Citrus Sinensis ID: 004103

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------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-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770---
MISLFCFLCCKKQWLCPMKFLLSFSSAIVLEWQNLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMDEERRQKENYRSRLMEDHEVPEWAYSAPDNKEEQKGFEKGFGHESSSITGKRKRKEVVYADTLSDLQWMKAVENGQDISKLSTRGKRREYLPSEGNESASNSTGAEKKNLDMKNEIFPLASEGTSEDTFGSAPKRLRFERRNSESSDIQSVEKSEHKGVQGSGLNGHILTWNTHRKKRSSYVVQTSSSDSRGQNSNGRGNGWS
ccccEEEEEcccccccccHHHccccHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHcccccEEcccccccHHHHHHHHHHHHHHHccccccEEEEEEcccHHHHHHHHHHccccccEEEEEccHHHHHHHHHHHHcccccccEEEcHHHHHHHHHccccccccEEEEEEccccccccccHHHHHHHccccccEEEEccccccccHHHHHHHHHcccccccccHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHcccccccEEEEEEcccHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHccccccccccccccccHHHHHHccHHHHHHHHHHHHHHcccEEEEEHHHHHHHHHHHHHHHcccccEEEccccccHHHHHHHHHHHccccccccEEEEcccccccccccccccEEEEEcccccHHHHHHHHHHHHHccccccEEEEEEEEcccHHHHHHHHHHHHHcHHHHHHHcccccccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccHHHHHHHHHcccccHHHHHccccccccccccccccccccHHHHHccccccccccccccccccccccccccHHHHHHccccccccccHHHHHccccccccccccccccccccccccccEEEccccccccccccccccccc
cEEEEEEHHcccccccccccccccccHccccccccccccEEEEEEcccHHHcccccHHHHHHHHHHHHHHHHccccHHHHHHcccHHHHHHHHHHHHHHHHccccccEEEEEEccHHHHHHHHHHHHcccEEEEEEcccHHHHHHHHHHHHccccccEEEEEEHHHHHHcHHHHHHHHEEEEEEccccHccccHHHHHHHHHHcccccEEEEcccHcHccHHHHHHHHHHHcHHHHcccccHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEcHHHHHHHHHHHHHHcccEEEcccccccHHHHHHHHHHHHHcccccccccccccccccHHHHHccHHHHHHHHHHHHHHcccEEEEEHHHHHHHHHHHHHHHHcccEEEEEcccccHHHHHHHHHHHccccccEEEEEEEccccccccccccccEEEEEEcccccHHHHHHHHHHHHHcccccEEEEEEEEcccHHHHHHHHHHHHccccHHEEEcccccccccHHHHHHHHHHHHHHcHHHHccccccHHHHHHHHHccHHHHHHHHHHHHHHHHccccccccccccccccHEEccccHHHHHHHHHHHHcHHHcccccccEEEEEEccccccHHHHHHHHcccccccHHHHHHHHHHHHHHccHHccccccccccccccccccccccccccccHHccccccccccHHHccccccccccccHccccccccccccccEEcccccccccccccccccccccccccccccccccc
MISLFCFLCckkqwlcpmkflLSFSSAIVLEWQNltrsfilpqvteqptllqggeLRAYQLEGLQWMLSLFNNNLNgilademglgktIQTIALIAYLLenkgvtgphvivapkavlpnwinefstwaPSIAAvvydgrpdeRKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEwfnapfkdrgqvaltdEEQLLIIRRLHHVIRpfilrrkkdevekylpgksqvILKCDMSAWQKVYYQQVTDVgrvgldtgtgkskSLQNLSMQLRkccnhpylfvgeynmWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLndfkflrldgstkteeRGTLlkqfnapdspyFMFLLSTRagglglnlqtadtviifdsdwnpqmdQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNTTSTAQDRREMLKEIMRRgtsslgtdvpserEINRLAARSDEEFWLFEKMDEERRQKENYRSRlmedhevpewaysapdnkeeqkgfekgfghesssitgkrkrkEVVYADTLSDLQWMKAVENgqdisklstrgkrreylpsegnesasnstgaekknldmkneifplasegtsedtfgsapkrlrferrnsessdiqsveksehkgvqgsglnghILTWNTHRKKRSSYVVqtsssdsrgqnsngrgngws
MISLFCFLCCKKQWLCPMKFLLSFSSAIVLEWQNLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREeffsergrfnvLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRlhhvirpfilrrkkdevekylpgksqviLKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKteergtllkqfnapdSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRahrigqkkevRVFVLVSVGSIEEVILERAKQKMGIDAKViqaglfnttstaqDRREMLKEIMRrgtsslgtdvpsereinrlaarsdeefwlfekmdeerrQKENyrsrlmedhevpewaysapdnKEEQKGFEKgfghesssitgkrkrkEVVYADTLsdlqwmkavengqdisklstrgkrreylpsegnesasnstgaekknlDMKNEIFPlasegtsedtfgsapkrlrferrnsessdiqsveksehkgvqgsglngHILTWNTHRKKRSSYvvqtsssdsrgqnsngrgngws
MISLFCFLCCKKQWLCPMKFLLSFSSAIVLEWQNLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMDEERRQKENYRSRLMEDHEVPEWAYSAPDNKEEQKGFEKGFGHESSSITGKRKRKEVVYADTLSDLQWMKAVENGQDISKLSTRGKRREYLPSEGNESASNSTGAEKKNLDMKNEIFPLASEGTSEDTFGSAPKRLRFERRNSESSDIQSVEKSEHKGVQGSGLNGHILTWNTHRKKRssyvvqtsssdsrgqnsngrgngws
**SLFCFLCCKKQWLCPMKFLLSFSSAIVLEWQNLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGR*******REEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGK*KSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWN*************IGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNT******************************************FWLF***********************************************************VVYADTLSDLQWMKA**********************************************************************************************GHILTWN*******************************
MISLFCFLCCKKQWL****************************VTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDR*******EEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGR***********SLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVI*********************MRRGT********SEREINRLAARSDEEFWL******************MEDHEVPEWAYSAPDNKE**********************KEVVYADTLSDL*****************************************************************************************************************************************
MISLFCFLCCKKQWLCPMKFLLSFSSAIVLEWQNLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMDEERRQKENYRSRLMEDHEVPEWAYSAPD**************************EVVYADTLSDLQWMKAVENGQDISKLSTRGKRRE*****************KKNLDMKNEIFPLASEGTSEDTFGSAPKRLRFE*********************GSGLNGHILTWNTHR****************************
MISLFCFLCCKKQWLCPMKFLLSFSSAIVLEWQNLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMDEERRQKENYRSRLMEDHEVPEWAYSAPDNKEEQKGFEKGFGHE*SSITGKRKRKEVVYADTLSDLQWMKAVENG**************************************************************************************************HR****************************
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SSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MISLFCFLCCKKQWLCPMKFLLSFSSAIVLEWQNLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMDEERRQKENYRSRLMEDHEVPEWAYSAPDNKEEQKGFEKGFGHESSSITGKRKRKEVVYADTLSDLQWMKAVENGQDISKLSTRGKRREYLPSEGNESASNSTGAEKKNLDMKNEIFPLASEGTSEDTFGSAPKRLRFERRNSESSDIQSVEKSEHKGVQGSGLNGHILTWNTHRKKRSSYVVQTSSSDSRGQNSNGRGNGWS
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query773 2.2.26 [Sep-21-2011]
Q6DIC0 1577 Probable global transcrip yes no 0.767 0.376 0.520 1e-180
P51531 1590 Probable global transcrip yes no 0.767 0.372 0.520 1e-180
A7Z019 1606 Transcription activator B no no 0.815 0.392 0.505 1e-179
Q3TKT4 1613 Transcription activator B no no 0.761 0.365 0.528 1e-179
Q8K1P7 1613 Transcription activator B no no 0.761 0.365 0.528 1e-179
P51532 1647 Transcription activator B no no 0.761 0.357 0.505 1e-179
P22082 1703 Transcription regulatory yes no 0.883 0.401 0.454 1e-177
P25439 1638 ATP-dependent helicase br yes no 0.768 0.362 0.497 1e-176
Q9UTN61199 Chromatin structure-remod yes no 0.820 0.528 0.466 1e-169
O944211680 SWI/SNF chromatin-remodel no no 0.706 0.325 0.513 1e-167
>sp|Q6DIC0|SMCA2_MOUSE Probable global transcription activator SNF2L2 OS=Mus musculus GN=Smarca2 PE=1 SV=1 Back     alignment and function desciption
 Score =  632 bits (1630), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 329/632 (52%), Positives = 434/632 (68%), Gaps = 39/632 (6%)

Query: 43   QVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENK 102
            +V +Q  LL  G L+ YQL+GL+WM+SL+NNNLNGILADEMGLGKTIQTIALI YL+E+K
Sbjct: 716  RVEKQSALLINGTLKHYQLQGLEWMVSLYNNNLNGILADEMGLGKTIQTIALITYLMEHK 775

Query: 103  GVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLIT 162
             + GP++I+ P + L NW  EF  WAPS+  + Y G P  R+++  +  S  G+FNVL+T
Sbjct: 776  RLNGPYLIIVPLSTLSNWTYEFDKWAPSVVKISYKGTPAMRRSLVPQLRS--GKFNVLLT 833

Query: 163  HYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTI-SGYQIQRRLLLTGTPIQNSL 221
             Y+ I++D+  L K++W YMIVDEGHR+KNH C L + + + Y   RR+LLTGTP+QN L
Sbjct: 834  TYEYIIKDKHILAKIRWKYMIVDEGHRMKNHHCKLTQVLNTHYVAPRRILLTGTPLQNKL 893

Query: 222  QELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQ-VALTDEEQLLIIRRLHHVIRPFILR 280
             ELW+LLNFLLPTIF S   FE+WFNAPF   G+ V L +EE +LIIRRLH V+RPF+LR
Sbjct: 894  PELWALLNFLLPTIFKSCSTFEQWFNAPFAMTGERVDLNEEETILIIRRLHKVLRPFLLR 953

Query: 281  RKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTG------TGKSKSLQNL 334
            R K EVE  LP K + ++KCDMSA QK+ Y+ +   G +  D         G +K+L N 
Sbjct: 954  RLKKEVESQLPEKVEYVIKCDMSALQKILYRHMQAKGILLTDGSEKDKKGKGGAKTLMNT 1013

Query: 335  SMQLRKCCNHPYLF----------VGEYN-MWRKEEIIRASGKFELLDRLLPKLRKSGHR 383
             MQLRK CNHPY+F          +G  N +    E+ RASGKFELLDR+LPKLR + HR
Sbjct: 1014 IMQLRKICNHPYMFQHIEESFAEHLGYSNGVINGAELYRASGKFELLDRILPKLRATNHR 1073

Query: 384  VLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRA 443
            VLLF QMT LM I+E Y    +F +LRLDG+TK+E+R  LLK+FN P S YF+FLLSTRA
Sbjct: 1074 VLLFCQMTSLMTIMEDYFAFRNFLYLRLDGTTKSEDRAALLKKFNEPGSQYFIFLLSTRA 1133

Query: 444  GGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERA 503
            GGLGLNLQ ADTV+IFDSDWNP  D QA+DRAHRIGQ+ EVRV  L +V S+EE IL  A
Sbjct: 1134 GGLGLNLQAADTVVIFDSDWNPHQDLQAQDRAHRIGQQNEVRVLRLCTVNSVEEKILAAA 1193

Query: 504  KQKMGIDAKVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSERE-INRLAARSDE 562
            K K+ +D KVIQAG+F+  S++ +RR  L+ I+     +   D   + E +N++ AR +E
Sbjct: 1194 KYKLNVDQKVIQAGMFDQKSSSHERRAFLQAILEHEEENEEEDEVPDDETLNQMIARREE 1253

Query: 563  EFWLFEKMDEERRQKE----NYRSRLMEDHEVPEWAYSAPDNKEEQK-----GFEKGFGH 613
            EF LF +MD +RR+++      + RLME+ E+P W     D+ E ++       EK FG 
Sbjct: 1254 EFDLFMRMDMDRRREDARNPKRKPRLMEEDELPSWIIK--DDAEVERLTCEEEEEKIFGR 1311

Query: 614  ESSSITGKRKRKEVVYADTLSDLQWMKAVENG 645
                  G R+R++V Y+D L++ QW++A+E+G
Sbjct: 1312 ------GSRQRRDVDYSDALTEKQWLRAIEDG 1337
Transcriptional coactivator cooperating with nuclear hormone receptors to potentiate transcriptional activation. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene (By similarity). Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: -
>sp|P51531|SMCA2_HUMAN Probable global transcription activator SNF2L2 OS=Homo sapiens GN=SMARCA2 PE=1 SV=2 Back     alignment and function description
>sp|A7Z019|SMCA4_BOVIN Transcription activator BRG1 OS=Bos taurus GN=SMARCA4 PE=2 SV=1 Back     alignment and function description
>sp|Q3TKT4|SMCA4_MOUSE Transcription activator BRG1 OS=Mus musculus GN=Smarca4 PE=1 SV=1 Back     alignment and function description
>sp|Q8K1P7|SMCA4_RAT Transcription activator BRG1 OS=Rattus norvegicus GN=Smarca4 PE=1 SV=1 Back     alignment and function description
>sp|P51532|SMCA4_HUMAN Transcription activator BRG1 OS=Homo sapiens GN=SMARCA4 PE=1 SV=2 Back     alignment and function description
>sp|P22082|SNF2_YEAST Transcription regulatory protein SNF2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SNF2 PE=1 SV=1 Back     alignment and function description
>sp|P25439|BRM_DROME ATP-dependent helicase brm OS=Drosophila melanogaster GN=brm PE=1 SV=2 Back     alignment and function description
>sp|Q9UTN6|SNF21_SCHPO Chromatin structure-remodeling complex subunit snf21 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=snf21 PE=1 SV=1 Back     alignment and function description
>sp|O94421|SNF22_SCHPO SWI/SNF chromatin-remodeling complex subunit snf22 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=snf22 PE=1 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query773
359477501 1114 PREDICTED: transcription regulatory prot 0.928 0.644 0.824 0.0
297737012 1110 unnamed protein product [Vitis vinifera] 0.927 0.645 0.824 0.0
224099763 1131 chromatin remodeling complex subunit [Po 0.943 0.644 0.793 0.0
224111230 1132 chromatin remodeling complex subunit [Po 0.943 0.643 0.789 0.0
356534230 1072 PREDICTED: transcription regulatory prot 0.924 0.666 0.787 0.0
356541302 1063 PREDICTED: transcription regulatory prot 0.909 0.661 0.794 0.0
356574396 1073 PREDICTED: transcription regulatory prot 0.923 0.665 0.788 0.0
357480785 1063 Chromatin remodeling complex subunit [Me 0.930 0.676 0.770 0.0
357444343 1083 Chromatin remodeling complex subunit [Me 0.927 0.662 0.764 0.0
449444997 1092 PREDICTED: transcription regulatory prot 0.922 0.652 0.779 0.0
>gi|359477501|ref|XP_002281240.2| PREDICTED: transcription regulatory protein SNF2-like [Vitis vinifera] Back     alignment and taxonomy information
 Score = 1238 bits (3204), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 607/736 (82%), Positives = 665/736 (90%), Gaps = 18/736 (2%)

