.260  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||+++..+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999864

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.75  E-value=0.027  Score=46.88  Aligned_cols=21  Identities=24%  Similarity=0.352  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~  172 (517)
                      +++.|.+|+|||++++.++..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998653

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.74  E-value=0.029  Score=47.18  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|.+|+|||++++.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998754

>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=92.74  E-value=0.026  Score=48.89  Aligned_cols=27  Identities=26%  Similarity=0.445  Sum_probs=22.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.||.|+||||+++.++..+.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcccc
Confidence            456788999999999999999976543

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=92.71  E-value=0.03  Score=46.51  Aligned_cols=21  Identities=19%  Similarity=0.275  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|++|+|||++++.+..
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999998753

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.69  E-value=0.028  Score=47.73  Aligned_cols=21  Identities=24%  Similarity=0.357  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|++|+|||++++.+..
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            378999999999999988753

>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=92.68  E-value=0.015  Score=50.08  Aligned_cols=28  Identities=18%  Similarity=0.341  Sum_probs=23.4

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .++-.|.|.|+.|+||||+++.+.+.+.
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l~   34 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYKN   34 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGTT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3455789999999999999999887653

>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=92.66  E-value=0.036  Score=49.30  Aligned_cols=26  Identities=19%  Similarity=0.291  Sum_probs=21.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+-|.||.|+||||+++.+...+
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45678899999999999999986543

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.63  E-value=0.03  Score=46.85  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||+++..++.
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999998754

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.60  E-value=0.029  Score=47.10  Aligned_cols=21  Identities=33%  Similarity=0.355  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998754

>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=92.59  E-value=0.033  Score=46.97  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+..++|.|++|+|||+++..++.
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHH
Confidence            356899999999999999987654

>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=92.57  E-value=0.075  Score=46.74  Aligned_cols=24  Identities=17%  Similarity=0.138  Sum_probs=20.9

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..++|+||...|||+.+|.++-..
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHH
Confidence            368999999999999999987554

>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=92.53  E-value=0.033  Score=46.16  Aligned_cols=21  Identities=19%  Similarity=0.203  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999999864

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=92.52  E-value=0.031  Score=46.76  Aligned_cols=25  Identities=12%  Similarity=0.255  Sum_probs=20.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ...-.++|.|.||+|||+++.++..
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhc
Confidence            3456799999999999999998743

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.51  E-value=0.03  Score=46.58  Aligned_cols=21  Identities=33%  Similarity=0.422  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         5 Ki~viG~~~vGKTsli~~l~~   25 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQ   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999998864

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=92.50  E-value=0.032  Score=47.23  Aligned_cols=26  Identities=23%  Similarity=0.391  Sum_probs=21.0

Q ss_pred             ccCCCCeEEEEcCCCCcHHHHHHHHH
Q 010136          145 EEEKAGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       145 ~~~~~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      .....-.++|.|++|+|||++++.+.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHh
Confidence            33445579999999999999999863

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.49  E-value=0.034  Score=46.65  Aligned_cols=20  Identities=25%  Similarity=0.438  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|++|+|||++++.+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999998754

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.41  E-value=0.034  Score=47.11  Aligned_cols=20  Identities=25%  Similarity=0.426  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|.+|+|||+++..+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998754

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.40  E-value=0.035  Score=46.21  Aligned_cols=21  Identities=29%  Similarity=0.344  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|.+|+|||++++.+..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999864

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=92.39  E-value=0.035  Score=46.40  Aligned_cols=21  Identities=29%  Similarity=0.540  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|+||+|||++++++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999864

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.38  E-value=0.035  Score=46.40  Aligned_cols=21  Identities=19%  Similarity=0.433  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|++|+|||++++.+..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999998754

>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=92.36  E-value=0.39  Score=43.18  Aligned_cols=97  Identities=10%  Similarity=0.168  Sum_probs=54.7

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCC-CHHHHHHHHHHHh--CCCCCC--------
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLT-NTSEIFSKILLKL--QPRKKL--------  215 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~-s~~~i~~~i~~~l--~~~~~~--------  215 (517)
                      +++..+.|+|++|+|||+++..+++....     ... ...+|+-+..-. ...+++..+.+.-  ......        
T Consensus        66 gkGQr~~If~~~g~GKt~l~~~i~~~~~~-----~~~-~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~  139 (276)
T d2jdid3          66 AKGGKIGLFGGAGVGKTVLIMELINNVAK-----AHG-GYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYG  139 (276)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHHTT-----TCS-SEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEE
T ss_pred             cCCCEEEeeCCCCCCHHHHHHHHHHHHHh-----hCC-CeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEE
Confidence            46778999999999999999998876421     111 235666555432 2234555554421  101000        


Q ss_pred             CCCCCHHHH---------HHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          216 NGSTSPLQY---------LQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       216 ~~~~~~~~~---------l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      ....++...         +.++|.    ...++.++|++|.+-+...
T Consensus       140 ~s~~~~~~r~~~~~~a~~iAEyf~----~~~G~~VLv~~Dsltr~A~  182 (276)
T d2jdid3         140 QMNEPPGARARVALTGLTVAEYFR----DQEGQDVLLFIDNIFRFTQ  182 (276)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHH----HTTCSCEEEEEECTHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHH----hcCCCeEEEEEcchhHHHH
Confidence            012222222         334443    1346779999999887764

>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=92.35  E-value=0.038  Score=49.14  Aligned_cols=26  Identities=15%  Similarity=0.281  Sum_probs=21.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+-|.||.|+||||+++.++..+
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            45678899999999999999986543

>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=92.31  E-value=0.031  Score=49.74  Aligned_cols=25  Identities=28%  Similarity=0.284  Sum_probs=21.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.||+|+||||+++.++..
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCC
Confidence            4567889999999999999998643

>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=92.30  E-value=0.033  Score=46.33  Aligned_cols=21  Identities=19%  Similarity=0.207  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            588999999999999998754

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.26  E-value=0.034  Score=46.65  Aligned_cols=20  Identities=35%  Similarity=0.504  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|.+|+|||++++.+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998753

>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=92.26  E-value=0.034  Score=49.12  Aligned_cols=26  Identities=23%  Similarity=0.420  Sum_probs=22.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++.-+
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            45678899999999999999986543

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.26  E-value=0.034  Score=46.07  Aligned_cols=20  Identities=20%  Similarity=0.242  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|.+|+|||++++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.17  E-value=0.038  Score=45.96  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~   25 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            488999999999999999754

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.15  E-value=0.038  Score=46.07  Aligned_cols=21  Identities=24%  Similarity=0.251  Sum_probs=18.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||+++..+..
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998754

>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=92.09  E-value=0.22  Score=42.88  Aligned_cols=29  Identities=14%  Similarity=0.173  Sum_probs=20.5

Q ss_pred             CceEEEEEeCcchhcccC-chHHHHHhccC
Q 010136          238 MKMMLIIADELDYLITRD-RAVLHDLFMLT  266 (517)
Q Consensus       238 ~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~  266 (517)
                      ..-..|+|||+|.+.... ...+..+++..
T Consensus       144 ~~l~~lViDEad~l~~~~~~~~i~~I~~~~  173 (208)
T d1hv8a1         144 KNVKYFILDEADEMLNMGFIKDVEKILNAC  173 (208)
T ss_dssp             TSCCEEEEETHHHHHTTTTHHHHHHHHHTS
T ss_pred             ccCcEEEEEChHHhhcCCChHHHHHHHHhC
Confidence            445689999999987653 45577777653

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.05  E-value=0.04  Score=46.37  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|.+|+|||++++.+..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999998754

>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=92.01  E-value=0.045  Score=50.00  Aligned_cols=41  Identities=22%  Similarity=0.279  Sum_probs=27.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +.+.|-|+|++|+||||+++.+.+.+...    +   +..+.|.+-.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~----~---v~~~iI~~Dsf   43 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRRE----G---VKAVSIEGDAF   43 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHH----T---CCEEEEEGGGG
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhc----C---CCeEEEeCCCC
Confidence            34578899999999999999999888753    2   34455555443

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.00  E-value=0.048  Score=47.90  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.5

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      +...+|.|++|+|||+|++++.
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHS
T ss_pred             CCeEEEECCCCCCHHHHHHhhc
Confidence            4678899999999999999974

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.99  E-value=0.042  Score=46.07  Aligned_cols=21  Identities=29%  Similarity=0.362  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||+++..+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            388999999999999988764

>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=91.95  E-value=0.034  Score=46.59  Aligned_cols=21  Identities=14%  Similarity=0.319  Sum_probs=18.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~  170 (517)
                      -.++|.|+||+|||++++.+.
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~   37 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLA   37 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            369999999999999999874

>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=91.94  E-value=0.88  Score=39.37  Aligned_cols=29  Identities=14%  Similarity=0.402  Sum_probs=20.6