Query: 40   ILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLL 99
            I  +VTEQP +LQGGELR YQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTI+LIAYL+
Sbjct: 395  IQEKVTEQPAMLQGGELRPYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTISLIAYLV 454

Query: 100  ENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNV 159
            ENKGVTGPH+IVAPKAVLPNW+NEFSTWAPSIAAV+YDGR DERKA+REE   E G+FNV
Sbjct: 455  ENKGVTGPHLIVAPKAVLPNWVNEFSTWAPSIAAVLYDGRLDERKALREEISGE-GKFNV 513

Query: 160  LITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKT-ISGYQIQRRLLLTGTPIQ 218
            LITHYDLIMRD+ +LKK+ W YMIVDEGHRLKNHECALA+T +SGYQIQRRLLLTGTPIQ
Sbjct: 514  LITHYDLIMRDKAFLKKIDWHYMIVDEGHRLKNHECALARTLVSGYQIQRRLLLTGTPIQ 573

Query: 219  NSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFI 278
            NSLQELWSLLNFLLP+IFNSV NFEEWFNAPF DR  V+LTDEE+LLII RLHHVIRPFI
Sbjct: 574  NSLQELWSLLNFLLPSIFNSVTNFEEWFNAPFADRSDVSLTDEEELLIIHRLHHVIRPFI 633

Query: 279  LRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQL 338
            LRRKKDEVEKYLPGK+QVILKCDMSAWQK YY QVTD+GRVGLDTG+GKSKSLQNLSMQL
Sbjct: 634  LRRKKDEVEKYLPGKTQVILKCDMSAWQKAYYHQVTDLGRVGLDTGSGKSKSLQNLSMQL 693

Query: 339  RKCCNHPYLFVGEYNMW-RKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDIL 397
            RKCCNHPYLFVG+YN+W +KEE++RASGKFELLDRLLPKL+K+GHRVLLFSQMTRLMDIL
Sbjct: 694  RKCCNHPYLFVGDYNIWQKKEEMVRASGKFELLDRLLPKLQKAGHRVLLFSQMTRLMDIL 753

Query: 398  EIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVI 457
            EIYL++N+ K+LRLDGSTKTEERGT LKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVI
Sbjct: 754  EIYLQMNEIKYLRLDGSTKTEERGTKLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVI 813

Query: 458  IFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAG 517
            IFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAG
Sbjct: 814  IFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAG 873

Query: 518  LFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMDEERRQK 577
            LFNTTSTAQDRREML+EIMRRGT+SLG DVPSEREINRLAARSDEEFW+FEKMDEERRQK
Sbjct: 874  LFNTTSTAQDRREMLEEIMRRGTNSLGADVPSEREINRLAARSDEEFWMFEKMDEERRQK 933

Query: 578  ENYRSRLMEDHEVPEWAYSAPDNKEEQKGFEKGFGHESSSITGKRKRKEVVYADTLSDLQ 637
            ENYRSRLME+HEVPEWAYS PD KEE+    KGF H++S ITGKR+RKEVVYAD+LSDLQ
Sbjct: 934  ENYRSRLMEEHEVPEWAYSTPDGKEEKS---KGFEHDASKITGKRRRKEVVYADSLSDLQ 990

Query: 638  WMKAVENGQDISKLSTRGKRREYLPSEGNESASNSTGAEKKNLDMKNEIFPLASEGTSED 697
            WMKAVE+G+DIS+LS +GKRRE+LPSE NES S+  G E+K L++++E   + SEGTSED
Sbjct: 991  WMKAVESGEDISRLSVKGKRREHLPSEANESDSDKIGGEQKVLELRSENVSMTSEGTSED 1050

Query: 698  TFGSAPKRLRFERRNSESSDIQSVEKSEHKGVQGSGLNGHILTWNTHRKKRSSYVVQTSS 757
            TF  APKRL+ E  NS+                G   NGHI TW TH ++RSSYVVQ+SS
Sbjct: 1051 TFSLAPKRLKSEGANSDQR------------TGGGSWNGHIPTWQTHTRRRSSYVVQSSS 1098

Query: 758  SDSRGQNSNGRGNGWS 773
            SD+RGQNSN RGNGWS
Sbjct: 1099 SDARGQNSNSRGNGWS 1114

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297737012|emb|CBI26213.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224099763|ref|XP_002311608.1| chromatin remodeling complex subunit [Populus trichocarpa] gi|222851428|gb|EEE88975.1| chromatin remodeling complex subunit [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224111230|ref|XP_002315787.1| chromatin remodeling complex subunit [Populus trichocarpa] gi|222864827|gb|EEF01958.1| chromatin remodeling complex subunit [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356534230|ref|XP_003535660.1| PREDICTED: transcription regulatory protein SNF2-like [Glycine max] Back     alignment and taxonomy information
>gi|356541302|ref|XP_003539117.1| PREDICTED: transcription regulatory protein SNF2-like [Glycine max] Back     alignment and taxonomy information
>gi|356574396|ref|XP_003555334.1| PREDICTED: transcription regulatory protein SNF2-like [Glycine max] Back     alignment and taxonomy information
>gi|357480785|ref|XP_003610678.1| Chromatin remodeling complex subunit [Medicago truncatula] gi|355512013|gb|AES93636.1| Chromatin remodeling complex subunit [Medicago truncatula] Back     alignment and taxonomy information
>gi|357444343|ref|XP_003592449.1| Chromatin remodeling complex subunit [Medicago truncatula] gi|355481497|gb|AES62700.1| Chromatin remodeling complex subunit [Medicago truncatula] Back     alignment and taxonomy information
>gi|449444997|ref|XP_004140260.1| PREDICTED: transcription regulatory protein SNF2-like [Cucumis sativus] gi|449481192|ref|XP_004156109.1| PREDICTED: transcription regulatory protein SNF2-like [Cucumis sativus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query773
TAIR|locus:21502701064 CHR23 "chromatin remodeling 23 0.822 0.597 0.758 6.4e-267
UNIPROTKB|K7GT64 980 LOC100622433 "Uncharacterized 0.397 0.313 0.545 1e-174
UNIPROTKB|A5PKK5 1554 SMARCA2 "SMARCA2 protein" [Bos 0.397 0.197 0.548 6e-174
UNIPROTKB|E2RKP4 1556 SMARCA2 "Uncharacterized prote 0.397 0.197 0.548 6.1e-174
UNIPROTKB|F1SJG5 1556 SMARCA2 "Uncharacterized prote 0.397 0.197 0.548 6.1e-174
UNIPROTKB|E9PTG1 1597 Smarca2 "Protein Smarca2" [Rat 0.397 0.192 0.548 6.8e-174
UNIPROTKB|J9P5P2 1574 SMARCA2 "Uncharacterized prote 0.397 0.195 0.548 7.1e-174
UNIPROTKB|P51531 1590 SMARCA2 "Probable global trans 0.397 0.193 0.548 8.1e-174
MGI|MGI:99603 1577 Smarca2 "SWI/SNF related, matr 0.397 0.194 0.548 1.2e-173
UNIPROTKB|F1S594 866 LOC100622433 "Uncharacterized 0.379 0.338 0.561 2e-173
TAIR|locus:2150270 CHR23 "chromatin remodeling 23" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2554 (904.1 bits), Expect = 6.4e-267, Sum P(2) = 6.4e-267
 Identities = 490/646 (75%), Positives = 569/646 (88%)

Query:    34 NLTRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIA 93
             NL    I  +VT+QP+LLQGGELR+YQLEGLQWM+SL+NN+ NGILADEMGLGKTIQTIA
Sbjct:   364 NLAIHSIQEKVTKQPSLLQGGELRSYQLEGLQWMVSLYNNDYNGILADEMGLGKTIQTIA 423

Query:    94 LIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSE 153
             LIAYLLE+K + GPH+I+APKAVLPNW NEF+ WAPSI+A +YDG  ++R  +R      
Sbjct:   424 LIAYLLESKDLHGPHLILAPKAVLPNWENEFALWAPSISAFLYDGSKEKRTEIRARIAG- 482

Query:   154 RGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTI-SGYQIQRRLLL 212
              G+FNVLITHYDLIMRD+ +LKK+ W YMIVDEGHRLKNHECALAKT+ +GY+I+RRLLL
Sbjct:   483 -GKFNVLITHYDLIMRDKAFLKKIDWNYMIVDEGHRLKNHECALAKTLGTGYRIKRRLLL 541

Query:   213 TGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHH 272
             TGTPIQNSLQELWSLLNFLLP IFNS+ NFEEWFN PF + G  +LTDEE+LLII RLHH
Sbjct:   542 TGTPIQNSLQELWSLLNFLLPHIFNSIHNFEEWFNTPFAECGSASLTDEEELLIINRLHH 601

Query:   273 VIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQ 332
             VIRPF+LRRKK EVEK+LPGK+QVILKCDMSAWQK+YY+QVTDVGRVGL +G GKSKSLQ
Sbjct:   602 VIRPFLLRRKKSEVEKFLPGKTQVILKCDMSAWQKLYYKQVTDVGRVGLHSGNGKSKSLQ 661

Query:   333 NLSMQLRKCCNHPYLFVG-EYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMT 391
             NL+MQLRKCCNHPYLFVG +YNM +K EI+RASGKFELLDRLLPKL+K+GHR+LLFSQMT
Sbjct:   662 NLTMQLRKCCNHPYLFVGADYNMCKKPEIVRASGKFELLDRLLPKLKKAGHRILLFSQMT 721

Query:   392 RLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQ 451
             RL+D+LEIYL LND+ +LRLDGSTKT++RG LLKQFN PDSPYFMFLLSTRAGGLGLNLQ
Sbjct:   722 RLIDLLEIYLSLNDYMYLRLDGSTKTDQRGILLKQFNEPDSPYFMFLLSTRAGGLGLNLQ 781

Query:   452 TADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDA 511
             TADT+IIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVS+GSIEEVILERAKQKMGIDA
Sbjct:   782 TADTIIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSIGSIEEVILERAKQKMGIDA 841

Query:   512 KVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMD 571
             KVIQAGLFNTTSTAQDRREML+EIM +GTSSLG DVPSEREINRLAAR++EEFW+FE+MD
Sbjct:   842 KVIQAGLFNTTSTAQDRREMLEEIMSKGTSSLGEDVPSEREINRLAARTEEEFWMFEQMD 901

Query:   572 EERRQKENYRSRLMEDHEVPEWAYSAPDNKEEQKGFEKGFGHESSSITGKRKRKEVVYAD 631
             EERR+KENY++RLME+ EVPEWAY++ + +E++   +  FG    S+TGKRKRKE VY+D
Sbjct:   902 EERRKKENYKTRLMEEKEVPEWAYTS-ETQEDKTNAKNHFG----SLTGKRKRKEAVYSD 956

Query:   632 TLSDLQWMKAVEN-GQDISKLSTRGKRREYLPSEGNESASNSTGAE 676
             +LSDLQWMKA+E+  +D SK+S + KR +      N S + +  +E
Sbjct:   957 SLSDLQWMKAMESEDEDASKVSQKRKRTDTKTRMSNGSKAEAVLSE 1002
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0004386 "helicase activity" evidence=IEA;ISS
GO:0005524 "ATP binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0006259 "DNA metabolic process" evidence=RCA
GO:0007062 "sister chromatid cohesion" evidence=RCA
GO:0007126 "meiosis" evidence=RCA
GO:0009640 "photomorphogenesis" evidence=RCA
GO:0010388 "cullin deneddylation" evidence=RCA
GO:0016567 "protein ubiquitination" evidence=RCA
GO:0016571 "histone methylation" evidence=RCA
GO:0016579 "protein deubiquitination" evidence=RCA
GO:0031048 "chromatin silencing by small RNA" evidence=RCA
GO:0033044 "regulation of chromosome organization" evidence=RCA
GO:0045132 "meiotic chromosome segregation" evidence=RCA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA
UNIPROTKB|K7GT64 LOC100622433 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|A5PKK5 SMARCA2 "SMARCA2 protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RKP4 SMARCA2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1SJG5 SMARCA2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E9PTG1 Smarca2 "Protein Smarca2" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|J9P5P2 SMARCA2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P51531 SMARCA2 "Probable global transcription activator SNF2L2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:99603 Smarca2 "SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1S594 LOC100622433 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms

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 ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.6.4.12LOW CONFIDENCE prediction!
3rd Layer3.6.40.691