Q ss_pred             CceEEEEEeCcchhcccC-chHHHHHhccC
Q 010136          238 MKMMLIIADELDYLITRD-RAVLHDLFMLT  266 (517)
Q Consensus       238 ~~~~vI~iDEiD~L~~~~-~~~L~~l~~~~  266 (517)
                      .....+||||+|.|.... ...+..+++..
T Consensus       158 ~~l~~lVlDEaD~ll~~~f~~~i~~I~~~l  187 (222)
T d2j0sa1         158 RAIKMLVLDEADEMLNKGFKEQIYDVYRYL  187 (222)
T ss_dssp             TTCCEEEEETHHHHTSTTTHHHHHHHHTTS
T ss_pred             ccceeeeecchhHhhhcCcHHHHHHHHHhC
Confidence            345589999999998753 45667776653

>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=91.94  E-value=0.042  Score=46.54  Aligned_cols=21  Identities=19%  Similarity=0.156  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         7 KivviG~~~vGKTsli~~~~~   27 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTT   27 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999998864

>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=91.92  E-value=0.038  Score=49.73  Aligned_cols=26  Identities=19%  Similarity=0.385  Sum_probs=22.3

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||+|+||||+++.++..+
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            56689999999999999999986544

>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=91.90  E-value=0.04  Score=48.94  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=20.3

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+.|.||.|+||||+++.++..+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            466789999999999999987654

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=91.90  E-value=0.043  Score=45.78  Aligned_cols=21  Identities=24%  Similarity=0.290  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||++++.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            488999999999999998754

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.89  E-value=0.039  Score=46.38  Aligned_cols=21  Identities=19%  Similarity=0.202  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||+++..+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~   24 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSK   24 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378899999999999988754

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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 VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=91.89  E-value=0.27  Score=43.35  Aligned_cols=41  Identities=15%  Similarity=0.171  Sum_probs=24.9

Q ss_pred             HHHHHHHhhhccCCCceEEEEEeCcchhcccC-chHHHHHhcc
Q 010136          224 YLQNLYSQKLHSSVMKMMLIIADELDYLITRD-RAVLHDLFML  265 (517)
Q Consensus       224 ~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~~~-~~~L~~l~~~  265 (517)
                      .|..++..... .-.....++|||+|.+.... .+.+..+++.
T Consensus       158 ~l~~~~~~~~~-~l~~v~~lViDEaD~ll~~~f~~~i~~Il~~  199 (238)
T d1wrba1         158 RLVDFIEKNKI-SLEFCKYIVLDEADRMLDMGFEPQIRKIIEE  199 (238)
T ss_dssp             HHHHHHHTTSB-CCTTCCEEEEETHHHHHHTTCHHHHHHHHHS
T ss_pred             HHHhHHccCce-eccccceeeeehhhhhhhhccHHHHHHHHHH
Confidence            44455543211 23445689999999998653 4556677664

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=91.89  E-value=0.14  Score=44.06  Aligned_cols=20  Identities=30%  Similarity=0.275  Sum_probs=16.8

Q ss_pred             CCeEEEEcCCCCcHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEK  168 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~  168 (517)
                      +.++++.-|+|+|||.+...
T Consensus        40 g~~vlv~apTGsGKT~~~~~   59 (206)
T d1oywa2          40 GRDCLVVMPTGGGKSLCYQI   59 (206)
T ss_dssp             TCCEEEECSCHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCCCcchhhh
Confidence            36899999999999988643

>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=91.89  E-value=0.041  Score=45.86  Aligned_cols=21  Identities=29%  Similarity=0.418  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ++|.|.+|+|||++++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999987643

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=91.86  E-value=0.044  Score=46.83  Aligned_cols=23  Identities=17%  Similarity=0.251  Sum_probs=20.3

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.+.|.|.||+||||+++++..
T Consensus        23 ~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          23 LPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHhcC
Confidence            44699999999999999999974

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=91.85  E-value=0.036  Score=46.81  Aligned_cols=24  Identities=21%  Similarity=0.219  Sum_probs=20.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+..++|.|++|+|||+++..++.
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            356899999999999999988754

>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=91.78  E-value=0.043  Score=49.31  Aligned_cols=27  Identities=22%  Similarity=0.250  Sum_probs=22.7

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+..+.|.||.|+||||+++.+...+
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            356689999999999999999986543

>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=91.70  E-value=0.047  Score=49.87  Aligned_cols=27  Identities=26%  Similarity=0.324  Sum_probs=22.6

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .+..+.|.||.|+||||+++.++..+.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            456788999999999999999876543

>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=91.64  E-value=0.034  Score=49.54  Aligned_cols=25  Identities=20%  Similarity=0.299  Sum_probs=21.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..+.|.||.|+||||+++.++.-
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcC
Confidence            4568889999999999999998754

>d2isya1 a.4.5.24 (A:2-64) Iron-dependent regulator IdeR {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Iron-dependent repressor protein
domain: Iron-dependent regulator IdeR
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=91.64  E-value=0.15  Score=34.76  Aligned_cols=58  Identities=12%  Similarity=0.120  Sum_probs=41.7

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCC
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDD  488 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~  488 (517)
                      .|+...--.|.+|+.+...+ ..+...+|       ++.+++.|   ..+..++..|.+.|+|...+++
T Consensus         2 ~ls~s~EdYL~~I~~L~~~~-~~v~~~~i-------A~~L~vs~---~SVt~mvkrL~~~Glv~~~~y~   59 (63)
T d2isya1           2 ELVDTTEMYLRTIYDLEEEG-VTPLRARI-------AERLDQSG---PTVSQTVSRMERDGLLRVAGDR   59 (63)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT-CCCCHHHH-------HHHHTCCH---HHHHHHHHHHHHTTSEEECTTS
T ss_pred             CCcHHHHHHHHHHHHHHhcC-CCCcHHHH-------HHHhCCCc---hhHHHHHHHHHHCCCEEEcCCC
Confidence            35555667888899887653 35777766       77776544   4666999999999999975443

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.60  E-value=0.044  Score=46.95  Aligned_cols=20  Identities=30%  Similarity=0.473  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|++|+|||++++.+..
T Consensus         9 ivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhh
Confidence            78999999999999998864

>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=91.57  E-value=0.047  Score=45.73  Aligned_cols=25  Identities=20%  Similarity=0.226  Sum_probs=20.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+..++|.|++|+|||+++-.+++.
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            3568999999999999999776543

>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=91.56  E-value=0.11  Score=47.17  Aligned_cols=47  Identities=19%  Similarity=0.253  Sum_probs=35.6

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSE  200 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~  200 (517)
                      ..+..++++|.-|+||||++-.++..+.+.    |   .++.-|++-...+...
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~----G---~rVLlvD~Dp~~~l~~   52 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQ----G---KRVLLVSTDPASNVGQ   52 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEEECCTTCCHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHC----C---CCEEEEeCCCCCCHHH
Confidence            357788999999999999999999988753    3   2577788765444333

>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=91.56  E-value=0.045  Score=48.82  Aligned_cols=26  Identities=23%  Similarity=0.432  Sum_probs=22.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.|++|+||||+++.++..+
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            46679999999999999999987654

>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=91.54  E-value=0.13  Score=46.46  Aligned_cols=45  Identities=20%  Similarity=0.310  Sum_probs=35.1

Q ss_pred             hccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          144 LEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       144 l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      +..+....++++|.-|+||||++-.++..+...    |   .+++.|++-..
T Consensus        15 ~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~----G---~rVllvD~Dp~   59 (279)
T d1ihua2          15 IARNEHGLIMLMGKGGVGKTTMAAAIAVRLADM----G---FDVHLTTSDPA   59 (279)
T ss_dssp             HHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHT----T---CCEEEEESCCC
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHC----C---CcEEEEeCCCC
Confidence            334556778899999999999999999888753    3   35888888754

>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=91.52  E-value=0.042  Score=46.30  Aligned_cols=21  Identities=19%  Similarity=0.333  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .|.|.|+||+|||++++++..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999999864

>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=91.50  E-value=0.045  Score=46.04  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=20.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|.|.+|+|||+++++++.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            35799999999999999999864

>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=91.42  E-value=0.054  Score=46.13  Aligned_cols=19  Identities=26%  Similarity=0.328  Sum_probs=16.7

Q ss_pred             eEEEEcCCCCcHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKV  169 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v  169 (517)
                      .+-|+|++|+||||+++.+
T Consensus         5 IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4569999999999999876

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.41  E-value=0.053  Score=45.23  Aligned_cols=21  Identities=33%  Similarity=0.325  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+++.|.+|+|||++++.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478899999999999998865

>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=91.37  E-value=0.045  Score=48.85  Aligned_cols=26  Identities=19%  Similarity=0.336  Sum_probs=22.2

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+.|.||.|+||||+++.++..+
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            45678899999999999999987654

>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=91.36  E-value=0.049  Score=46.21  Aligned_cols=21  Identities=19%  Similarity=0.188  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .++|.|.+|+|||++++.+..
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            478999999999999998754

>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=91.33  E-value=0.047  Score=44.87  Aligned_cols=21  Identities=24%  Similarity=0.457  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|+||+|||++++++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998863

>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: TrmB-like
domain: Hypothetical protein AF2008
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.30  E-value=0.76  Score=34.81  Aligned_cols=72  Identities=10%  Similarity=0.045  Sum_probs=50.8

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.++.++...     .+.+..+|       ++..+   ++.+.+..+++.|++.|+|...   ++++...|. -
T Consensus        17 Glt~~e~~v~~~L~~~-----g~~t~~ei-------a~~~~---i~~~~v~~~l~~L~~~GlV~r~~~~~~~r~~~~~-a   80 (109)
T d1sfxa_          17 SFKPSDVRIYSLLLER-----GGMRVSEI-------ARELD---LSARFVRDRLKVLLKRGFVRREIVEKGWVGYIYS-A   80 (109)
T ss_dssp             CCCHHHHHHHHHHHHH-----CCBCHHHH-------HHHHT---CCHHHHHHHHHHHHHTTSEEEEEEESSSEEEEEE-E
T ss_pred             CCCHHHHHHHHHHHhc-----CCCCHHHH-------HHHhC---CCcchHHHHHHHHHhCCCEEEEeccCCCcccccc-C
Confidence            7888898888888643     35687776       55554   5778899999999999999754   344444444 4


Q ss_pred             cCHHHHHHHHh
Q 010136          497 ADESDITFALQ  507 (517)
Q Consensus       497 ~~~~~i~~~l~  507 (517)
                      .++.++...++
T Consensus        81 ~~~~e~l~~~~   91 (109)
T d1sfxa_          81 EKPEKVLKEFK   91 (109)
T ss_dssp             CCHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            55666655543

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.28  E-value=0.052  Score=45.43  Aligned_cols=20  Identities=25%  Similarity=0.298  Sum_probs=17.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~  170 (517)
                      -++|.|.+|+|||++++.+.
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~   24 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFA   24 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHH
Confidence            37899999999999998875

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.28  E-value=0.059  Score=47.07  Aligned_cols=27  Identities=19%  Similarity=0.224  Sum_probs=23.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++.-|.|.|+-|+||||+++.+.+.|.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            567789999999999999999988775

>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=91.27  E-value=0.045  Score=48.49  Aligned_cols=26  Identities=19%  Similarity=0.147  Sum_probs=23.1

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      |.-|.|-|+-|+||||+++.+.+.+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            56789999999999999999988765

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.18  E-value=0.076  Score=45.91  Aligned_cols=35  Identities=14%  Similarity=0.154  Sum_probs=28.3

Q ss_pred             CeEEEEcC-CCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEe
Q 010136          150 GSLYVCGC-PGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSIN  191 (517)
Q Consensus       150 ~~lli~G~-pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn  191 (517)
                      +.+||+|- +|+|||+++-.++..|.+.    |   .++..+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~----G---~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA----G---YRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT----T---CCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHC----C---CeEEEEC
Confidence            46899998 5999999999999998764    3   3567765

>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=91.17  E-value=0.052  Score=45.82  Aligned_cols=20  Identities=20%  Similarity=0.292  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++|.|.+|+|||++++.++.
T Consensus         5 ivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998865

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.13  E-value=0.033  Score=46.70  Aligned_cols=21  Identities=24%  Similarity=0.373  Sum_probs=8.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ++|.|.+|+|||++++.+...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=91.08  E-value=0.092  Score=47.18  Aligned_cols=38  Identities=21%  Similarity=0.286  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          132 EQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       132 e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.++...+...  ....-.|+|.|.||+|||++++.++.
T Consensus        17 ~l~e~~~~l~~~--~~~~l~I~LvG~tg~GKSSliN~ilg   54 (257)
T d1h65a_          17 KLLELLGNLKQE--DVNSLTILVMGKGGVGKSSTVNSIIG   54 (257)
T ss_dssp             HHHHHHHHHHHT--TCCEEEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHHHHHhhc--CCCCcEEEEECCCCCcHHHHHHHHhC
Confidence            333444444432  12345799999999999999999864

>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=91.06  E-value=0.048  Score=45.64  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=20.3

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~  170 (517)
                      ...-.++|.|+||+|||++++.+.
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~   33 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLK   33 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTT
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHh
Confidence            344569999999999999999875

>d3ctaa1 a.4.5.28 (A:5-89) Ta1064 (RFK), N-terminal domain {Thermoplasma acidophilum [TaxId: 2303]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Ta1064 (RFK), N-terminal domain
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=90.99  E-value=0.4  Score=34.72  Aligned_cols=67  Identities=9%  Similarity=0.067  Sum_probs=45.4

Q ss_pred             CCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeecCHHHHHHHHhCChhhhhhcC
Q 010136          439 GKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFALQGVRFFRNCLQ  517 (517)
Q Consensus       439 ~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~~~~~i~~~l~~~~~~~~~~~  517 (517)
                      ....++..+|       |+.++   ++.+.+..+++.|++.|+|....+|+...+.|+  +.-....-+.-+.|..+||
T Consensus        18 ~~~~lt~~eL-------a~~l~---i~~~~vs~~l~~Le~~GlV~r~~D~R~~~i~LT--~~G~~~l~~~~~~~~rlle   84 (85)
T d3ctaa1          18 NRAYLTSSKL-------ADMLG---ISQQSASRIIIDLEKNGYITRTVTKRGQILNIT--EKGLDVLYTEFADLSRILA   84 (85)
T ss_dssp             SEEECCHHHH-------HHHHT---SCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEC--HHHHHHHHHHHHHHHHHTT
T ss_pred             CCCCCCHHHH-------HHHHC---CCHHHHHHHHHHHHHCCCeeeecccccccceEC--HHHHHHHHHHHHHHHHHhc
Confidence            3446788877       66664   466678899999999999998777877777664  4333333333346666654

>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=90.94  E-value=0.056  Score=46.08  Aligned_cols=21  Identities=19%  Similarity=0.156  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|.+|+|||+++..+..
T Consensus         5 KvvllG~~~vGKTSli~r~~~   25 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTT   25 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999988754

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.93  E-value=0.048  Score=45.65  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=20.0

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|.|.||+|||++++++.+
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhC
Confidence            35688999999999999999864

>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=90.73  E-value=0.064  Score=48.29  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=21.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+..+-|.||.|+||||+++.++.
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            466788999999999999999864

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.54  E-value=0.033  Score=46.62  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=17.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -++|.|.+|+|||+++..+...
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987543

>d1bg2a_ c.37.1.9 (A:) Kinesin {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: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.09  E-value=0.1  Score=48.59  Aligned_cols=39  Identities=23%  Similarity=0.372  Sum_probs=28.0

Q ss_pred             CCcHHHHHHHHHH-HHHhhccCCCCeEEEEcCCCCcHHHHH
Q 010136          127 VCREDEQKKVLEF-CKKNLEEEKAGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       127 ~gRe~e~~~l~~~-L~~~l~~~~~~~lli~G~pGtGKT~l~  166 (517)
                      ...++.++.+..- +..++ .+....++.||+.|+|||+++
T Consensus        54 ~~q~~vf~~~~~~lv~~~l-~G~n~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          54 TSQEQVYNDCAKKIVKDVL-EGYNGTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             CCHHHHHHHHTHHHHHHHH-TTCCEEEEEECSTTSSHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHH-cCCCcceeeecccCCCCceec
Confidence            4456666655433 44444 466789999999999999997

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=89.98  E-value=0.27  Score=44.41  Aligned_cols=92  Identities=14%  Similarity=0.110  Sum_probs=49.6

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHHHhCCCCCC--------CCC
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSLTNTSEIFSKILLKLQPRKKL--------NGS  218 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~~s~~~i~~~i~~~l~~~~~~--------~~~  218 (517)
                      +++..+.|.|++|+|||+++..+.....       -....++++.+..-.   .-+..+.+.+......        ...
T Consensus        65 g~GQr~~Ifg~~g~GKt~l~~~~~~~~~-------~~~~v~V~~~iGer~---~Ev~e~~~~~~~~~~~~~tvvv~~tsd  134 (276)
T d1fx0a3          65 GRGQRELIIGDRQTGKTAVATDTILNQQ-------GQNVICVYVAIGQKA---SSVAQVVTNFQERGAMEYTIVVAETAD  134 (276)
T ss_dssp             BTTCBCBEEESSSSSHHHHHHHHHHTCC-------TTTCEEEEEEESCCH---HHHHHHHHHTGGGTGGGSEEEEEECTT
T ss_pred             cCCceEeeccCCCCChHHHHHHHHhhhc-------ccCceeeeeeecchh---HHHHHHHHhhccCCcceeeeecccccC
Confidence            3567788999999999999876533211       111345555544432   2223333333221100        001


Q ss_pred             CC---------HHHHHHHHHHhhhccCCCceEEEEEeCcchhcc
Q 010136          219 TS---------PLQYLQNLYSQKLHSSVMKMMLIIADELDYLIT  253 (517)
Q Consensus       219 ~~---------~~~~l~~~~~~~~~~~~~~~~vI~iDEiD~L~~  253 (517)
                      .+         ..-.+.++|.     ..++..+|++|.+-++..
T Consensus       135 ~p~~~r~~a~~~a~tiAEyfr-----d~G~~Vlll~Dsltr~A~  173 (276)
T d1fx0a3         135 SPATLQYLAPYTGAALAEYFM-----YRERHTLIIYDDLSKQAQ  173 (276)
T ss_dssp             SCGGGTTHHHHHHHHHHHHHH-----HTTCEEEEEEECHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHH-----HcCCceeEEeeccHHHHH
Confidence            11         1123456665     246778999999888764