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 ?Alignment Graph ?Length ? Definition ? E-value ?
Query773
PLN03142 1033 PLN03142, PLN03142, Probable chromatin-remodeling 0.0
COG0553866 COG0553, HepA, Superfamily II DNA/RNA helicases, S 1e-116
pfam00176301 pfam00176, SNF2_N, SNF2 family N-terminal domain 1e-115
cd00079131 cd00079, HELICc, Helicase superfamily c-terminal d 7e-29
smart00487201 smart00487, DEXDc, DEAD-like helicases superfamily 2e-28
smart0049082 smart00490, HELICc, helicase superfamily c-termina 3e-23
pfam0027178 pfam00271, Helicase_C, Helicase conserved C-termin 9e-23
cd00046144 cd00046, DEXDc, DEAD-like helicases superfamily 1e-20
pfam11496279 pfam11496, HDA2-3, Class II histone deacetylase co 1e-09
COG0513513 COG0513, SrmB, Superfamily II DNA and RNA helicase 3e-07
PTZ00110545 PTZ00110, PTZ00110, helicase; Provisional 5e-07
PRK04914956 PRK04914, PRK04914, ATP-dependent helicase HepA; V 0.001
COG1061442 COG1061, SSL2, DNA or RNA helicases of superfamily 0.003
>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional Back     alignment and domain information 
 Score =  555 bits (1432), Expect = 0.0
 Identities = 251/529 (47%), Positives = 354/529 (66%), Gaps = 24/529 (4%)

Query: 43  QVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENK 102
           ++  QP+ ++G ++R YQL GL W++ L+ N +NGILADEMGLGKT+QTI+L+ YL E +
Sbjct: 158 RLLVQPSCIKG-KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYR 216

Query: 103 GVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLIT 162
           G+TGPH++VAPK+ L NW+NE   + P + AV + G P+ER   REE     G+F+V +T
Sbjct: 217 GITGPHMVVAPKSTLGNWMNEIRRFCPVLRAVKFHGNPEERAHQREELLVA-GKFDVCVT 275

Query: 163 HYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQ 222
            +++ ++++  LK+  W Y+I+DE HR+KN    L+KT+  +    RLL+TGTP+QN+L 
Sbjct: 276 SFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLH 335

Query: 223 ELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRK 282
           ELW+LLNFLLP IF+S E F+EWF             + +Q  ++++LH V+RPF+LRR 
Sbjct: 336 ELWALLNFLLPEIFSSAETFDEWFQIS---------GENDQQEVVQQLHKVLRPFLLRRL 386

Query: 283 KDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQLRKCC 342
           K +VEK LP K + ILK  MS  QK YY+ +       ++ G G+ K L N++MQLRKCC
Sbjct: 387 KSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVNAG-GERKRLLNIAMQLRKCC 445

Query: 343 NHPYLFVGEYN---MWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEI 399
           NHPYLF G          E ++  SGK  LLD+LLPKL++   RVL+FSQMTRL+DILE 
Sbjct: 446 NHPYLFQGAEPGPPYTTGEHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILED 505

Query: 400 YLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIF 459
           YL    +++ R+DG+T  E+R   +  FN P S  F+FLLSTRAGGLG+NL TAD VI++
Sbjct: 506 YLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILY 565

Query: 460 DSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLF 519
           DSDWNPQ+D QA+DRAHRIGQKKEV+VF   +  +IEE ++ERA +K+ +DA VIQ G  
Sbjct: 566 DSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQGRL 625

Query: 520 --NTTSTAQDRREMLK---EIMRRGTSSLGTDVPSEREINRLAARSDEE 563
               T    +  +M++   E++     S  TD     +I+R+ A+ +E 
Sbjct: 626 AEQKTVNKDELLQMVRYGAEMVFSSKDSTITD----EDIDRIIAKGEEA 670