>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=89.59  E-value=0.081  Score=45.04  Aligned_cols=19  Identities=21%  Similarity=0.429  Sum_probs=17.6

Q ss_pred             eEEEEcCCCCcHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKV  169 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v  169 (517)
                      -++|.|.+|+|||++++.+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999998

>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=89.56  E-value=0.085  Score=46.87  Aligned_cols=26  Identities=15%  Similarity=0.409  Sum_probs=21.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+-|.||.|+||||+++.++..+
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45678899999999999999986543

>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=89.50  E-value=0.054  Score=48.67  Aligned_cols=26  Identities=27%  Similarity=0.486  Sum_probs=21.9

Q ss_pred             CCCCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          147 EKAGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       147 ~~~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      ..+..+.|.|++|+||||+++.++..
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhc
Confidence            35678999999999999999988643

>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=89.29  E-value=0.1  Score=45.19  Aligned_cols=19  Identities=26%  Similarity=0.331  Sum_probs=16.6

Q ss_pred             eEEEEcCCCCcHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKV  169 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v  169 (517)
                      .+-|+|.+|+||||+++.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            4669999999999999875

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=89.17  E-value=0.12  Score=48.66  Aligned_cols=39  Identities=23%  Similarity=0.330  Sum_probs=26.4

Q ss_pred             CCcHHHHHHHH-HHHHHhhccCCCCeEEEEcCCCCcHHHHH
Q 010136          127 VCREDEQKKVL-EFCKKNLEEEKAGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       127 ~gRe~e~~~l~-~~L~~~l~~~~~~~lli~G~pGtGKT~l~  166 (517)
                      ...++.++.+. ..+...+ .+....++.||+.|+|||+++
T Consensus        58 ~~q~~vy~~~~~plv~~~l-~G~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          58 CKQSDIFDFSIKPTVDDIL-NGYNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             CCHHHHHHHHTHHHHHHHT-TTCCEEEEEECSTTSSHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhh-ccCceeEEecccCCCCcceee
Confidence            34555555443 3344444 456678999999999999986

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=89.14  E-value=0.057  Score=45.32  Aligned_cols=24  Identities=17%  Similarity=0.281  Sum_probs=20.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ....|.|.|.|++|||+|++++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            456799999999999999998853

>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=89.05  E-value=0.075  Score=46.67  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=20.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      -+..+|+|.-|+||||+++.+++.
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhc
Confidence            356889999999999999988663

>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=89.02  E-value=0.1  Score=43.92  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.2

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -.+.|.|.+|+|||++++++..
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
Confidence            3588999999999999999864

>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=88.94  E-value=0.11  Score=48.68  Aligned_cols=41  Identities=20%  Similarity=0.163  Sum_probs=27.5

Q ss_pred             CCcHHHHHHH-HHHHHHhhccCCCCeEEEEcCCCCcHHHHHH
Q 010136          127 VCREDEQKKV-LEFCKKNLEEEKAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       127 ~gRe~e~~~l-~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~  167 (517)
                      ...++.++.+ ...+...+..+....++.||+.|+|||+++-
T Consensus        62 ~~q~~vy~~~~~plv~~~~~~G~n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          62 VDNFTVYENTIKPLIIDLYENGCVCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             CCHHHHHHHHTHHHHHHHHHHCCEEEEEEECCTTSSHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCeEEEeeeccccccceeee
Confidence            3444444433 2334455555667789999999999999974

>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=88.88  E-value=0.12  Score=43.39  Aligned_cols=21  Identities=29%  Similarity=0.279  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+++.|.+|+|||+++..+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~   27 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLT   27 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            588999999999999998754

>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=88.87  E-value=0.14  Score=49.49  Aligned_cols=27  Identities=30%  Similarity=0.347  Sum_probs=23.2

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ..|++|.|++|+|||++++.++.++..
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~   76 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLL   76 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHh
Confidence            468999999999999999888777653

>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=88.86  E-value=0.079  Score=44.69  Aligned_cols=20  Identities=30%  Similarity=0.458  Sum_probs=17.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~  170 (517)
                      .+-|.|+||+|||++++++.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~   22 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVS   22 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSE
T ss_pred             eEEEECCCCCCHHHHHHHHh
Confidence            57899999999999999874

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=88.85  E-value=0.04  Score=45.31  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+.|.|.||+|||++++++..+
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998643

>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=88.79  E-value=0.11  Score=45.99  Aligned_cols=26  Identities=15%  Similarity=0.335  Sum_probs=21.4

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+-|.||.|+||||+++.++..+
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34567799999999999999986554

>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=88.77  E-value=0.079  Score=44.50  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+.|.|.||+|||++++++..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999753

>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]

Probab=88.55  E-value=0.14  Score=48.05  Aligned_cols=40  Identities=23%  Similarity=0.346  Sum_probs=29.0

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~~  167 (517)
                      ...++.++.+...+...+. +....++.||+.|+|||+++-
T Consensus        62 ~~q~~vy~~v~~~v~~~l~-G~n~~i~aYGqtgSGKT~T~~  101 (342)
T d1f9va_          62 DTNVDVFKEVGQLVQSSLD-GYNVCIFAYGQTGSGKTFTML  101 (342)
T ss_dssp             CCHHHHHHHHHHHHGGGGG-TCCEEEEEECCTTSSHHHHHH
T ss_pred             CCHHHHHHHhhhhhcchhc-ccccceeeeeccCCccccccc
Confidence            3456666666655555554 456789999999999999873

>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=88.52  E-value=0.043  Score=48.49  Aligned_cols=26  Identities=15%  Similarity=0.155  Sum_probs=22.4

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..-|.|-|+-|+||||+++.+++.|.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            35688999999999999999887764

>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=88.44  E-value=0.11  Score=44.82  Aligned_cols=18  Identities=22%  Similarity=0.291  Sum_probs=15.9

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q 010136          152 LYVCGCPGTGKSLSMEKV  169 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v  169 (517)
                      +-|+|.+|+||||+++.+
T Consensus         5 IgITG~igSGKStv~~~l   22 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEECSTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            558999999999998875

>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=88.30  E-value=0.097  Score=42.21  Aligned_cols=37  Identities=16%  Similarity=0.085  Sum_probs=23.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          152 LYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       152 lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      =+++||-.+|||+=+-..++.+..    .+   -+++.++....
T Consensus         5 ~~i~GpMfsGKTteLi~~~~~~~~----~~---~kv~~ikp~~D   41 (139)
T d2b8ta1           5 EFITGPMFAGKTAELIRRLHRLEY----AD---VKYLVFKPKID   41 (139)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHH----TT---CCEEEEEECCC
T ss_pred             EEEEccccCHHHHHHHHHHHHHHH----CC---CcEEEEEEccc
Confidence            368999999999955554544432    12   24666665543

>d1sdma_ c.37.1.9 (A:) Kinesin heavy chain-like protein {Potato (Solanum tuberosum) [TaxId: 4113]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin heavy chain-like protein
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=88.30  E-value=0.093  Score=49.79  Aligned_cols=39  Identities=13%  Similarity=0.339  Sum_probs=28.4

Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHH
Q 010136          127 VCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       127 ~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~  166 (517)
                      ...++.++.+...+...+. +....++.||+.|+|||+++
T Consensus        54 ~~q~~vy~~v~~lv~~~l~-G~n~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          54 ATQDDVFEDTKYLVQSAVD-GYNVCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             CCHHHHHHTTTHHHHHHHT-TCEEEEEEECSTTSSHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhc-CCceeeeccccCCCCccccc
Confidence            4455666666555666554 45678999999999999996

>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=88.18  E-value=0.11  Score=45.89  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=20.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+..+-|.||.|+||||+++.++.
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            456788999999999999998865

>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Mouse (Mus musculus), kif2c [TaxId: 10090]

Probab=88.09  E-value=0.11  Score=49.34  Aligned_cols=40  Identities=18%  Similarity=0.271  Sum_probs=27.3

Q ss_pred             CCcHHHHHHHHH-HHHHhhccCCCCeEEEEcCCCCcHHHHHH
Q 010136          127 VCREDEQKKVLE-FCKKNLEEEKAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       127 ~gRe~e~~~l~~-~L~~~l~~~~~~~lli~G~pGtGKT~l~~  167 (517)
                      ...++.++.+.. .+...+ .+....++.||+.|+|||+++-
T Consensus        92 ~~Q~~Vy~~~~~plv~~~l-~G~n~tifaYGqTGSGKTyTm~  132 (362)
T d1v8ka_          92 ASNEVVYRFTARPLVQTIF-EGGKATCFAYGQTGSGKTHTMG  132 (362)
T ss_dssp             CCHHHHHHHTTHHHHHHHH-TTCEEEEEEEESTTSSHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHH-hccCceEEeeccCCCCCceeee
Confidence            445555555433 344444 4566789999999999999973

>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Mouse (Mus musculus), kif1a [TaxId: 10090]

Probab=88.09  E-value=0.22  Score=46.70  Aligned_cols=39  Identities=21%  Similarity=0.261  Sum_probs=27.2

Q ss_pred             CcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHH
Q 010136          128 CREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       128 gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~  166 (517)
                      ..++.++.+..-+-..+-.+....++.||+.|+|||+++
T Consensus        66 sQ~~vy~~~~~plv~~~l~G~n~ti~aYGqTgSGKT~Tm  104 (349)
T d2zfia1          66 SQKQVYRDIGEEMLQHAFEGYNVCIFAYGQTGAGKSYTM  104 (349)
T ss_dssp             CHHHHHHHTHHHHHHHHHTTCCEEEEEECSTTSSHHHHH
T ss_pred             cHHHHHHHhhHHHHHHHHhccCceeeeeccCCCCCceee
Confidence            355556654444333344466788999999999999997

>d1lj9a_ a.4.5.28 (A:) Transcriptional regulator SlyA {Enterococcus faecalis [TaxId: 1351]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator SlyA
species: Enterococcus faecalis [TaxId: 1351]

Probab=88.07  E-value=0.98  Score=35.98  Aligned_cols=71  Identities=15%  Similarity=0.194  Sum_probs=52.0

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..+..     .++++..+|       |+.++   ++.+.+..++..|+..|+|...   .++|...+.|.
T Consensus        26 ~lt~~q~~iL~~i~~-----~~~~t~~~l-------a~~l~---i~~~tvs~~l~~L~~~glI~r~~~~~D~R~~~l~LT   90 (144)
T d1lj9a_          26 SLTRGQYLYLVRVCE-----NPGIIQEKI-------AELIK---VDRTTAARAIKRLEEQGFIYRQEDASNKKIKRIYAT   90 (144)
T ss_dssp             TCTTTHHHHHHHHHH-----STTEEHHHH-------HHHHT---CCHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEEC
T ss_pred             CCCHHHHHHHHHHHh-----CCCCCHHHH-------HHHHC---ccHhhHHHHHHHHHhhhcccccCCCCCCCccccccC
Confidence            789999999987763     235788776       66664   5677888999999999999876   45677777775


Q ss_pred             cCHHHHHHH
Q 010136          497 ADESDITFA  505 (517)
Q Consensus       497 ~~~~~i~~~  505 (517)
                      -.-.++...
T Consensus        91 ~~G~~~~~~   99 (144)
T d1lj9a_          91 EKGKNVYPI   99 (144)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>d1x88a1 c.37.1.9 (A:18-362) Kinesin {Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]

Probab=88.03  E-value=0.15  Score=47.84  Aligned_cols=40  Identities=23%  Similarity=0.350  Sum_probs=27.0

Q ss_pred             CCcHHHHHHHHH-HHHHhhccCCCCeEEEEcCCCCcHHHHHH
Q 010136          127 VCREDEQKKVLE-FCKKNLEEEKAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       127 ~gRe~e~~~l~~-~L~~~l~~~~~~~lli~G~pGtGKT~l~~  167 (517)
                      ...++.++.+.. .+...+ .+....++.||+.|+|||+++-
T Consensus        59 ~~q~~vy~~~~~~lv~~~l-~G~n~~i~aYGqtgSGKTyTm~   99 (345)
T d1x88a1          59 TKQIDVYRSVVCPILDEVI-MGYNCTIFAYGQTGTGKTFTME   99 (345)
T ss_dssp             CCHHHHHHHHHHHHHHHHH-TTCEEEEEEEECTTSSHHHHHT
T ss_pred             CCHHHHHHHHHHHhHHHHh-ccCCceEEeeeeccccceEEee
Confidence            345555555433 334444 4566789999999999999973

>d1r1ua_ a.4.5.5 (A:) Metal-sensing transcriptional repressor CzrA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: Metal-sensing transcriptional repressor CzrA
species: Staphylococcus aureus [TaxId: 1280]

Probab=87.92  E-value=1.5  Score=32.19  Aligned_cols=47  Identities=13%  Similarity=0.162  Sum_probs=38.5

Q ss_pred             CccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeecC
Q 010136          442 DMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKAD  498 (517)
Q Consensus       442 ~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~~  498 (517)
                      +.+++++       ++.++   ++.+.+...+..|.+.|||...+.|+...|.|+-+
T Consensus        31 ~~~v~el-------~~~l~---~s~~~vS~HL~~L~~~glv~~~r~G~~~~Y~l~~~   77 (94)
T d1r1ua_          31 EASVGHI-------SHQLN---LSQSNVSHQLKLLKSVHLVKAKRQGQSMIYSLDDI   77 (94)
T ss_dssp             CBCHHHH-------HHHHT---CCHHHHHHHHHHHHHTTSEEEEEETTEEEEEESSH
T ss_pred             CccHHHH-------HHHHC---CCHHHHHHHHHHHHHCCceEEEEECCEEEEEECcH
Confidence            4677766       55553   57888999999999999999989999999998643

>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=87.89  E-value=0.14  Score=43.35  Aligned_cols=21  Identities=24%  Similarity=0.376  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      -++|.|..|+|||++++.+..
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~   24 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRI   24 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998743

>d1u2wa1 a.4.5.5 (A:12-119) Cadmium efflux system accessory protein CadC {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: Cadmium efflux system accessory protein CadC
species: Staphylococcus aureus [TaxId: 1280]

Probab=87.86  E-value=0.82  Score=34.64  Aligned_cols=48  Identities=21%  Similarity=0.284  Sum_probs=35.4

Q ss_pred             CCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeecC
Q 010136          441 KDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKAD  498 (517)
Q Consensus       441 ~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~~  498 (517)
                      .+.++++|       ++.+   .++.+.+...+..|.+.|||...+.|++..|+++-+
T Consensus        44 ~~~~v~el-------a~~l---~~s~s~vS~HL~~L~~aGlv~~~r~G~~~~Y~l~~~   91 (108)
T d1u2wa1          44 EELCVCDI-------ANIL---GVTIANASHHLRTLYKQGVVNFRKEGKLALYSLGDE   91 (108)
T ss_dssp             SCEEHHHH-------HHHH---TCCHHHHHHHHHHHHHTTSEEEC----CCEEEESCH
T ss_pred             CCccHHHH-------HHHH---ccChhHHHHHHHHHHHCCeeEEEEECCEEEEEECHH
Confidence            34677776       5555   457888999999999999999999999999999644

>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=87.80  E-value=0.12  Score=45.03  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.6

Q ss_pred             CeEEEEcCCCCcHHHHHHHHH
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~  170 (517)
                      .-++|.|..|+|||++++.+.
T Consensus         7 ~KilllG~~~vGKTsll~~~~   27 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMR   27 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            458999999999999999874

>d1r1ta_ a.4.5.5 (A:) SmtB repressor {Cyanobacteria (Synechococcus), pcc7942 [TaxId: 1129]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: SmtB repressor
species: Cyanobacteria (Synechococcus), pcc7942 [TaxId: 1129]

Probab=87.48  E-value=1.2  Score=33.07  Aligned_cols=54  Identities=15%  Similarity=0.204  Sum_probs=41.7

Q ss_pred             CCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCCceeEEEeecCHHHHHHHH
Q 010136          441 KDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDDKLKRVTLKADESDITFAL  506 (517)
Q Consensus       441 ~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~~~~~~~l~~~~~~i~~~l  506 (517)
                      .+.++++|       ++.++   ++.+.+...+..|.+.|||...+.|++..|+|+  .+.+...+
T Consensus        35 ~~~~v~el-------a~~l~---is~stvS~HL~~L~~aglV~~~r~G~~~~Y~l~--~~~i~~l~   88 (98)
T d1r1ta_          35 SELCVGDL-------AQAIG---VSESAVSHQLRSLRNLRLVSYRKQGRHVYYQLQ--DHHIVALY   88 (98)
T ss_dssp             CCBCHHHH-------HHHHT---CCHHHHHHHHHHHHHTTSEEEEEETTEEEEEES--SHHHHHHH
T ss_pred             CCcCHHHH-------HHHHC---cCHHHHHHHHHHHHHCCceEEEEECCEEEEEEC--hHHHHHHH
Confidence            34778777       55553   588889999999999999999899999999986  34444443

>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=87.38  E-value=0.14  Score=45.77  Aligned_cols=26  Identities=27%  Similarity=0.454  Sum_probs=21.7

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      .+..+-|.||.|+||||+++.+...+
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            45578899999999999999986543

>d2ev0a1 a.4.5.24 (A:2-62) Manganese transport regulator MntR {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Iron-dependent repressor protein
domain: Manganese transport regulator MntR
species: Bacillus subtilis [TaxId: 1423]

Probab=87.34  E-value=0.22  Score=33.72  Aligned_cols=52  Identities=8%  Similarity=0.035  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeeccCC
Q 010136          426 QILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVGRDD  488 (517)
Q Consensus       426 k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~~~~  488 (517)
                      --.|.+|+.+...+ ..++..+|       ++.+++   +...+.+++..|.+.|+|...+++
T Consensus         6 EdYLk~I~~l~~~~-~~v~~~~i-------A~~L~v---s~~SVs~mikrL~~~GlV~~~~Y~   57 (61)
T d2ev0a1           6 EDYIEQIYMLIEEK-GYARVSDI-------AEALAV---HPSSVTKMVQKLDKDEYLIYEKYR   57 (61)
T ss_dssp             HHHHHHHHHHHHHH-SSCCHHHH-------HHHHTC---CHHHHHHHHHHHHHTTSEEC----
T ss_pred             HHHHHHHHHHHhcC-CCccHHHH-------HHHhCC---CchhHHHHHHHHHHCCCEEEccCC
Confidence            35677888876543 35777766       777765   445667999999999999876443