Length = 1033
>gnl|CDD|223627 COG0553, HepA, Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|215770 pfam00176, SNF2_N, SNF2 family N-terminal domain Back     alignment and domain information
>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process Back     alignment and domain information
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily Back     alignment and domain information
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain Back     alignment and domain information
>gnl|CDD|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain Back     alignment and domain information
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily Back     alignment and domain information
>gnl|CDD|221124 pfam11496, HDA2-3, Class II histone deacetylase complex subunits 2 and 3 Back     alignment and domain information
>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional Back     alignment and domain information
>gnl|CDD|235319 PRK04914, PRK04914, ATP-dependent helicase HepA; Validated Back     alignment and domain information
>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 773
KOG03861157 consensus Chromatin remodeling complex SWI/SNF, co 100.0
KOG0385971 consensus Chromatin remodeling complex WSTF-ISWI, 100.0
KOG0384 1373 consensus Chromodomain-helicase DNA-binding protei 100.0
PLN03142 1033 Probable chromatin-remodeling complex ATPase chain 100.0
KOG0391 1958 consensus SNF2 family DNA-dependent ATPase [Genera 100.0
KOG0389941 consensus SNF2 family DNA-dependent ATPase [Chroma 100.0
KOG03881185 consensus SNF2 family DNA-dependent ATPase [Replic 100.0
KOG0387923 consensus Transcription-coupled repair protein CSB 100.0
KOG03921549 consensus SNF2 family DNA-dependent ATPase domain- 100.0
KOG0390776 consensus DNA repair protein, SNF2 family [Replica 100.0
KOG10151567 consensus Transcription regulator XNP/ATRX, DEAD-b 100.0
KOG1002791 consensus Nucleotide excision repair protein RAD16 100.0
KOG4439901 consensus RNA polymerase II transcription terminat 100.0
COG0553866 HepA Superfamily II DNA/RNA helicases, SNF2 family 100.0
KOG1000689 consensus Chromatin remodeling protein HARP/SMARCA 100.0
KOG1016 1387 consensus Predicted DNA helicase, DEAD-box superfa 100.0
PRK04914956 ATP-dependent helicase HepA; Validated 100.0
KOG0383696 consensus Predicted helicase [General function pre 100.0
KOG1001674 consensus Helicase-like transcription factor HLTF/ 100.0
TIGR00603732 rad25 DNA repair helicase rad25. All proteins in t 100.0
PF00176299 SNF2_N: SNF2 family N-terminal domain; InterPro: I 100.0
PRK13766773 Hef nuclease; Provisional 100.0
COG1111542 MPH1 ERCC4-like helicases [DNA replication, recomb 100.0
PHA02558501 uvsW UvsW helicase; Provisional 100.0
COG1061442 SSL2 DNA or RNA helicases of superfamily II [Trans 100.0
KOG0298 1394 consensus DEAD box-containing helicase-like transc 100.0
TIGR00614470 recQ_fam ATP-dependent DNA helicase, RecQ family. 99.97
PTZ00110545 helicase; Provisional 99.97
PRK11776460 ATP-dependent RNA helicase DbpA; Provisional 99.96
PRK11192434 ATP-dependent RNA helicase SrmB; Provisional 99.96
PRK10590456 ATP-dependent RNA helicase RhlE; Provisional 99.96
PLN00206518 DEAD-box ATP-dependent RNA helicase; Provisional 99.96
PRK04837423 ATP-dependent RNA helicase RhlB; Provisional 99.96
KOG0354746 consensus DEAD-box like helicase [General function 99.96
PRK04537572 ATP-dependent RNA helicase RhlB; Provisional 99.96
KOG0330476 consensus ATP-dependent RNA helicase [RNA processi 99.96
KOG0331519 consensus ATP-dependent RNA helicase [RNA processi 99.96
PRK11057607 ATP-dependent DNA helicase RecQ; Provisional 99.96
PRK01297475 ATP-dependent RNA helicase RhlB; Provisional 99.96
PRK11634629 ATP-dependent RNA helicase DeaD; Provisional 99.96
TIGR01389591 recQ ATP-dependent DNA helicase RecQ. The ATP-depe 99.96
PLN03137 1195 ATP-dependent DNA helicase; Q4-like; Provisional 99.95
PTZ00424401 helicase 45; Provisional 99.95
COG0513513 SrmB Superfamily II DNA and RNA helicases [DNA rep 99.94
KOG1123776 consensus RNA polymerase II transcription initiati 99.94
TIGR00643630 recG ATP-dependent DNA helicase RecG. 99.94
TIGR03817742 DECH_helic helicase/secretion neighborhood putativ 99.94
PRK13767 876 ATP-dependent helicase; Provisional 99.93
PRK10917681 ATP-dependent DNA helicase RecG; Provisional 99.93
TIGR00580926 mfd transcription-repair coupling factor (mfd). Al 99.93
PRK106891147 transcription-repair coupling factor; Provisional 99.92
PRK02362737 ski2-like helicase; Provisional 99.91
PRK114481123 hsdR type I restriction enzyme EcoKI subunit R; Pr 99.91
KOG0338691 consensus ATP-dependent RNA helicase [RNA processi 99.9
COG0514590 RecQ Superfamily II DNA helicase [DNA replication, 99.9
PRK01172674 ski2-like helicase; Provisional 99.9
TIGR01587358 cas3_core CRISPR-associated helicase Cas3. This mo 99.9
KOG0340442 consensus ATP-dependent RNA helicase [RNA processi 99.9
KOG0333673 consensus U5 snRNP-like RNA helicase subunit [RNA 99.89
KOG0335482 consensus ATP-dependent RNA helicase [RNA processi 99.89
PRK00254720 ski2-like helicase; Provisional 99.89
KOG0345567 consensus ATP-dependent RNA helicase [RNA processi 99.89
KOG0328400 consensus Predicted ATP-dependent RNA helicase FAL 99.89
KOG0342543 consensus ATP-dependent RNA helicase pitchoune [RN 99.88
KOG0350620 consensus DEAD-box ATP-dependent RNA helicase [RNA 99.88
KOG0348708 consensus ATP-dependent RNA helicase [RNA processi 99.87
COG1201 814 Lhr Lhr-like helicases [General function predictio 99.87
TIGR02621 844 cas3_GSU0051 CRISPR-associated helicase Cas3, Anae 99.87
KOG0347731 consensus RNA helicase [RNA processing and modific 99.87
KOG0343758 consensus RNA Helicase [RNA processing and modific 99.86
KOG0341610 consensus DEAD-box protein abstrakt [RNA processin 99.86
KOG0339731 consensus ATP-dependent RNA helicase [RNA processi 99.86
TIGR03714762 secA2 accessory Sec system translocase SecA2. Memb 99.85
PRK09401 1176 reverse gyrase; Reviewed 99.85
PRK09751 1490 putative ATP-dependent helicase Lhr; Provisional 99.85
TIGR00348667 hsdR type I site-specific deoxyribonuclease, HsdR 99.84
COG1200677 RecG RecG-like helicase [DNA replication, recombin 99.84
KOG4284 980 consensus DEAD box protein [Transcription] 99.83
KOG0336629 consensus ATP-dependent RNA helicase [RNA processi 99.83
PRK09200790 preprotein translocase subunit SecA; Reviewed 99.82
PHA02653675 RNA helicase NPH-II; Provisional 99.82
TIGR03158357 cas3_cyano CRISPR-associated helicase, Cyano-type. 99.82
COG4096875 HsdR Type I site-specific restriction-modification 99.82
PRK12898656 secA preprotein translocase subunit SecA; Reviewed 99.81
KOG0332477 consensus ATP-dependent RNA helicase [RNA processi 99.81
COG1202830 Superfamily II helicase, archaea-specific [General 99.81
TIGR00963745 secA preprotein translocase, SecA subunit. The pro 99.81
COG4098441 comFA Superfamily II DNA/RNA helicase required for 99.8
PRK05580679 primosome assembly protein PriA; Validated 99.8
COG1205 851 Distinct helicase family with a unique C-terminal 99.8
COG1204766 Superfamily II helicase [General function predicti 99.8
KOG0344593 consensus ATP-dependent RNA helicase [RNA processi 99.79
TIGR01054 1171 rgy reverse gyrase. Generally, these gyrases are e 99.79
COG4889 1518 Predicted helicase [General function prediction on 99.79
PRK14701 1638 reverse gyrase; Provisional 99.78
TIGR00595505 priA primosomal protein N'. All proteins in this f 99.77
KOG0346569 consensus RNA helicase [RNA processing and modific 99.77
KOG0326459 consensus ATP-dependent RNA helicase [RNA processi 99.77
TIGR01970 819 DEAH_box_HrpB ATP-dependent helicase HrpB. This mo 99.76
PRK09694878 helicase Cas3; Provisional 99.75
KOG0351941 consensus ATP-dependent DNA helicase [Replication, 99.74
PRK11664 812 ATP-dependent RNA helicase HrpB; Provisional 99.74
KOG0353695 consensus ATP-dependent DNA helicase [General func 99.72
KOG0334997 consensus RNA helicase [RNA processing and modific 99.72
cd00079131 HELICc Helicase superfamily c-terminal domain; ass 99.72
PF04851184 ResIII: Type III restriction enzyme, res subunit; 99.72
COG11971139 Mfd Transcription-repair coupling factor (superfam 99.71
PRK13104896 secA preprotein translocase subunit SecA; Reviewed 99.7
KOG0327397 consensus Translation initiation factor 4F, helica 99.69
KOG0352641 consensus ATP-dependent DNA helicase [Replication, 99.69
PRK12906796 secA preprotein translocase subunit SecA; Reviewed 99.68
KOG0952 1230 consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup 99.65
PRK12904830 preprotein translocase subunit SecA; Reviewed 99.65
KOG0337529 consensus ATP-dependent RNA helicase [RNA processi 99.64
TIGR00631655 uvrb excinuclease ABC, B subunit. This family is b 99.64
PRK11131 1294 ATP-dependent RNA helicase HrpA; Provisional 99.61
PF0027178 Helicase_C: Helicase conserved C-terminal domain; 99.61
smart00487201 DEXDc DEAD-like helicases superfamily. 99.61
PRK05298652 excinuclease ABC subunit B; Provisional 99.6
PRK13107908 preprotein translocase subunit SecA; Reviewed 99.59
cd00046144 DEXDc DEAD-like helicases superfamily. A diverse f 99.56
COG1203733 CRISPR-associated helicase Cas3 [Defense mechanism 99.54
COG0556663 UvrB Helicase subunit of the DNA excision repair c 99.54
TIGR01967 1283 DEAH_box_HrpA ATP-dependent helicase HrpA. This mo 99.54
KOG0951 1674 consensus RNA helicase BRR2, DEAD-box superfamily 99.5
PF00270169 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 99.49
smart0049082 HELICc helicase superfamily c-terminal domain. 99.48
PRK12899970 secA preprotein translocase subunit SecA; Reviewed 99.47
PRK129001025 secA preprotein translocase subunit SecA; Reviewed 99.46
cd00268203 DEADc DEAD-box helicases. A diverse family of prot 99.45
PRK12326764 preprotein translocase subunit SecA; Reviewed 99.4
KOG0947 1248 consensus Cytoplasmic exosomal RNA helicase SKI2, 99.33
TIGR01407850 dinG_rel DnaQ family exonuclease/DinG family helic 99.33
COG1110 1187 Reverse gyrase [DNA replication, recombination, an 99.32
KOG0329387 consensus ATP-dependent RNA helicase [RNA processi 99.28
PRK13103913 secA preprotein translocase subunit SecA; Reviewed 99.27
COG1198730 PriA Primosomal protein N' (replication factor Y) 99.25
COG4581 1041 Superfamily II RNA helicase [DNA replication, reco 99.24
PF11496297 HDA2-3: Class II histone deacetylase complex subun 99.23
KOG0948 1041 consensus Nuclear exosomal RNA helicase MTR4, DEAD 99.18
PRK12903 925 secA preprotein translocase subunit SecA; Reviewed 99.16
COG0610962 Type I site-specific restriction-modification syst 99.15
PF1461974 SnAC: Snf2-ATP coupling, chromatin remodelling com 99.05
KOG0349725 consensus Putative DEAD-box RNA helicase DDX1 [RNA 99.02
TIGR00604705 rad3 DNA repair helicase (rad3). All proteins in t 99.01
PF13872303 AAA_34: P-loop containing NTP hydrolase pore-1 98.97
PRK08074928 bifunctional ATP-dependent DNA helicase/DNA polyme 98.96
KOG09501008 consensus DNA polymerase theta/eta, DEAD-box super 98.96
TIGR03117636 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase 98.95
CHL00122870 secA preprotein translocase subunit SecA; Validate 98.93
KOG0949 1330 consensus Predicted helicase, DEAD-box superfamily 98.89
COG1199654 DinG Rad3-related DNA helicases [Transcription / D 98.89
PRK07246820 bifunctional ATP-dependent DNA helicase/DNA polyme 98.88
TIGR00596 814 rad1 DNA repair protein (rad1). This family is bas 98.85
PRK129011112 secA preprotein translocase subunit SecA; Reviewed 98.83
PRK12902 939 secA preprotein translocase subunit SecA; Reviewed 98.74
KOG0922674 consensus DEAH-box RNA helicase [RNA processing an 98.68
COG1643 845 HrpA HrpA-like helicases [DNA replication, recombi 98.67
KOG0920924 consensus ATP-dependent RNA helicase A [RNA proces 98.67
KOG15131300 consensus Nuclear helicase MOP-3/SNO (DEAD-box sup 98.66
PRK11747697 dinG ATP-dependent DNA helicase DinG; Provisional 98.64
PRK15483 986 type III restriction-modification system StyLTI en 98.61
PF07652148 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR 98.47
KOG09241042 consensus mRNA splicing factor ATP-dependent RNA h 98.47
PF02399 824 Herpes_ori_bp: Origin of replication binding prote 98.47
PRK14873665 primosome assembly protein PriA; Provisional 98.43
TIGR025621110 cas3_yersinia CRISPR-associated helicase Cas3. The 98.4
smart00488289 DEXDc2 DEAD-like helicases superfamily. 98.4
smart00489289 DEXDc3 DEAD-like helicases superfamily. 98.4
KOG0926 1172 consensus DEAH-box RNA helicase [RNA processing an 98.39
KOG0923902 consensus mRNA splicing factor ATP-dependent RNA h 98.36
PF13871278 Helicase_C_4: Helicase_C-like 98.32
KOG4150 1034 consensus Predicted ATP-dependent RNA helicase [RN 98.23
PF13086236 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV 98.12
KOG0953700 consensus Mitochondrial RNA helicase SUV3, DEAD-bo 98.04
COG0653822 SecA Preprotein translocase subunit SecA (ATPase, 97.93
KOG09511674 consensus RNA helicase BRR2, DEAD-box superfamily 97.7
KOG0925699 consensus mRNA splicing factor ATP-dependent RNA h 97.69
COG3587 985 Restriction endonuclease [Defense mechanisms] 97.63
PF02562205 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH 97.61
PRK10536262 hypothetical protein; Provisional 97.51
KOG1802935 consensus RNA helicase nonsense mRNA reducing fact 97.46
KOG1803649 consensus DNA helicase [Replication, recombination 97.28
TIGR00376637 DNA helicase, putative. The gene product may repre 97.26
PF13307167 Helicase_C_2: Helicase C-terminal domain; PDB: 4A1 97.22
PF12340229 DUF3638: Protein of unknown function (DUF3638); In 97.17
PF13604196 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL 97.16
PF13401131 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S 97.15
PF07517266 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011 97.13
PF09848352 DUF2075: Uncharacterized conserved protein (DUF207 97.09
KOG1132945 consensus Helicase of the DEAD superfamily [Replic 96.94
cd00009151 AAA The AAA+ (ATPases Associated with a wide varie 96.63
TIGR01447586 recD exodeoxyribonuclease V, alpha subunit. This f 96.61
KOG1131755 consensus RNA polymerase II transcription initiati 96.57
PRK11773721 uvrD DNA-dependent helicase II; Provisional 96.48
COG0553866 HepA Superfamily II DNA/RNA helicases, SNF2 family 96.36
KOG1133821 consensus Helicase of the DEAD superfamily [Replic 96.33
TIGR01448720 recD_rel helicase, putative, RecD/TraA family. Thi 96.28
TIGR02881261 spore_V_K stage V sporulation protein K. Members o 96.13
PRK10875615 recD exonuclease V subunit alpha; Provisional 96.1
PRK14956484 DNA polymerase III subunits gamma and tau; Provisi 96.04
PRK04296190 thymidine kinase; Provisional 96.0
PRK06526254 transposase; Provisional 95.95
smart00382148 AAA ATPases associated with a variety of cellular 95.95
TIGR01073726 pcrA ATP-dependent DNA helicase PcrA. Designed to 95.84
PRK12723388 flagellar biosynthesis regulator FlhF; Provisional 95.82
PRK09112351 DNA polymerase III subunit delta'; Validated 95.66
PRK07003 830 DNA polymerase III subunits gamma and tau; Validat 95.47
PRK08181269 transposase; Validated 95.44
PRK14949 944 DNA polymerase III subunits gamma and tau; Provisi 95.43
PRK07764824 DNA polymerase III subunits gamma and tau; Validat 95.41
COG3421 812 Uncharacterized protein conserved in bacteria [Fun 95.33
PLN03025319 replication factor C subunit; Provisional 95.22
COG1875436 NYN ribonuclease and ATPase of PhoH family domains 95.2
PRK06835329 DNA replication protein DnaC; Validated 95.07
PRK12323700 DNA polymerase III subunits gamma and tau; Provisi 95.04
CHL00181287 cbbX CbbX; Provisional 95.01
PRK14960702 DNA polymerase III subunits gamma and tau; Provisi 94.91
PF1324576 AAA_19: Part of AAA domain 94.89
TIGR02880284 cbbX_cfxQ probable Rubsico expression protein CbbX 94.82
PF00448196 SRP54: SRP54-type protein, GTPase domain; InterPro 94.82
smart00492141 HELICc3 helicase superfamily c-terminal domain. 94.76
PF06862442 DUF1253: Protein of unknown function (DUF1253); In 94.69
PRK05707328 DNA polymerase III subunit delta'; Validated 94.68
PRK07994647 DNA polymerase III subunits gamma and tau; Validat 94.67
PRK11889436 flhF flagellar biosynthesis regulator FlhF; Provis 94.58
smart00491142 HELICc2 helicase superfamily c-terminal domain. 94.56
PF13177162 DNA_pol3_delta2: DNA polymerase III, delta subunit 94.42
KOG18051100 consensus DNA replication helicase [Replication, r 94.34
PHA02544316 44 clamp loader, small subunit; Provisional 94.32
TIGR02639731 ClpA ATP-dependent Clp protease ATP-binding subuni 94.22
PRK12402337 replication factor C small subunit 2; Reviewed 94.19
TIGR03015269 pepcterm_ATPase putative secretion ATPase, PEP-CTE 94.19
PRK14958509 DNA polymerase III subunits gamma and tau; Provisi 94.14
PRK07952244 DNA replication protein DnaC; Validated 94.13
KOG0991333 consensus Replication factor C, subunit RFC2 [Repl 94.07
PRK14974336 cell division protein FtsY; Provisional 94.06
PRK14961363 DNA polymerase III subunits gamma and tau; Provisi 94.05
PRK14962472 DNA polymerase III subunits gamma and tau; Provisi 93.91
PRK14964491 DNA polymerase III subunits gamma and tau; Provisi 93.87
PRK05703424 flhF flagellar biosynthesis regulator FlhF; Valida 93.86
TIGR03420226 DnaA_homol_Hda DnaA regulatory inactivator Hda. Me 93.77
PRK08451535 DNA polymerase III subunits gamma and tau; Validat 93.75
TIGR02928365 orc1/cdc6 family replication initiation protein. M 93.68
PRK14952584 DNA polymerase III subunits gamma and tau; Provisi 93.66
PRK08084235 DNA replication initiation factor; Provisional 93.63
PRK14957546 DNA polymerase III subunits gamma and tau; Provisi 93.55
KOG0989346 consensus Replication factor C, subunit RFC4 [Repl 93.47
PRK09111598 DNA polymerase III subunits gamma and tau; Validat 93.44
PF13173128 AAA_14: AAA domain 93.39
PRK10917681 ATP-dependent DNA helicase RecG; Provisional 93.35
PRK05580679 primosome assembly protein PriA; Validated 93.29
PRK08116268 hypothetical protein; Validated 93.26
PRK07940394 DNA polymerase III subunit delta'; Validated 93.2
PF05621302 TniB: Bacterial TniB protein; InterPro: IPR008868 93.15
PRK06871325 DNA polymerase III subunit delta'; Validated 93.15
PRK14959624 DNA polymerase III subunits gamma and tau; Provisi 93.15
PRK06645507 DNA polymerase III subunits gamma and tau; Validat 93.02
PRK07993334 DNA polymerase III subunit delta'; Validated 92.98
PRK08769319 DNA polymerase III subunit delta'; Validated 92.97
PRK08058329 DNA polymerase III subunit delta'; Validated 92.95
PRK06921266 hypothetical protein; Provisional 92.8
COG0470325 HolB ATPase involved in DNA replication [DNA repli 92.73
PRK07471365 DNA polymerase III subunit delta'; Validated 92.64
PRK14969527 DNA polymerase III subunits gamma and tau; Provisi 92.48
PRK08903227 DnaA regulatory inactivator Hda; Validated 92.46
PRK14955397 DNA polymerase III subunits gamma and tau; Provisi 92.44
TIGR02768744 TraA_Ti Ti-type conjugative transfer relaxase TraA 92.43
PRK14951618 DNA polymerase III subunits gamma and tau; Provisi 92.42
PRK14963504 DNA polymerase III subunits gamma and tau; Provisi 92.4
PRK08691709 DNA polymerase III subunits gamma and tau; Validat 92.37
PRK06090319 DNA polymerase III subunit delta'; Validated 92.31
PRK14088440 dnaA chromosomal replication initiation protein; P 92.3
PTZ001121164 origin recognition complex 1 protein; Provisional 92.24
PF00580315 UvrD-helicase: UvrD/REP helicase N-terminal domain 92.21
cd01124187 KaiC KaiC is a circadian clock protein primarily f 92.19
PRK08727233 hypothetical protein; Validated 92.15
PRK14965576 DNA polymerase III subunits gamma and tau; Provisi 91.84
PRK05642234 DNA replication initiation factor; Validated 91.82
PRK04195482 replication factor C large subunit; Provisional 91.79
PRK12377248 putative replication protein; Provisional 91.72
PF05876557 Terminase_GpA: Phage terminase large subunit (GpA) 91.69
PRK06647563 DNA polymerase III subunits gamma and tau; Validat 91.62
PRK14087450 dnaA chromosomal replication initiation protein; P 91.59
PRK00149450 dnaA chromosomal replication initiation protein; R 91.53
cd01121372 Sms Sms (bacterial radA) DNA repair protein. This 91.42
TIGR00595505 priA primosomal protein N'. All proteins in this f 91.4
PF00004132 AAA: ATPase family associated with various cellula 91.36
PRK05563559 DNA polymerase III subunits gamma and tau; Validat 91.34
PRK06893229 DNA replication initiation factor; Validated 91.34
PF06733174 DEAD_2: DEAD_2; InterPro: IPR010614 This represent 91.32
cd01120165 RecA-like_NTPases RecA-like NTPases. This family i 91.28
COG3267269 ExeA Type II secretory pathway, component ExeA (pr 91.21
TIGR00362405 DnaA chromosomal replication initiator protein Dna 91.19
TIGR00643630 recG ATP-dependent DNA helicase RecG. 91.14
PRK00080328 ruvB Holliday junction DNA helicase RuvB; Reviewed 90.89
PRK05896605 DNA polymerase III subunits gamma and tau; Validat 90.8
KOG09521230 consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup 90.7
PRK14722374 flhF flagellar biosynthesis regulator FlhF; Provis 90.67
PRK14953486 DNA polymerase III subunits gamma and tau; Provisi 90.55
PRK14086617 dnaA chromosomal replication initiation protein; P 90.51
PHA02533534 17 large terminase protein; Provisional 90.48
PRK00411394 cdc6 cell division control protein 6; Reviewed 90.38
PRK14948620 DNA polymerase III subunits gamma and tau; Provisi 90.36
COG1419407 FlhF Flagellar GTP-binding protein [Cell motility 90.28
PRK07133725 DNA polymerase III subunits gamma and tau; Validat 90.17
PRK00440319 rfc replication factor C small subunit; Reviewed 90.1
TIGR01075715 uvrD DNA helicase II. Designed to identify uvrD me 90.01
COG2256436 MGS1 ATPase related to the helicase subunit of the 89.91
KOG0737386 consensus AAA+-type ATPase [Posttranslational modi 89.75
TIGR00678188 holB DNA polymerase III, delta' subunit. At positi 89.55
PRK14950585 DNA polymerase III subunits gamma and tau; Provisi 89.46
PRK14954620 DNA polymerase III subunits gamma and tau; Provisi 89.28
PRK06964342 DNA polymerase III subunit delta'; Validated 89.25
PRK09183259 transposase/IS protein; Provisional 89.07
PRK13889988 conjugal transfer relaxase TraA; Provisional 89.03
PRK06731270 flhF flagellar biosynthesis regulator FlhF; Valida 88.97
PRK00771437 signal recognition particle protein Srp54; Provisi 88.94
PF05496233 RuvB_N: Holliday junction DNA helicase ruvB N-term 88.87
KOG0921 1282 consensus Dosage compensation complex, subunit MLE 88.82
TIGR03345852 VI_ClpV1 type VI secretion ATPase, ClpV1 family. M 88.37
PF00308219 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013 88.32
COG1198730 PriA Primosomal protein N' (replication factor Y) 88.2
PRK12724432 flagellar biosynthesis regulator FlhF; Provisional 88.0
PRK12422445 chromosomal replication initiation protein; Provis 87.96
PTZ00293211 thymidine kinase; Provisional 87.93
PF13481193 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C. 87.69
PRK13342413 recombination factor protein RarA; Reviewed 87.58
COG1484254 DnaC DNA replication protein [DNA replication, rec 87.36
COG2255332 RuvB Holliday junction resolvasome, helicase subun 87.24
TIGR03689512 pup_AAA proteasome ATPase. In the Actinobacteria, 87.23
PRK04132846 replication factor C small subunit; Provisional 87.12
PRK06904472 replicative DNA helicase; Validated 87.06
PRK12727559 flagellar biosynthesis regulator FlhF; Provisional 86.98
TIGR02397355 dnaX_nterm DNA polymerase III, subunit gamma and t 86.95
PHA03333752 putative ATPase subunit of terminase; Provisional 86.93
TIGR00708173 cobA cob(I)alamin adenosyltransferase. Alternate n 86.72
COG1435201 Tdk Thymidine kinase [Nucleotide transport and met 86.69
PRK05986191 cob(I)alamin adenolsyltransferase/cobinamide ATP-d 86.13
PRK08699325 DNA polymerase III subunit delta'; Validated 86.11
PRK06305451 DNA polymerase III subunits gamma and tau; Validat 85.98
PF02456369 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR 85.92
PRK10865857 protein disaggregation chaperone; Provisional 85.76
TIGR01074664 rep ATP-dependent DNA helicase Rep. Designed to id 85.65
KOG0738491 consensus AAA+-type ATPase [Posttranslational modi 85.4
TIGR01425429 SRP54_euk signal recognition particle protein SRP5 85.36
cd01128249 rho_factor Transcription termination factor rho is 85.28
CHL00095821 clpC Clp protease ATP binding subunit 85.16
cd03115173 SRP The signal recognition particle (SRP) mediates 85.06
TIGR03346852 chaperone_ClpB ATP-dependent chaperone ClpB. Membe 85.01
PRK138261102 Dtr system oriT relaxase; Provisional 85.0
PRK11823446 DNA repair protein RadA; Provisional 84.99
PRK14873665 primosome assembly protein PriA; Provisional 84.9
PRK10416318 signal recognition particle-docking protein FtsY; 84.79
COG1200677 RecG RecG-like helicase [DNA replication, recombin 84.56
cd01122271 GP4d_helicase GP4d_helicase is a homohexameric 5'- 84.41
COG0630312 VirB11 Type IV secretory pathway, VirB11 component 84.34
cd00984242 DnaB_C DnaB helicase C terminal domain. The hexame 84.28
PRK11054684 helD DNA helicase IV; Provisional 83.94
PF06564243 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p 83.82
PRK10867433 signal recognition particle protein; Provisional 83.79
cd01125239 repA Hexameric Replicative Helicase RepA. RepA is 83.67
COG0541451 Ffh Signal recognition particle GTPase [Intracellu 83.62
PHA03368738 DNA packaging terminase subunit 1; Provisional 83.42
COG1474366 CDC6 Cdc6-related protein, AAA superfamily ATPase 83.27
COG0210655 UvrD Superfamily I DNA and RNA helicases [DNA repl 83.13
PRK07399314 DNA polymerase III subunit delta'; Validated 83.1
PRK09376416 rho transcription termination factor Rho; Provisio 83.07
PF01443234 Viral_helicase1: Viral (Superfamily 1) RNA helicas 83.01
TIGR00580926 mfd transcription-repair coupling factor (mfd). Al 83.01
COG0552340 FtsY Signal recognition particle GTPase [Intracell 82.73
CHL002062281 ycf2 Ycf2; Provisional 82.71
PRK11034758 clpA ATP-dependent Clp protease ATP-binding subuni 82.71
PF06745226 KaiC: KaiC; InterPro: IPR014774 This entry represe 82.68
PRK10919672 ATP-dependent DNA helicase Rep; Provisional 82.58
TIGR00959428 ffh signal recognition particle protein. This mode 82.5
TIGR00064272 ftsY signal recognition particle-docking protein F 82.49
PF01695178 IstB_IS21: IstB-like ATP binding protein; InterPro 82.32
TIGR03499282 FlhF flagellar biosynthetic protein FlhF. 82.31
TIGR03880224 KaiC_arch_3 KaiC domain protein, AF_0351 family. T 82.23
PRK14971614 DNA polymerase III subunits gamma and tau; Provisi 82.18
cd00561159 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B 82.01
PRK10689 1147 transcription-repair coupling factor; Provisional 81.62
TIGR03877237 thermo_KaiC_1 KaiC domain protein, Ph0284 family. 81.44
PRK09165497 replicative DNA helicase; Provisional 81.39
PHA03372668 DNA packaging terminase subunit 1; Provisional 81.29
PRK13833323 conjugal transfer protein TrbB; Provisional 81.2
COG3973747 Superfamily I DNA and RNA helicases [General funct 81.1
PRK14721420 flhF flagellar biosynthesis regulator FlhF; Provis 80.89
COG0593408 DnaA ATPase involved in DNA replication initiation 80.8
PRK08760476 replicative DNA helicase; Provisional 80.78
PF00265176 TK: Thymidine kinase; InterPro: IPR001267 Thymidin 80.7
PRK08840464 replicative DNA helicase; Provisional 80.44
PRK08533230 flagellar accessory protein FlaH; Reviewed 80.37
PRK03992389 proteasome-activating nucleotidase; Provisional 80.02
PRK12726407 flagellar biosynthesis regulator FlhF; Provisional 80.01
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription] Back     alignment and domain information 
Probab=100.00  E-value=1.3e-135  Score=1146.68  Aligned_cols=717  Identities=50%  Similarity=0.825  Sum_probs=624.3