>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {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: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=87.09  E-value=0.12  Score=49.03  Aligned_cols=44  Identities=18%  Similarity=0.290  Sum_probs=29.9

Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCeEEEEcCCCCcHHHHH
Q 010136          122 APSTIVCREDEQKKVLEFCKKNLEEEKAGSLYVCGCPGTGKSLSM  166 (517)
Q Consensus       122 ~p~~l~gRe~e~~~l~~~L~~~l~~~~~~~lli~G~pGtGKT~l~  166 (517)
                      +.+.-...++.++.+...+...+ .+....++.||+.|+|||+++
T Consensus        99 vf~~~~~Q~~Vy~~v~plv~~vl-~G~n~ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_          99 VFHPLSSQSDIFEMVSPLIQSAL-DGYNICIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             EECTTCCHHHHHTTTHHHHHHHH-TTCEEEEEEECSTTSSHHHHH
T ss_pred             EECCCCCccchHHHHHHHHHHHh-cccceeEEeeccCCCccceEe
Confidence            33333445566655555555555 456678999999999999885

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=86.95  E-value=0.081  Score=46.54  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=19.9

Q ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH
Q 010136          149 AGSLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       149 ~~~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      +...+|.|++|+|||+|++++..+
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             cceEEEECCCCccHHHHHHhhccH
Confidence            456778999999999999998644

>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=86.72  E-value=0.19  Score=44.26  Aligned_cols=22  Identities=14%  Similarity=0.363  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHY  172 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~  172 (517)
                      .+-|+|..|+||||+++.+.+.
T Consensus         3 iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4779999999999999998654

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {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: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=86.48  E-value=0.32  Score=50.18  Aligned_cols=36  Identities=31%  Similarity=0.522  Sum_probs=29.3

Q ss_pred             HHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          141 KKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       141 ~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      ...+..+...+|+|+|.+|+|||..++.+++-|...
T Consensus       117 ~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL~~~  152 (712)
T d1d0xa2         117 RSMLDDRQNQSLLITGESGAGKTENTKKVIQYLASV  152 (712)
T ss_dssp             HHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            333445678899999999999999999999887653

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=86.35  E-value=0.33  Score=49.89  Aligned_cols=34  Identities=18%  Similarity=0.418  Sum_probs=28.0

Q ss_pred             HHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          141 KKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       141 ~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ..........+|+|+|.+|+|||..++.+++-|.
T Consensus        78 ~~l~~~~~~QsIiisGeSGsGKTe~~k~il~yL~  111 (684)
T d1lkxa_          78 RSMRQSQENQCVIISGESGAGKTEASKKIMQFLT  111 (684)
T ss_dssp             HHHHHHCCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3334456788999999999999999999988775

>d1hsja1 a.4.5.28 (A:373-487) Staphylococcal accessory regulator A homolog, SarR {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarR
species: Staphylococcus aureus [TaxId: 1280]

Probab=86.12  E-value=2.9  Score=31.66  Aligned_cols=74  Identities=15%  Similarity=0.152  Sum_probs=55.4

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..+...   ....++..+|       ++.++   ++.+.+..++..|++.|+|...   .++|...+.|+
T Consensus        29 ~Lt~~q~~vL~~l~~~---~~~~~t~~el-------a~~l~---~~~~~vs~~i~~Le~~gli~r~~~~~D~R~~~i~LT   95 (115)
T d1hsja1          29 NLNYEEIYILNHILRS---ESNEISSKEI-------AKCSE---FKPYYLTKALQKLKDLKLLSKKRSLQDERTVIVYVT   95 (115)
T ss_dssp             CCCHHHHHHHHHHHTC---SCSEEEHHHH-------HHSSC---CCHHHHHHHHHHHHTTTTSCCEECCSSSSCCEEECC
T ss_pred             CCCHHHHHHHHHHHcc---CCCCcCHHHH-------HHHHC---CChhhHHHHHHHHHHcCCeEEEeecCCCceEEEEEC
Confidence            8999999998877532   2345788777       66764   4667788999999999999866   56778888887


Q ss_pred             cCHHHHHHHH
Q 010136          497 ADESDITFAL  506 (517)
Q Consensus       497 ~~~~~i~~~l  506 (517)
                      -.-.++...+
T Consensus        96 ~~G~~~~~~~  105 (115)
T d1hsja1          96 DTQKANIQKL  105 (115)
T ss_dssp             SSHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666655543

>d2d1ha1 a.4.5.50 (A:1-109) Hypothetical transcriptional regulator ST1889 {Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: TrmB-like
domain: Hypothetical transcriptional regulator ST1889
species: Sulfolobus tokodaii [TaxId: 111955]

Probab=85.85  E-value=0.51  Score=35.78  Aligned_cols=54  Identities=15%  Similarity=0.142  Sum_probs=41.8

Q ss_pred             hccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec
Q 010136          418 IKSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG  485 (517)
Q Consensus       418 i~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~  485 (517)
                      ..+|+..+..+|..+...    ..+++..+|       ++.++   ++.+.+..+++.|++.|+|...
T Consensus        16 ~~gLs~~~~~iL~~L~~~----~~~~t~~eL-------a~~~~---i~~~tvs~~l~~L~~~GlV~r~   69 (109)
T d2d1ha1          16 CYKITDTDVAVLLKMVEI----EKPITSEEL-------ADIFK---LSKTTVENSLKKLIELGLVVRT   69 (109)
T ss_dssp             HHTCCHHHHHHHHHHHHH----CSCEEHHHH-------HHHHT---CCHHHHHHHHHHHHHTTSEEEE
T ss_pred             hcCcCHHHHHHHHHHHHc----CCCCCHHHH-------HHHHC---ccHhHHHHHHHHHHHCCCEEEe
Confidence            348999999999888642    235788877       55554   5777888999999999999865

>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=85.80  E-value=0.23  Score=41.68  Aligned_cols=20  Identities=25%  Similarity=0.449  Sum_probs=17.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQ  170 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~  170 (517)
                      -++|.|..|+|||++++.+.
T Consensus         4 KivllG~~~vGKTsl~~r~~   23 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMK   23 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998864

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=85.69  E-value=1.5  Score=39.47  Aligned_cols=46  Identities=20%  Similarity=0.229  Sum_probs=29.4

Q ss_pred             cHHHHHHHHHHHHHhhcc---CCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          129 REDEQKKVLEFCKKNLEE---EKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       129 Re~e~~~l~~~L~~~l~~---~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      |..|.+-+ .||.....+   ....+.+|.=..|+|||..+-+++..+..
T Consensus        57 r~hQ~~gv-~~l~~~~~~~~~~~~~g~iLaDemGlGKT~qaia~l~~l~~  105 (298)
T d1z3ix2          57 RPHQREGV-KFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLK  105 (298)
T ss_dssp             CHHHHHHH-HHHHHHHTTSSSTTCCEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHH-HHHHHHHHhhhhccCCceEEEeCCCCCHHHHHHHHHHHHHH
Confidence            44555444 455544332   23567888889999999887776655543

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=85.67  E-value=0.36  Score=49.77  Aligned_cols=36  Identities=28%  Similarity=0.439  Sum_probs=29.4

Q ss_pred             HHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          141 KKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       141 ~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      ......+...+|+|.|.+|+|||..++.+++-|...
T Consensus        83 ~~m~~~~~~Q~IiisGeSGaGKTe~~k~il~yL~~~  118 (710)
T d1br2a2          83 RSMLQDREDQSILCTGESGAGKTENTKKVIQYLAVV  118 (710)
T ss_dssp             HHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            333445678899999999999999999999988643

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.43  E-value=0.4  Score=45.79  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             CCCeEEEEcCCCCcHHHHHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~~v~~  171 (517)
                      .+-+|.|.|.||+|||++++++..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999999863

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=85.33  E-value=0.36  Score=50.41  Aligned_cols=36  Identities=22%  Similarity=0.462  Sum_probs=29.2

Q ss_pred             HHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHHH
Q 010136          141 KKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVDW  176 (517)
Q Consensus       141 ~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~~  176 (517)
                      ......+...+|+|+|.+|+|||..++.+++-|...
T Consensus       115 ~~m~~~~~~QsIiisGeSGaGKTe~~K~il~yL~~~  150 (794)
T d2mysa2         115 QFMLTDRENQSILITGESGAGKTVNTKRVIQYFATI  150 (794)
T ss_dssp             HHHHHHTCCEEEEEEECTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCcEEEEEcCCCCCHHHHHHHHHHHHHHH
Confidence            333445678899999999999999999999888643

>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=85.10  E-value=0.077  Score=44.95  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYL  173 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l  173 (517)
                      ..+|+|+.|+|||+++.++.-.|
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            45688999999999999997655