Q ss_pred             ccccCCCCccCCCCCcCCCCchHHHHHHHHHHHHhhcCCCCeEEecCCCCCHHHHHHHHHHHHHHhcCCCCCEEEEeCCc
Q 004103           36 TRSFILPQVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKA  115 (773)
Q Consensus        36 ~~~~i~~~~~~~P~~l~~~~LrpyQ~~gv~~l~~~~~~~~~gILademGlGKTi~aiali~~l~~~~~~~gp~LIVvP~s  115 (773)
                      ++|.|.+.+..||+++.||+|++||+.|++||+++|+|+.|||||||||+|||+|+|++|+||++.++..||+|||||++
T Consensus       375 ~AH~I~E~v~~Qps~l~GG~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPls  454 (1157)
T KOG0386|consen  375 TAHPIKENVAKQPSSLQGGELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLS  454 (1157)
T ss_pred             hcchhhhccccCcchhcCCCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEecccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHhhcCCceEEEecCChhHHHHHHHHHHhhcCCccEEEcCHHHHHHhHHHHhhcCeeEEEEccccccCChhh
Q 004103          116 VLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHEC  195 (773)
Q Consensus       116 ll~qW~~E~~k~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~VvItTye~l~~~~~~l~~~~~~~vIiDEaH~lkn~~s  195 (773)
                      ++.||..||.+|.|++..+.|.|++..|..+......  ++|+|++|||++++++...|.+++|.|+||||+|||||..|
T Consensus       455 tL~NW~~Ef~kWaPSv~~i~YkGtp~~R~~l~~qir~--gKFnVLlTtyEyiikdk~lLsKI~W~yMIIDEGHRmKNa~~  532 (1157)
T KOG0386|consen  455 TLVNWSSEFPKWAPSVQKIQYKGTPQQRSGLTKQQRH--GKFNVLLTTYEYIIKDKALLSKISWKYMIIDEGHRMKNAIC  532 (1157)
T ss_pred             ccCCchhhccccccceeeeeeeCCHHHHhhHHHHHhc--ccceeeeeeHHHhcCCHHHHhccCCcceeecccccccchhh
Confidence            9999999999999999999999999999999888766  89999999999999999999999999999999999999999


Q ss_pred             HHHHHHH-ccccceEEEecCCCCCCCHHHHHHhhccccCCCCCChHhHHHHhcccccccCC-ccCChHHHHHHHHHHHhh
Q 004103          196 ALAKTIS-GYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQ-VALTDEEQLLIIRRLHHV  273 (773)
Q Consensus       196 ~~~~~l~-~~~~~~rllLTgTP~~n~~~el~~lL~~L~p~~~~~~~~f~~~f~~~~~~~~~-~~~~~~~~~~~~~~L~~~  273 (773)
                      +++..+. .|.+.+|+||||||+||++.|||+||||+.|.+|++...|.+||+.||...|. +++++++...++.+||++
T Consensus       533 KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFantGek~eLteEEtlLIIrRLHkV  612 (1157)
T KOG0386|consen  533 KLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANTGEKVELTEEETLLIIRRLHKV  612 (1157)
T ss_pred             HHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhcCCcccccchHHHHHHHHHHHh
Confidence            9999995 88999999999999999999999999999999999999999999999999984 999999999999999999


Q ss_pred             hhhhhhhhhhhHHhhcCCCceeEEEEecCCHHHHHHHHHHHHhccccccc--CCCccchHHHHHHHHHHHhCCCCcccc-
Q 004103          274 IRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDT--GTGKSKSLQNLSMQLRKCCNHPYLFVG-  350 (773)
Q Consensus       274 L~p~~lRR~k~dv~~~LP~k~e~~v~~~~s~~q~~~Y~~i~~~~~~~~~~--~~~~~~~~~~~~~~Lrk~~~hP~l~~~-  350 (773)
                      |+||++||.|++|+.+||++++.++.|.||+.|+.+|..+.+.+....+.  +.+..++++|.+|+|||||||||+|.. 
T Consensus       613 LRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~v  692 (1157)
T KOG0386|consen  613 LRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKGKKGYKPLFNTIMQLRKLCNHPYLFANV  692 (1157)
T ss_pred             hhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhccccchhhhhHhHHHHHhcCCchhhhhh
Confidence            99999999999999999999999999999999999999999998888776  667788999999999999999999954 


Q ss_pred             --cccc-hhhHHHHhhcchHHHHHHHHHHhhhcCCcEEEEeecHHHHHHHHHHHHhCCCeEEEEcCCCCHHHHHHHHHhh
Q 004103          351 --EYNM-WRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQF  427 (773)
Q Consensus       351 --~~~~-~~~~~l~~~s~K~~~L~~ll~~l~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F  427 (773)
                        .+.. +...++++.+||+++|+++|++|++.||+||+||||++++++|++||..++++|.|+||+|+.++|..+++.|
T Consensus       693 e~~~~~~~~~~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~F  772 (1157)
T KOG0386|consen  693 ENSYTLHYDIKDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIF  772 (1157)
T ss_pred             ccccccccChhHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHh
Confidence              2222 2346899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCcEEEEEecccccccCCcccCCeeEEeCCCCChhhHHHHhhhhhhcCCcCeEEEEEEEeCCCHHHHHHHHHHHHH
Q 004103          428 NAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKM  507 (773)
Q Consensus       428 n~~~~~~~v~LlSt~agg~GLNL~~ad~VI~~D~~wNp~~~~Qa~gRa~RiGQ~k~V~V~rLi~~~tiEe~i~~~~~~K~  507 (773)
                      |.|++++|+||+||+|||+|+|||+||+||+||++|||+++.||.+|||||||+++|+|+||++.+++||.|+.++..|+
T Consensus       773 N~Pds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl~tv~sveE~il~~a~~Kl  852 (1157)
T KOG0386|consen  773 NAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLITVNSVEEKILAEAFYKL  852 (1157)
T ss_pred             cCCCCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeeeehhhHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHcCccCCCCCHHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHhcCHHHHHHHHHhhHHHHHhhhh---cccc
Q 004103          508 GIDAKVIQAGLFNTTSTAQDRREMLKEIMRRGTSSLGTDVPSEREINRLAARSDEEFWLFEKMDEERRQKENY---RSRL  584 (773)
Q Consensus       508 ~l~~~vi~~g~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~~l~~r~~~e~~~~~~~~~~~~~~~~~---~~~l  584 (773)
                      +++.+||++|.|++.++..+++++|+.++.......+++++++++||.|+||+|+|+++|++||++|.++++.   ++||
T Consensus       853 ~~d~kviqag~fdn~st~~eR~~~Le~~l~~~~~~~~~~v~~~~~ln~~larseeE~~~f~~md~~r~~~e~~~~~k~rl  932 (1157)
T KOG0386|consen  853 DVDGKVIQAGKFDNKSTAEEREMFLEQLLEMEGDEEEEEVPDDEVLNSMLARSEEEFELFHKMDEERRATENQQEKKPRL  932 (1157)
T ss_pred             CchHhhhhcccccCCCcHHHHHHHHHHHHhCCCccccccCCcHHHHHHHHhcchHHHHHHHHhhHHHHhhhhhccccchh
Confidence            9999999999999999999999999999999999888999999999999999999999999999999987654   6799


Q ss_pred             cccCccccccccCCCchhhhhccccccCCCcccCCCcccccccccCcCcCHHHHHHhhhcCCCch-hhhhhhcccccCCC
Q 004103          585 MEDHEVPEWAYSAPDNKEEQKGFEKGFGHESSSITGKRKRKEVVYADTLSDLQWMKAVENGQDIS-KLSTRGKRREYLPS  663 (773)
Q Consensus       585 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~r~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  663 (773)
                      |+++++|+|+.......+ ....+++.+  ...++|+|+||+|+|+|.+||.||+++++++.+.. +.+++++.+.....
T Consensus       933 ~ee~e~p~~i~~~~~~~~-~~~~~~~~~--~~~~rg~r~Rkev~y~d~~te~q~~k~~e~~~~~~~~~~~~~~~~~~~~~ 1009 (1157)
T KOG0386|consen  933 VEEAELPADIYKRDQGVE-RLSEEEEEE--KILGRGRRARKEVVYSDRLTEMQWLKENESVNKEDSEEEERRRGRKKSSL 1009 (1157)
T ss_pred             hhhhhcHHHHHhcchhhh-hhhhhhhhh--ccccccccccceeecccccchhhhhhhccccccccchhhhhccCCCcccc
Confidence            999999999987765322 221111111  12479999999999999999999999999965443 33332222211111


Q ss_pred             CCCCCCCCCch-hhhh----ccc--cccccccCcCCCCCccccCCCcccccc-ccccccCcccchhhcccccccccCCCC
Q 004103          664 EGNESASNSTG-AEKK----NLD--MKNEIFPLASEGTSEDTFGSAPKRLRF-ERRNSESSDIQSVEKSEHKGVQGSGLN  735 (773)
Q Consensus       664 ~~~~~~~~~~~-~~~~----~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  735 (773)
                      +. .|.+.+.+ ...+    .++  +..++....+++.-.+.|...|-||.. .+..-.+.      ..+.     -..+
T Consensus      1010 ~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~r~~~~~~~~~~s~k~~~d~~~~i~~------~~~~-----~~~~ 1077 (1157)
T KOG0386|consen 1010 DT-RPLSQKKRKLRPRSPKQALKIASTSIKYKDSAGRELSEVFLKLPSRKEYPDYYEIIKK------PVAI-----DKIK 1077 (1157)
T ss_pred             cc-ccchhhcccccCCChHHHHHHHHHHHhcccccccccchhcccCcccccccchHHHhcc------hhhH-----HHHh
Confidence            11 22222111 0000    000  001111111233345555555544333 33321111      1111     1467


Q ss_pred             cccccccccccccccccccCCCCCCCCCCCCCCC
Q 004103          736 GHILTWNTHRKKRSSYVVQTSSSDSRGQNSNGRG  769 (773)
Q Consensus       736 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  769 (773)
                      ++|.+|.++..|+..+.++.+.+++|.-|+.|+.
T Consensus      1078 ~~i~~~~~~~~~~~~~~~~~~~~na~~~~~egs~ 1111 (1157)
T KOG0386|consen 1078 KRIENHKYNSLKELEKDFMLLFNNARTYNEEGSR 1111 (1157)
T ss_pred             hhccccccchHHHHHHHHHhhcchhhhhccCCce
Confidence            8999999999999999999999999998888764

>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription] Back     alignment and domain information
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription] Back     alignment and domain information
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional Back     alignment and domain information
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only] Back     alignment and domain information
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics] Back     alignment and domain information
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair] Back     alignment and domain information
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair] Back     alignment and domain information
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription] Back     alignment and domain information
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair] Back     alignment and domain information
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription] Back     alignment and domain information
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair] Back     alignment and domain information
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair] Back     alignment and domain information
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only] Back     alignment and domain information
>PRK04914 ATP-dependent helicase HepA; Validated Back     alignment and domain information
>KOG0383 consensus Predicted helicase [General function prediction only] Back     alignment and domain information
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair] Back     alignment and domain information
>TIGR00603 rad25 DNA repair helicase rad25 Back     alignment and domain information
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e Back     alignment and domain information
>PRK13766 Hef nuclease; Provisional Back     alignment and domain information
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair] Back     alignment and domain information
>PHA02558 uvsW UvsW helicase; Provisional Back     alignment and domain information
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair] Back     alignment and domain information
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family Back     alignment and domain information
>PTZ00110 helicase; Provisional Back     alignment and domain information
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional Back     alignment and domain information
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional Back     alignment and domain information
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional Back     alignment and domain information
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional Back     alignment and domain information
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional Back     alignment and domain information
>KOG0354 consensus DEAD-box like helicase [General function prediction only] Back     alignment and domain information
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional Back     alignment and domain information
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional Back     alignment and domain information
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional Back     alignment and domain information
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional Back     alignment and domain information
>TIGR01389 recQ ATP-dependent DNA helicase RecQ Back     alignment and domain information
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional Back     alignment and domain information
>PTZ00424 helicase 45; Provisional Back     alignment and domain information
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair] Back     alignment and domain information
>TIGR00643 recG ATP-dependent DNA helicase RecG Back     alignment and domain information
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase Back     alignment and domain information
>PRK13767 ATP-dependent helicase; Provisional Back     alignment and domain information
>PRK10917 ATP-dependent DNA helicase RecG; Provisional Back     alignment and domain information
>TIGR00580 mfd transcription-repair coupling factor (mfd) Back     alignment and domain information
>PRK10689 transcription-repair coupling factor; Provisional Back     alignment and domain information
>PRK02362 ski2-like helicase; Provisional Back     alignment and domain information
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional Back     alignment and domain information
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK01172 ski2-like helicase; Provisional Back     alignment and domain information
>TIGR01587 cas3_core CRISPR-associated helicase Cas3 Back     alignment and domain information
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification] Back     alignment and domain information
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>PRK00254 ski2-like helicase; Provisional Back     alignment and domain information
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification] Back     alignment and domain information
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>COG1201 Lhr Lhr-like helicases [General function prediction only] Back     alignment and domain information
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype Back     alignment and domain information
>KOG0347 consensus RNA helicase [RNA processing and modification] Back     alignment and domain information
>KOG0343 consensus RNA Helicase [RNA processing and modification] Back     alignment and domain information
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification] Back     alignment and domain information
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>TIGR03714 secA2 accessory Sec system translocase SecA2 Back     alignment and domain information
>PRK09401 reverse gyrase; Reviewed Back     alignment and domain information
>PRK09751 putative ATP-dependent helicase Lhr; Provisional Back     alignment and domain information
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family Back     alignment and domain information
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription] Back     alignment and domain information
>KOG4284 consensus DEAD box protein [Transcription] Back     alignment and domain information
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>PRK09200 preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>PHA02653 RNA helicase NPH-II; Provisional Back     alignment and domain information
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type Back     alignment and domain information
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms] Back     alignment and domain information
>PRK12898 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only] Back     alignment and domain information
>TIGR00963 secA preprotein translocase, SecA subunit Back     alignment and domain information
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK05580 primosome assembly protein PriA; Validated Back     alignment and domain information
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only] Back     alignment and domain information
>COG1204 Superfamily II helicase [General function prediction only] Back     alignment and domain information
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>TIGR01054 rgy reverse gyrase Back     alignment and domain information
>COG4889 Predicted helicase [General function prediction only] Back     alignment and domain information
>PRK14701 reverse gyrase; Provisional Back     alignment and domain information
>TIGR00595 priA primosomal protein N' Back     alignment and domain information
>KOG0346 consensus RNA helicase [RNA processing and modification] Back     alignment and domain information
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB Back     alignment and domain information
>PRK09694 helicase Cas3; Provisional Back     alignment and domain information
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair] Back     alignment and domain information
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional Back     alignment and domain information
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only] Back     alignment and domain information
>KOG0334 consensus RNA helicase [RNA processing and modification] Back     alignment and domain information
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process Back     alignment and domain information
>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 Back     alignment and domain information
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription] Back     alignment and domain information
>PRK13104 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair] Back     alignment and domain information
>PRK12906 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification] Back     alignment and domain information
>PRK12904 preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>TIGR00631 uvrb excinuclease ABC, B subunit Back     alignment and domain information
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional Back     alignment and domain information
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins Back     alignment and domain information
>smart00487 DEXDc DEAD-like helicases superfamily Back     alignment and domain information
>PRK05298 excinuclease ABC subunit B; Provisional Back     alignment and domain information
>PRK13107 preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>cd00046 DEXDc DEAD-like helicases superfamily Back     alignment and domain information
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms] Back     alignment and domain information
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA Back     alignment and domain information
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification] Back     alignment and domain information
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases Back     alignment and domain information
>smart00490 HELICc helicase superfamily c-terminal domain Back     alignment and domain information
>PRK12899 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>PRK12900 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>cd00268 DEADc DEAD-box helicases Back     alignment and domain information
>PRK12326 preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification] Back     alignment and domain information
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative Back     alignment and domain information
>COG1110 Reverse gyrase [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>PRK13103 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair] Back     alignment and domain information
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair] Back     alignment and domain information
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi Back     alignment and domain information
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification] Back     alignment and domain information
>PRK12903 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms] Back     alignment and domain information
>PF14619 SnAC: Snf2-ATP coupling, chromatin remodelling complex Back     alignment and domain information
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification] Back     alignment and domain information
>TIGR00604 rad3 DNA repair helicase (rad3) Back     alignment and domain information
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1 Back     alignment and domain information
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only] Back     alignment and domain information
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4 Back     alignment and domain information
>CHL00122 secA preprotein translocase subunit SecA; Validated Back     alignment and domain information
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only] Back     alignment and domain information
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR00596 rad1 DNA repair protein (rad1) Back     alignment and domain information
>PRK12901 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>PRK12902 secA preprotein translocase subunit SecA; Reviewed Back     alignment and domain information
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification] Back     alignment and domain information
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification] Back     alignment and domain information
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms] Back     alignment and domain information
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional Back     alignment and domain information
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional Back     alignment and domain information
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain Back     alignment and domain information
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein Back     alignment and domain information
>PRK14873 primosome assembly protein PriA; Provisional Back     alignment and domain information
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3 Back     alignment and domain information
>smart00488 DEXDc2 DEAD-like helicases superfamily Back     alignment and domain information
>smart00489 DEXDc3 DEAD-like helicases superfamily Back     alignment and domain information
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>PF13871 Helicase_C_4: Helicase_C-like Back     alignment and domain information
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A Back     alignment and domain information
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification] Back     alignment and domain information
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion] Back     alignment and domain information
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification] Back     alignment and domain information
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>COG3587 Restriction endonuclease [Defense mechanisms] Back     alignment and domain information
>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 [] Back     alignment and domain information
>PRK10536 hypothetical protein; Provisional Back     alignment and domain information
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification] Back     alignment and domain information
>KOG1803 consensus DNA helicase [Replication, recombination and repair] Back     alignment and domain information
>TIGR00376 DNA helicase, putative Back     alignment and domain information
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A Back     alignment and domain information
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length Back     alignment and domain information
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A Back     alignment and domain information
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B Back     alignment and domain information
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane Back     alignment and domain information
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function Back     alignment and domain information
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair] Back     alignment and domain information
>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 Back     alignment and domain information
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit Back     alignment and domain information
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair] Back     alignment and domain information
>PRK11773 uvrD DNA-dependent helicase II; Provisional Back     alignment and domain information
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair] Back     alignment and domain information
>TIGR01448 recD_rel helicase, putative, RecD/TraA family Back     alignment and domain information
>TIGR02881 spore_V_K stage V sporulation protein K Back     alignment and domain information
>PRK10875 recD exonuclease V subunit alpha; Provisional Back     alignment and domain information
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK04296 thymidine kinase; Provisional Back     alignment and domain information
>PRK06526 transposase; Provisional Back     alignment and domain information
>smart00382 AAA ATPases associated with a variety of cellular activities Back     alignment and domain information
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA Back     alignment and domain information
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK09112 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK07003 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK08181 transposase; Validated Back     alignment and domain information
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK07764 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PLN03025 replication factor C subunit; Provisional Back     alignment and domain information
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only] Back     alignment and domain information
>PRK06835 DNA replication protein DnaC; Validated Back     alignment and domain information
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>CHL00181 cbbX CbbX; Provisional Back     alignment and domain information
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PF13245 AAA_19: Part of AAA domain Back     alignment and domain information
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX Back     alignment and domain information
>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 [, ] Back     alignment and domain information
>smart00492 HELICc3 helicase superfamily c-terminal domain Back     alignment and domain information
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ] Back     alignment and domain information
>PRK05707 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK07994 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>smart00491 HELICc2 helicase superfamily c-terminal domain Back     alignment and domain information
>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 Back     alignment and domain information
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair] Back     alignment and domain information
>PHA02544 44 clamp loader, small subunit; Provisional Back     alignment and domain information
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA Back     alignment and domain information
>PRK12402 replication factor C small subunit 2; Reviewed Back     alignment and domain information
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily Back     alignment and domain information
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK07952 DNA replication protein DnaC; Validated Back     alignment and domain information
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair] Back     alignment and domain information
>PRK14974 cell division protein FtsY; Provisional Back     alignment and domain information
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated Back     alignment and domain information
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda Back     alignment and domain information
>PRK08451 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>TIGR02928 orc1/cdc6 family replication initiation protein Back     alignment and domain information
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK08084 DNA replication initiation factor; Provisional Back     alignment and domain information
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair] Back     alignment and domain information
>PRK09111 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PF13173 AAA_14: AAA domain Back     alignment and domain information
>PRK10917 ATP-dependent DNA helicase RecG; Provisional Back     alignment and domain information
>PRK05580 primosome assembly protein PriA; Validated Back     alignment and domain information
>PRK08116 hypothetical protein; Validated Back     alignment and domain information
>PRK07940 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins Back     alignment and domain information
>PRK06871 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK06645 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK07993 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK08769 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK08058 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK06921 hypothetical protein; Provisional Back     alignment and domain information
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK07471 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK08903 DnaA regulatory inactivator Hda; Validated Back     alignment and domain information
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA Back     alignment and domain information
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK08691 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK06090 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK14088 dnaA chromosomal replication initiation protein; Provisional Back     alignment and domain information
>PTZ00112 origin recognition complex 1 protein; Provisional Back     alignment and domain information
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA Back     alignment and domain information
>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 Back     alignment and domain information
>PRK08727 hypothetical protein; Validated Back     alignment and domain information
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK05642 DNA replication initiation factor; Validated Back     alignment and domain information
>PRK04195 replication factor C large subunit; Provisional Back     alignment and domain information
>PRK12377 putative replication protein; Provisional Back     alignment and domain information
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA Back     alignment and domain information
>PRK06647 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK14087 dnaA chromosomal replication initiation protein; Provisional Back     alignment and domain information
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed Back     alignment and domain information
>cd01121 Sms Sms (bacterial radA) DNA repair protein Back     alignment and domain information
>TIGR00595 priA primosomal protein N' Back     alignment and domain information
>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 Back     alignment and domain information
>PRK05563 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK06893 DNA replication initiation factor; Validated Back     alignment and domain information
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin Back     alignment and domain information
>cd01120 RecA-like_NTPases RecA-like NTPases Back     alignment and domain information
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion] Back     alignment and domain information
>TIGR00362 DnaA chromosomal replication initiator protein DnaA Back     alignment and domain information
>TIGR00643 recG ATP-dependent DNA helicase RecG Back     alignment and domain information
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed Back     alignment and domain information
>PRK05896 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification] Back     alignment and domain information
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14086 dnaA chromosomal replication initiation protein; Provisional Back     alignment and domain information
>PHA02533 17 large terminase protein; Provisional Back     alignment and domain information
>PRK00411 cdc6 cell division control protein 6; Reviewed Back     alignment and domain information
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion] Back     alignment and domain information
>PRK07133 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK00440 rfc replication factor C small subunit; Reviewed Back     alignment and domain information
>TIGR01075 uvrD DNA helicase II Back     alignment and domain information
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>TIGR00678 holB DNA polymerase III, delta' subunit Back     alignment and domain information
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK06964 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK09183 transposase/IS protein; Provisional Back     alignment and domain information
>PRK13889 conjugal transfer relaxase TraA; Provisional Back     alignment and domain information
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated Back     alignment and domain information
>PRK00771 signal recognition particle protein Srp54; Provisional Back     alignment and domain information
>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 Back     alignment and domain information
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription] Back     alignment and domain information
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family Back     alignment and domain information
>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 Back     alignment and domain information
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK12422 chromosomal replication initiation protein; Provisional Back     alignment and domain information
>PTZ00293 thymidine kinase; Provisional Back     alignment and domain information
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C Back     alignment and domain information
>PRK13342 recombination factor protein RarA; Reviewed Back     alignment and domain information
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair] Back     alignment and domain information
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR03689 pup_AAA proteasome ATPase Back     alignment and domain information
>PRK04132 replication factor C small subunit; Provisional Back     alignment and domain information
>PRK06904 replicative DNA helicase; Validated Back     alignment and domain information
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau Back     alignment and domain information
>PHA03333 putative ATPase subunit of terminase; Provisional Back     alignment and domain information
>TIGR00708 cobA cob(I)alamin adenosyltransferase Back     alignment and domain information
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism] Back     alignment and domain information
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated Back     alignment and domain information
>PRK08699 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK06305 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging [] Back     alignment and domain information
>PRK10865 protein disaggregation chaperone; Provisional Back     alignment and domain information
>TIGR01074 rep ATP-dependent DNA helicase Rep Back     alignment and domain information
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>TIGR01425 SRP54_euk signal recognition particle protein SRP54 Back     alignment and domain information
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase Back     alignment and domain information
>CHL00095 clpC Clp protease ATP binding subunit Back     alignment and domain information
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes Back     alignment and domain information
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB Back     alignment and domain information
>PRK13826 Dtr system oriT relaxase; Provisional Back     alignment and domain information
>PRK11823 DNA repair protein RadA; Provisional Back     alignment and domain information
>PRK14873 primosome assembly protein PriA; Provisional Back     alignment and domain information
>PRK10416 signal recognition particle-docking protein FtsY; Provisional Back     alignment and domain information
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription] Back     alignment and domain information
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases Back     alignment and domain information
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion] Back     alignment and domain information
>cd00984 DnaB_C DnaB helicase C terminal domain Back     alignment and domain information
>PRK11054 helD DNA helicase IV; Provisional Back     alignment and domain information
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon Back     alignment and domain information
>PRK10867 signal recognition particle protein; Provisional Back     alignment and domain information
>cd01125 repA Hexameric Replicative Helicase RepA Back     alignment and domain information
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion] Back     alignment and domain information
>PHA03368 DNA packaging terminase subunit 1; Provisional Back     alignment and domain information
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK07399 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK09376 rho transcription termination factor Rho; Provisional Back     alignment and domain information
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases Back     alignment and domain information
>TIGR00580 mfd transcription-repair coupling factor (mfd) Back     alignment and domain information
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion] Back     alignment and domain information
>CHL00206 ycf2 Ycf2; Provisional Back     alignment and domain information
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional Back     alignment and domain information
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical Back     alignment and domain information
>PRK10919 ATP-dependent DNA helicase Rep; Provisional Back     alignment and domain information
>TIGR00959 ffh signal recognition particle protein Back     alignment and domain information
>TIGR00064 ftsY signal recognition particle-docking protein FtsY Back     alignment and domain information
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif Back     alignment and domain information
>TIGR03499 FlhF flagellar biosynthetic protein FlhF Back     alignment and domain information
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family Back     alignment and domain information
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP Back     alignment and domain information
>PRK10689 transcription-repair coupling factor; Provisional Back     alignment and domain information
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family Back     alignment and domain information
>PRK09165 replicative DNA helicase; Provisional Back     alignment and domain information
>PHA03372 DNA packaging terminase subunit 1; Provisional Back     alignment and domain information
>PRK13833 conjugal transfer protein TrbB; Provisional Back     alignment and domain information
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only] Back     alignment and domain information
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK08760 replicative DNA helicase; Provisional Back     alignment and domain information
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2 Back     alignment and domain information
>PRK08840 replicative DNA helicase; Provisional Back     alignment and domain information
>PRK08533 flagellar accessory protein FlaH; Reviewed Back     alignment and domain information
>PRK03992 proteasome-activating nucleotidase; Provisional Back     alignment and domain information
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query773
3mwy_W800 Crystal Structure Of The Chromodomain-atpase Portio 1e-121
1z3i_X644 Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMA 6e-65
1z6a_A500 Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN 4e-59
1z63_A500 Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COM 7e-57
1z5z_A271 Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal 1e-20
3dmq_A968 Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT 2e-05
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of The Yeast Chd1 Chromatin Remodeler Length = 800 Back     alignment and structure 
Iteration: 1