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.91  E-value=0.25  Score=39.30  Aligned_cols=37  Identities=16%  Similarity=0.060  Sum_probs=24.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      --+|+||-.+|||+-+-..+.....    .+   -.++.++...
T Consensus         4 L~li~GpMfsGKTt~Li~~~~~~~~----~g---~~v~~ikp~~   40 (133)
T d1xbta1           4 IQVILGPMFSGKSTELMRRVRRFQI----AQ---YKCLVIKYAK   40 (133)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHT----TT---CCEEEEEETT
T ss_pred             EEEEEecccCHHHHHHHHHHHHHHH----cC---CcEEEEeccc
Confidence            3468899999999977666654432    22   2466666543

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=84.75  E-value=0.38  Score=50.26  Aligned_cols=36  Identities=25%  Similarity=0.414  Sum_probs=29.2

Q ss_pred             HHHhhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          140 CKKNLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       140 L~~~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      .......+...+|+|+|.+|+|||..++.+++-|..
T Consensus       112 y~~m~~~~~nQ~IiisGESGaGKTe~~K~il~yL~~  147 (789)
T d1kk8a2         112 YQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAK  147 (789)
T ss_dssp             HHHHHHHTSEEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            333444567789999999999999999999988764

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=84.43  E-value=0.45  Score=49.28  Aligned_cols=33  Identities=27%  Similarity=0.476  Sum_probs=27.8

Q ss_pred             hhccCCCCeEEEEcCCCCcHHHHHHHHHHHHHH
Q 010136          143 NLEEEKAGSLYVCGCPGTGKSLSMEKVQHYLVD  175 (517)
Q Consensus       143 ~l~~~~~~~lli~G~pGtGKT~l~~~v~~~l~~  175 (517)
                      ....+.+.+|+|+|.+|+|||..++.+++-|..
T Consensus        88 l~~~~~~Q~IiisGeSGsGKTe~~k~il~~l~~  120 (730)
T d1w7ja2          88 MARDERNQSIIVSGESGAGKTVSAKYAMRYFAT  120 (730)
T ss_dssp             HHHHTCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             HHHhCCCeEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            344467889999999999999999999887754

>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=84.05  E-value=0.18  Score=46.90  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .|+|-|+-|+||||+++.+.+.+.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             EEEEECCccCCHHHHHHHHHHHhc
Confidence            588999999999999999988764

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=83.83  E-value=0.25  Score=45.33  Aligned_cols=20  Identities=25%  Similarity=0.315  Sum_probs=17.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~  167 (517)
                      .+...+++|.+|||||||..
T Consensus        13 ~~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          13 EGDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             TCCEEEEEECTTSCHHHHTC
T ss_pred             CCCEEEEEccCCCCcccccc
Confidence            35678999999999999864

>d1lnwa_ a.4.5.28 (A:) MexR repressor {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: MexR repressor
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=82.28  E-value=3.1  Score=32.61  Aligned_cols=71  Identities=11%  Similarity=0.099  Sum_probs=51.2

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..|..     ..+++..++       |+.+   .++.+.+..+++.|++.|+|...   .++|...+.|.
T Consensus        33 ~lt~~q~~vL~~l~~-----~~~~t~~~l-------a~~l---~~~~~~vsr~l~~L~~~G~v~r~~~~~D~R~~~l~lT   97 (141)
T d1lnwa_          33 DLTPPDVHVLKLIDE-----QRGLNLQDL-------GRQM---CRDKALITRKIRELEGRNLVRRERNPSDQRSFQLFLT   97 (141)
T ss_dssp             CCCHHHHHHHHHHHS-----STTCBHHHH-------HHHT---TCCHHHHHHHHHHHHHTTSEEEEECSSSSSSEEEEEC
T ss_pred             CCCHHHHHHHHHHHH-----CCCCCHHHH-------HHHH---CccHhHHHHHHHHHHHhhceeeeccCCCCcchhhccC
Confidence            789999999987742     334788877       6565   45778899999999999999876   45666666665


Q ss_pred             cCHHHHHHH
Q 010136          497 ADESDITFA  505 (517)
Q Consensus       497 ~~~~~i~~~  505 (517)
                      -.-.++...
T Consensus        98 ~~G~~~~~~  106 (141)
T d1lnwa_          98 DEGLAIHQH  106 (141)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>d2frha1 a.4.5.28 (A:102-216) Pleiotropic regulator of virulence genes, SarA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Pleiotropic regulator of virulence genes, SarA
species: Staphylococcus aureus [TaxId: 1280]

Probab=82.09  E-value=2.1  Score=32.49  Aligned_cols=72  Identities=8%  Similarity=0.104  Sum_probs=51.6

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..+...   ....++..+|       |+.++   ++...+..++..|+..|+|...   .++|...|.|+
T Consensus        30 ~Ls~~q~~vL~~l~~~---~~~~~t~~~l-------a~~l~---~~~~tvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT   96 (115)
T d2frha1          30 SISFEEFAVLTYISEN---KEKEYYLKDI-------INHLN---YKQPQVVKAVKILSQEDYFDKKRNEHDERTVLILVN   96 (115)
T ss_dssp             CCCHHHHHHHHHHHHT---CCSEEEHHHH-------HHHSS---SHHHHHHHHHHHHHHTTSSCCBCCSSSSCCCEEECC
T ss_pred             CCCHHHHHHHHHHHcC---CCCCCCHHHH-------HHHHC---CCHhHHHHHHHHHHhhhhheeeecccCCceEEEEEC
Confidence            7999999998766532   2344777766       66664   5667788999999999999876   45566677776


Q ss_pred             cCHHHHHH
Q 010136          497 ADESDITF  504 (517)
Q Consensus       497 ~~~~~i~~  504 (517)
                      -.-.++..
T Consensus        97 ~~G~~~~~  104 (115)
T d2frha1          97 AQQRKKIE  104 (115)
T ss_dssp             SHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555443

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [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: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=81.78  E-value=4.2  Score=34.03  Aligned_cols=24  Identities=17%  Similarity=0.209  Sum_probs=20.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      ++.+.|-++.|||||+.++...+.
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~~~~   28 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITKILA   28 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHHH
Confidence            688999999999999999976544

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=81.65  E-value=0.37  Score=43.92  Aligned_cols=20  Identities=30%  Similarity=0.348  Sum_probs=16.8

Q ss_pred             CCCeEEEEcCCCCcHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~  167 (517)
                      .+...+++|.+|||||||..
T Consensus        13 ~~~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          13 KGDVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             TSCEEEEECSTTSSHHHHHC
T ss_pred             CCCEEEEEccCCCCccccee
Confidence            45678999999999999863

>d2fxaa1 a.4.5.28 (A:6-167) Protease production regulatory protein Hpr {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Protease production regulatory protein Hpr
species: Bacillus subtilis [TaxId: 1423]

Probab=81.58  E-value=3.9  Score=33.04  Aligned_cols=69  Identities=17%  Similarity=0.338  Sum_probs=46.9

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..+...     ..+++.+|       |+..   -++...+..++..|++.|+|...   .+.|...+.|+
T Consensus        38 ~Lt~~q~~vL~~l~~~-----~~~t~~~l-------a~~~---~l~~~tvs~~i~rL~~~gli~r~~~~~D~R~~~l~lT  102 (162)
T d2fxaa1          38 DLNINEHHILWIAYQL-----NGASISEI-------AKFG---VMHVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLT  102 (162)
T ss_dssp             TCCHHHHHHHHHHHHH-----TSEEHHHH-------HHHT---TCCHHHHHHHHHHHHHHTSEEEECC------CEEEEC
T ss_pred             CCCHHHHHHHhhhccC-----CCcCHHHH-------HHHH---cCCchhhHHHHHHHHHCCCceeecccccCeeeeeccC
Confidence            7999999998877642     24677766       6666   45777888999999999999876   35566666664


Q ss_pred             cCHHHHH
Q 010136          497 ADESDIT  503 (517)
Q Consensus       497 ~~~~~i~  503 (517)
                      -.-.++.
T Consensus       103 ~~G~~~~  109 (162)
T d2fxaa1         103 EEGTEVF  109 (162)
T ss_dssp             HHHHHHH
T ss_pred             HhHHHHH
Confidence            4333333

>d3broa1 a.4.5.28 (A:3-137) Transcriptional regulator OEOE1854 {Oenococcus oeni [TaxId: 1247]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator OEOE1854
species: Oenococcus oeni [TaxId: 1247]

Probab=81.55  E-value=3.7  Score=31.74  Aligned_cols=64  Identities=13%  Similarity=0.106  Sum_probs=48.2

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..+...   +...++..+|       ++..   -++.+.+..+++.|++.|+|...   .++|...+.|+
T Consensus        26 glt~~q~~vL~~l~~~---~~~~it~~el-------a~~~---~~~~~~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT   92 (135)
T d3broa1          26 DLTGTQMTIIDYLSRN---KNKEVLQRDL-------ESEF---SIKSSTATVLLQRMEIKKLLYRKVSGKDSRQKCLKLT   92 (135)
T ss_dssp             TCCHHHHHHHHHHHHT---TTSCCBHHHH-------HHHH---TCCHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEEC
T ss_pred             CCCHHHHHHHHHHHHc---CCCCCCHHHH-------HHHH---CcCHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccc
Confidence            7999999999877642   3356888887       4444   35777888999999999999866   45566666664