 Score =  433 bits (1113), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 239/567 (42%), Positives = 346/567 (61%), Gaps = 51/567 (8%)
Query: 29  VLEWQNLTRSFILPQVTE--------------QPTLLQGGELRAYQLEGLQWMLSLFNNN 74
           V  +QN   S ILPQ +               QP  ++GGELR +QL G+ WM  L++  
Sbjct: 196 VKHFQNRENSKILPQYSSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKG 255
Query: 75  LNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAV 134
            NGILADEMGLGKT+QT+A I++L+  +   GPH+IV P + +P W++ F  WAP +  +
Sbjct: 256 DNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCI 315
Query: 135 VYDGRPDERKAMRE-EFFSE---RGR----FNVLITHYDLIMRDRQYLKKVQWIYMIVDE 186
            Y G    R  +RE EF++    +G+    FNVL+T Y+ I++DR  L  ++W +M VDE
Sbjct: 316 CYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDE 375
Query: 187 GHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWF 246
            HRLKN E +L ++++ +++  R+L+TGTP+QN+++EL +L+NFL+P  F   +  +   
Sbjct: 376 AHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEID--- 432
Query: 247 NAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQ 306
              F+++      DEEQ   I  LH  I+PFILRR K +VEK LP K++ IL+ ++S  Q
Sbjct: 433 ---FENQ------DEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQ 483
Query: 307 KVYYQQVTDVGRVGLDTGT-GKSKSLQNLSMQLRKCCNHPYLF----------VGEYNMW 355
             YY+ +       L  G  G   SL N+  +L+K  NHPYLF           G+  M 
Sbjct: 484 TEYYKNILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMT 543
Query: 356 RKE---EIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLD 412
           R+     +I +SGK  LLD+LL +L+K GHRVL+FSQM R++DIL  YL +    F RLD
Sbjct: 544 RENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLD 603
Query: 413 GSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAE 472
           G+  + +R   +  FN+PDS  F+FLLSTRAGGLG+NL TADTV+IFDSDWNPQ D QA 
Sbjct: 604 GTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAM 663
Query: 473 DRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFN---TTSTAQDRR 529
            RAHRIGQK  V V+ LVS  ++EE +LERA++KM ++  +I  G+ +    T   +   
Sbjct: 664 ARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNA 723
Query: 530 EMLKEIMRRGTSSLGTDVPSEREINRL 556
             L  I++ G  ++ T   +++++  L
Sbjct: 724 GELSAILKFGAGNMFTATDNQKKLEDL 750
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF EUKARYOTIC Rad54 Length = 644 Back     alignment and structure
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN Length = 500 Back     alignment and structure
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With Dsdna Length = 500 Back     alignment and structure
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain Length = 271 Back     alignment and structure
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT Recycles Rna Polymerase During Transcription Length = 968 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query773
3mwy_W800 Chromo domain-containing protein 1; SWI2/SNF2 ATPa 0.0
1z3i_X644 Similar to RAD54-like; recombination ATPase helica 0.0
1z63_A500 Helicase of the SNF2/RAD54 hamily; protein-DNA com 1e-143
3dmq_A968 RNA polymerase-associated protein RAPA; SWF2/SNF2, 9e-97
3hgt_A328 HDA1 complex subunit 3; RECA-like domain, SWI2/SNF 8e-71
1z5z_A271 Helicase of the SNF2/RAD54 family; hydrolase, reco 1e-70
1wp9_A494 ATP-dependent RNA helicase, putative; ATPase, DNA 2e-27
2fwr_A472 DNA repair protein RAD25; DNA unwinding, XPB, DNA 7e-21
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-09
2fz4_A237 DNA repair protein RAD25; RECA-like domain, DNA da 5e-08
2ykg_A696 Probable ATP-dependent RNA helicase DDX58; hydrola 7e-08
4a2q_A797 RIG-I, retinoic acid inducible protein I; hydrolas 1e-07
4a2w_A936 RIG-I, retinoic acid inducible protein I; hydrolas 5e-07
4a2p_A556 RIG-I, retinoic acid inducible protein I; hydrolas 2e-05
2p6n_A191 ATP-dependent RNA helicase DDX41; DEAD, structural 4e-05
3tbk_A555 RIG-I helicase domain; DECH helicase, ATP binding, 9e-05
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae} Length = 800 Back     alignment and structure
 Score =  792 bits (2048), Expect = 0.0
 Identities = 228/588 (38%), Positives = 340/588 (57%), Gaps = 50/588 (8%)

Query: 43  QVTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENK 102
           +++ QP  ++GGELR +QL G+ WM  L++   NGILADEMGLGKT+QT+A I++L+  +
Sbjct: 224 KLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFAR 283

Query: 103 GVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMRE-EFF-------SER 154
              GPH+IV P + +P W++ F  WAP +  + Y G    R  +RE EF+        + 
Sbjct: 284 RQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKT 343

Query: 155 GRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTG 214
            +FNVL+T Y+ I++DR  L  ++W +M VDE HRLKN E +L ++++ +++  R+L+TG
Sbjct: 344 MKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITG 403

Query: 215 TPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVI 274
           TP+QN+++EL +L+NFL+P  F   +  +                DEEQ   I  LH  I
Sbjct: 404 TPLQNNIKELAALVNFLMPGRFTIDQEIDFENQ------------DEEQEEYIHDLHRRI 451

Query: 275 RPFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSK-SLQN 333
           +PFILRR K +VEK LP K++ IL+ ++S  Q  YY+ +       L  G      SL N
Sbjct: 452 QPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKNILTKNYSALTAGAKGGHFSLLN 511