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=81.53  E-value=0.39  Score=43.98  Aligned_cols=20  Identities=25%  Similarity=0.320  Sum_probs=17.0

Q ss_pred             CCCeEEEEcCCCCcHHHHHH
Q 010136          148 KAGSLYVCGCPGTGKSLSME  167 (517)
Q Consensus       148 ~~~~lli~G~pGtGKT~l~~  167 (517)
                      .+...+++|.+|||||||..
T Consensus        13 ~gd~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          13 QGDVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             TCCEEEEECCTTSSHHHHHC
T ss_pred             CCCEEEEEccCCCCccccee
Confidence            45678899999999999973

>d1dp7p_ a.4.5.20 (P:) Class II MHC transcription factor RFX1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: P4 origin-binding domain-like
domain: Class II MHC transcription factor RFX1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.49  E-value=1.1  Score=31.52  Aligned_cols=35  Identities=17%  Similarity=0.309  Sum_probs=30.5

Q ss_pred             CccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHH
Q 010136          442 DMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVL  476 (517)
Q Consensus       442 ~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L  476 (517)
                      .+.-.+||+.|...|++.++.|++...|..++...
T Consensus        16 svpR~~lY~~Y~~~C~~~~~~~l~~a~FgKliR~v   50 (76)
T d1dp7p_          16 SLPRSTLYNHYLLHSQEQKLEPVNAASFGKLIRSV   50 (76)
T ss_dssp             EEEHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHcCCcccCHHHHHHHHHHH
Confidence            46778999999999999999999999998877643

>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=81.43  E-value=0.43  Score=42.59  Aligned_cols=38  Identities=21%  Similarity=0.404  Sum_probs=30.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      .|.|+|.-|+||||++-.++..|...    |   .+++-|++-..
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~----G---~rVllID~D~q   40 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAM----G---KTIMVVGCDPK   40 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTT----T---CCEEEEEECTT
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhC----C---CcEEEEecCCC
Confidence            46789999999999999999888642    3   35788887643

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=81.43  E-value=0.39  Score=39.98  Aligned_cols=21  Identities=19%  Similarity=0.222  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQH  171 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~  171 (517)
                      ++-|.|.|++|||||++++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            688999999999999999863

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

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: Clostridium acetobutylicum [TaxId: 1488]

Probab=81.03  E-value=0.31  Score=39.15  Aligned_cols=38  Identities=13%  Similarity=-0.069  Sum_probs=25.4

Q ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCC
Q 010136          150 GSLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTS  194 (517)
Q Consensus       150 ~~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~  194 (517)
                      .-=+|+||-.+|||+-+-..+..+..    .+   ..++.++...
T Consensus         8 ~l~lI~GpMfSGKTteLi~~~~~~~~----~g---~~vl~i~~~~   45 (141)
T d1xx6a1           8 WVEVIVGPMYSGKSEELIRRIRRAKI----AK---QKIQVFKPEI   45 (141)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH----TT---CCEEEEEEC-
T ss_pred             eEEEEEeccccHHHHHHHHHHHHhhh----cC---CcEEEEEecc
Confidence            34568999999999988777766543    22   2466666543

>d1p4xa1 a.4.5.28 (A:1-125) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=80.93  E-value=1.4  Score=34.20  Aligned_cols=66  Identities=9%  Similarity=0.131  Sum_probs=46.9

Q ss_pred             ccCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEe
Q 010136          419 KSLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTL  495 (517)
Q Consensus       419 ~~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l  495 (517)
                      .+|+..|-.+|..+...   ...++++.+|       ++.+++   +...+..++..|+..|+|...   .+.|...+.|
T Consensus        30 ~~Lt~~q~~iL~~l~~~---~~~~~t~~ei-------a~~~~~---~~~~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~l   96 (125)
T d1p4xa1          30 VDMTIKEFILLTYLFHQ---QENTLPFKKI-------VSDLCY---KQSDLVQHIKVLVKHSYISKVRSKIDERNTYISI   96 (125)
T ss_dssp             CSSCHHHHHHHHHHHSC---SCSEEEHHHH-------HHHSSS---CGGGTHHHHHHHHHTTSCEEEECSSSTTSEEEEC
T ss_pred             cCCCHHHHHHHHHHHHh---ccCCcCHHHH-------HHHhCC---CcchHHHHHHHHHHCCCceeecccCCCCeEEEEE
Confidence            37999999999877532   3346788766       666654   444556899999999999876   3456656666


Q ss_pred             ec
Q 010136          496 KA  497 (517)
Q Consensus       496 ~~  497 (517)
                      +-
T Consensus        97 T~   98 (125)
T d1p4xa1          97 SE   98 (125)
T ss_dssp             CH
T ss_pred             CH
Confidence            43

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=80.70  E-value=0.57  Score=42.28  Aligned_cols=38  Identities=24%  Similarity=0.424  Sum_probs=29.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLVDWAKEAGLQQPEVFSINCTSL  195 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~~~~~~~~~~~~~~v~vn~~~~  195 (517)
                      .|.|+|.-|+||||++-.++..|...    |   .+++-|++-..
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~~----G---~rVLlID~DpQ   41 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAEM----G---KKVMIVGCDPK   41 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHT----T---CCEEEEEECSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC----C---CCEEEEecCCC
Confidence            46679999999999999999888653    3   35788887653

>d1jgsa_ a.4.5.28 (A:) Multiple antibiotic resistance repressor, MarR {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Multiple antibiotic resistance repressor, MarR
species: Escherichia coli [TaxId: 562]

Probab=80.29  E-value=6.6  Score=30.44  Aligned_cols=68  Identities=24%  Similarity=0.115  Sum_probs=49.4

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..+...     +.++..++       |+.++   ++...+..++..|+..|+|...   .++|.+.+.|+
T Consensus        31 ~Lt~~q~~vL~~l~~~-----~~~t~~el-------a~~~~---i~~~~vs~~v~~L~~~glv~r~~~~~D~R~~~i~lT   95 (138)
T d1jgsa_          31 DITAAQFKVLCSIRCA-----ACITPVEL-------KKVLS---VDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLT   95 (138)
T ss_dssp             TSCHHHHHHHHHHHHH-----SSBCHHHH-------HHHHT---CCHHHHHHHHHHHHHTTSEEEEECTTCSSCEEEEEC
T ss_pred             CCCHHHHHHHHhHHhC-----cCCCHHHH-------HHHHC---CCHhHHHHHHHHHhhCCCEEEeeccCCCCeeEEEEC
Confidence            7999998988877542     24677766       66664   4777888999999999999865   45666677775


Q ss_pred             cCHHHH
Q 010136          497 ADESDI  502 (517)
Q Consensus       497 ~~~~~i  502 (517)
                      -.-.++
T Consensus        96 ~~G~~~  101 (138)
T d1jgsa_          96 TGGAAI  101 (138)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            443333

>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=80.22  E-value=0.25  Score=45.84  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=21.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH
Q 010136          151 SLYVCGCPGTGKSLSMEKVQHYLV  174 (517)
Q Consensus       151 ~lli~G~pGtGKT~l~~~v~~~l~  174 (517)
                      .|+|-|+-|+||||+++.+.+.+.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~   30 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFA   30 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            378999999999999999988764

>d1p4xa2 a.4.5.28 (A:126-250) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=80.19  E-value=2.7  Score=32.47  Aligned_cols=69  Identities=16%  Similarity=0.128  Sum_probs=49.1

Q ss_pred             cCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHhhcCceeec---cCCceeEEEee
Q 010136          420 SLPQHQQILLCSAVKFFRGGKKDMTVGELNKSYMNICKTSLIPPVGTLEFFSMCRVLHDQGVLKVG---RDDKLKRVTLK  496 (517)
Q Consensus       420 ~L~~~~k~iL~al~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~~~L~~~glI~~~---~~~~~~~~~l~  496 (517)
                      +|+..|-.+|..+...   +...+++.+|       |+..+   ++...+..+++.|++.|+|...   .++|...+.|+
T Consensus        30 ~Ls~~q~~vL~~l~~~---~~~~~~~~~i-------a~~l~---~~~~~vs~~v~~L~~~glV~r~~~~~D~R~v~i~LT   96 (125)
T d1p4xa2          30 TLSFVEFTILAIITSQ---NKNIVLLKDL-------IETIH---HKYPQTVRALNNLKKQGYLIKERSTEDERKILIHMD   96 (125)
T ss_dssp             SSCHHHHHHHHHHHTT---TTCCEEHHHH-------HHHSS---SCHHHHHHHHHHHHHHTSSEEEECSSSTTCEEEECC
T ss_pred             CCCHHHHHHHHHHHHc---cCCCccHHHH-------HHHHC---CCcchHHHHHHHHHhccCEeeeecCCCCCeEEEEEC
Confidence            8999999999876532   3345788777       66664   5677888999999999999866   45565556654


Q ss_pred             cCHHH
Q 010136          497 ADESD  501 (517)
Q Consensus       497 ~~~~~  501 (517)
                      -.-.+
T Consensus        97 ~~G~~  101 (125)
T d1p4xa2          97 DAQQD  101 (125)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            33333