Query: 334 LSMQLRKCCNHPYLFVG-------------EYNMWRKEEIIRASGKFELLDRLLPKLRKS 380
           +  +L+K  NHPYLF                        +I +SGK  LLD+LL +L+K 
Sbjct: 512 IMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKKD 571

Query: 381 GHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLS 440
           GHRVL+FSQM R++DIL  YL +    F RLDG+  + +R   +  FN+PDS  F+FLLS
Sbjct: 572 GHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLS 631

Query: 441 TRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVIL 500
           TRAGGLG+NL TADTV+IFDSDWNPQ D QA  RAHRIGQK  V V+ LVS  ++EE +L
Sbjct: 632 TRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVL 691

Query: 501 ERAKQKMGIDAKVIQAGLFNTTSTA---QDRREMLKEIMRRGTSSLGTD-----VPSERE 552
           ERA++KM ++  +I  G+ +        +     L  I++ G  ++ T         +  
Sbjct: 692 ERARKKMILEYAIISLGVTDGNKYTKKNEPNAGELSAILKFGAGNMFTATDNQKKLEDLN 751

Query: 553 INRLAARSDEEFWLFEKMDEERRQKE--------NYRSRLMEDHEVPE 592
           ++ +   +++     +  +     +E        +Y++ +  D  +PE
Sbjct: 752 LDDVLNHAEDHVTTPDLGESHLGGEEFLKQFEVTDYKADIDWDDIIPE 799
>1z3i_X Similar to RAD54-like; recombination ATPase helicase, recombination-DNA binding COM; 3.00A {Danio rerio} SCOP: c.37.1.19 c.37.1.19 Length = 644 Back     alignment and structure
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A Length = 500 Back     alignment and structure
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12} Length = 968 Back     alignment and structure
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain, chromatin regulator, coiled coil, nucleus, repressor, transcription; 2.20A {Saccharomyces cerevisiae} PDB: 3hgq_A Length = 328 Back     alignment and structure
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase-recombination complex; 2.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 Length = 271 Back     alignment and structure
>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 Length = 494 Back     alignment and structure
>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* Length = 472 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>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 Length = 237 Back     alignment and structure
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A* Length = 696 Back     alignment and structure
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos} Length = 797 Back     alignment and structure
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos} Length = 936 Back     alignment and structure
>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* Length = 556 Back     alignment and structure
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens} Length = 191 Back     alignment and structure
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus} Length = 555 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query773
3mwy_W800 Chromo domain-containing protein 1; SWI2/SNF2 ATPa 100.0
1z3i_X644 Similar to RAD54-like; recombination ATPase helica 100.0
1z63_A500 Helicase of the SNF2/RAD54 hamily; protein-DNA com 100.0
3dmq_A968 RNA polymerase-associated protein RAPA; SWF2/SNF2, 100.0
1wp9_A494 ATP-dependent RNA helicase, putative; ATPase, DNA 100.0
2fwr_A472 DNA repair protein RAD25; DNA unwinding, XPB, DNA 100.0
1z5z_A271 Helicase of the SNF2/RAD54 family; hydrolase, reco 100.0
4a2p_A556 RIG-I, retinoic acid inducible protein I; hydrolas 100.0
4a2q_A797 RIG-I, retinoic acid inducible protein I; hydrolas 100.0
4a2w_A936 RIG-I, retinoic acid inducible protein I; hydrolas 100.0
3tbk_A555 RIG-I helicase domain; DECH helicase, ATP binding, 100.0
2oca_A510 DAR protein, ATP-dependent DNA helicase UVSW; ATP- 100.0
4gl2_A699 Interferon-induced helicase C domain-containing P; 100.0
2ykg_A696 Probable ATP-dependent RNA helicase DDX58; hydrola 100.0
3hgt_A328 HDA1 complex subunit 3; RECA-like domain, SWI2/SNF 100.0
1xti_A391 Probable ATP-dependent RNA helicase P47; alpha-bet 100.0
3h1t_A590 Type I site-specific restriction-modification syst 100.0
1s2m_A400 Putative ATP-dependent RNA helicase DHH1; ATP-bind 100.0
1hv8_A367 Putative ATP-dependent RNA helicase MJ0669; RNA-bi 100.0
2j0s_A410 ATP-dependent RNA helicase DDX48; mRNA processing, 100.0
2z0m_A337 337AA long hypothetical ATP-dependent RNA helicase 100.0
3eiq_A414 Eukaryotic initiation factor 4A-I; PDCD4, anti-onc 100.0
2db3_A434 ATP-dependent RNA helicase VASA; DEAD-BOX, protein 100.0
2i4i_A417 ATP-dependent RNA helicase DDX3X; DEAD, structural 99.98
3pey_A395 ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A 99.98
1fuu_A394 Yeast initiation factor 4A; IF4A, helicase, DEAD-b 99.97
3oiy_A414 Reverse gyrase helicase domain; topoisomerase, DNA 99.97
1oyw_A523 RECQ helicase, ATP-dependent DNA helicase; winged 99.97
3fht_A412 ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box 99.97
2v1x_A591 ATP-dependent DNA helicase Q1; DNA strand annealin 99.97
3sqw_A579 ATP-dependent RNA helicase MSS116, mitochondrial; 99.96
3i5x_A563 ATP-dependent RNA helicase MSS116; protein-RNA com 99.96
3fho_A508 ATP-dependent RNA helicase DBP5; mRNA export, ATPa 99.96
2eyq_A1151 TRCF, transcription-repair coupling factor; MFD, S 99.96
3fmp_B479 ATP-dependent RNA helicase DDX19B; nuclear porin, 99.95
2xgj_A 1010 ATP-dependent RNA helicase DOB1; hydrolase-RNA com 99.95
1gm5_A780 RECG; helicase, replication restart; HET: DNA ADP; 99.95
3l9o_A 1108 ATP-dependent RNA helicase DOB1; REC-A fold, winge 99.93
2va8_A715 SSO2462, SKI2-type helicase; hydrolase, DNA repair 99.93
4a4z_A 997 Antiviral helicase SKI2; hydrolase, ATPase, mRNA d 99.93
2zj8_A720 DNA helicase, putative SKI2-type helicase; RECA fo 99.93
2p6r_A702 Afuhel308 helicase; protein-DNA complex, SF2 helic 99.93
4ddu_A 1104 Reverse gyrase; topoisomerase, DNA supercoiling, a 99.93
2w00_A1038 HSDR, R.ECOR124I; ATP-binding, DNA-binding, restri 99.91
1gku_B 1054 Reverse gyrase, TOP-RG; topoisomerase, DNA superco 99.89
2v6i_A431 RNA helicase; membrane, hydrolase, transmembrane, 99.85
1tf5_A844 Preprotein translocase SECA subunit; ATPase, helic 99.84
2wv9_A673 Flavivirin protease NS2B regulatory subunit, FLAV 99.83
2jlq_A451 Serine protease subunit NS3; ribonucleoprotein, nu 99.83
1yks_A440 Genome polyprotein [contains: flavivirin protease 99.83
2z83_A459 Helicase/nucleoside triphosphatase; hydrolase, mem 99.83
4f92_B 1724 U5 small nuclear ribonucleoprotein 200 kDa helica; 99.82
2fsf_A853 Preprotein translocase SECA subunit; ATPase, DNA-R 99.81
2whx_A618 Serine protease/ntpase/helicase NS3; transcription 99.8
1nkt_A922 Preprotein translocase SECA 1 subunit; preprotein 99.8
4f92_B 1724 U5 small nuclear ribonucleoprotein 200 kDa helica; 99.79
1rif_A282 DAR protein, DNA helicase UVSW; bacteriophage, REC 99.79
1t5i_A172 C_terminal domain of A probable ATP-dependent RNA 99.78
2xau_A773 PRE-mRNA-splicing factor ATP-dependent RNA helica; 99.78
2hjv_A163 ATP-dependent RNA helicase DBPA; parallel alpha-be 99.78
3rc3_A677 ATP-dependent RNA helicase SUPV3L1, mitochondrial; 99.78
2fz4_A237 DNA repair protein RAD25; RECA-like domain, DNA da 99.78
3o8b_A666 HCV NS3 protease/helicase; ntpase, RNA, translocat 99.77
2jgn_A185 DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp 99.77
2d7d_A661 Uvrabc system protein B; helicase, protein-DNA-ADP 99.75
1fuk_A165 Eukaryotic initiation factor 4A; helicase, DEAD-bo 99.75
2p6n_A191 ATP-dependent RNA helicase DDX41; DEAD, structural 99.75
2rb4_A175 ATP-dependent RNA helicase DDX25; rossmann fold, s 99.73
1c4o_A664 DNA nucleotide excision repair enzyme UVRB; uvrabc 99.73
3eaq_A212 Heat resistant RNA dependent ATPase; DEAD box RNA 99.71
1t6n_A220 Probable ATP-dependent RNA helicase; RECA-like fol 99.7
2gxq_A207 Heat resistant RNA dependent ATPase; RNA helicase, 99.7
3jux_A822 Protein translocase subunit SECA; protein transloc 99.7
2yjt_D170 ATP-dependent RNA helicase SRMB, regulator of ribo 99.53
3b6e_A216 Interferon-induced helicase C domain-containing P; 99.68
1vec_A206 ATP-dependent RNA helicase P54; DEAD-box protein, 99.67
3ber_A249 Probable ATP-dependent RNA helicase DDX47; DEAD, A 99.67
2oxc_A230 Probable ATP-dependent RNA helicase DDX20; DEAD, s 99.67
2pl3_A236 Probable ATP-dependent RNA helicase DDX10; DEAD, s 99.66
3i32_A300 Heat resistant RNA dependent ATPase; RNA helicase, 99.65
1qde_A224 EIF4A, translation initiation factor 4A; DEAD box 99.64
1wrb_A253 DJVLGB; RNA helicase, DEAD BOX, VASA, structural g 99.64
1q0u_A219 Bstdead; DEAD protein, RNA binding protein; 1.85A 99.63
3bor_A237 Human initiation factor 4A-II; translation initiat 99.62
3iuy_A228 Probable ATP-dependent RNA helicase DDX53; REC-A-l 99.58
3ly5_A262 ATP-dependent RNA helicase DDX18; alpha-beta, stru 99.56
3dkp_A245 Probable ATP-dependent RNA helicase DDX52; DEAD, A 99.55
3fe2_A242 Probable ATP-dependent RNA helicase DDX5; DEAD, AD 99.55
2vl7_A540 XPD; helicase, unknown function; 2.25A {Sulfolobus 99.51
2ipc_A 997 Preprotein translocase SECA subunit; nucleotide bi 99.42
3fmo_B300 ATP-dependent RNA helicase DDX19B; nuclear porin, 99.37
4a15_A620 XPD helicase, ATP-dependent DNA helicase TA0057; h 99.06
3crv_A551 XPD/RAD3 related DNA helicase; XPD helicase DNA re 98.94
3llm_A235 ATP-dependent RNA helicase A; alpha-beta-alpha, st 98.92
4b3f_X646 DNA-binding protein smubp-2; hydrolase, helicase; 97.83
2gk6_A624 Regulator of nonsense transcripts 1; UPF1, helicas 97.63
3upu_A459 ATP-dependent DNA helicase DDA; RECA-like domain, 97.48
2xzl_A802 ATP-dependent helicase NAM7; hydrolase-RNA complex 97.41
3lfu_A647 DNA helicase II; SF1 helicase, ATP-binding, DNA da 97.4
2wjy_A800 Regulator of nonsense transcripts 1; nonsense medi 97.36
3e1s_A574 Exodeoxyribonuclease V, subunit RECD; alpha and be 97.32
1w36_D608 RECD, exodeoxyribonuclease V alpha chain; recombin 97.21
2o0j_A385 Terminase, DNA packaging protein GP17; nucleotide- 96.6
1uaa_A673 REP helicase, protein (ATP-dependent DNA helicase 96.52
2orw_A184 Thymidine kinase; TMTK, TP4A, transferase; HET: 4T 96.18
3vkw_A446 Replicase large subunit; alpha/beta domain, helica 96.1
1pjr_A724 PCRA; DNA repair, DNA replication, SOS response, h 95.97
2b8t_A223 Thymidine kinase; deoxyribonucleoside kinase, zinc 95.88
3cpe_A592 Terminase, DNA packaging protein GP17; large termi 95.78
3syl_A309 Protein CBBX; photosynthesis, rubisco activase, AA 95.33
3u61_B324 DNA polymerase accessory protein 44; AAA+, ATP hyd 94.94
1a5t_A334 Delta prime, HOLB; zinc finger, DNA replication; 2 94.94
1xx6_A191 Thymidine kinase; NESG, northeast structural genom 94.84
1l8q_A324 Chromosomal replication initiator protein DNAA; AA 94.79
2j9r_A214 Thymidine kinase; TK1, DNK, lasso, transferase, AT 94.78
2chg_A226 Replication factor C small subunit; DNA-binding pr 94.73
2orv_A234 Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2 94.6
3te6_A318 Regulatory protein SIR3; heterochromatin, gene sil 94.06
2p65_A187 Hypothetical protein PF08_0063; CLPB, malaria, str 93.95
1jbk_A195 CLPB protein; beta barrel, chaperone; 1.80A {Esche 93.93
1njg_A250 DNA polymerase III subunit gamma; rossman-like fol 93.9
1iqp_A327 RFCS; clamp loader, extended AAA-ATPase domain, co 93.37
3bos_A242 Putative DNA replication factor; P-loop containing 93.2
3ec2_A180 DNA replication protein DNAC; helicase loader, rep 93.2
1sxj_D353 Activator 1 41 kDa subunit; clamp loader, processi 93.15
3h4m_A285 Proteasome-activating nucleotidase; ATPase, PAN, A 93.05
3n70_A145 Transport activator; sigma-54, ntpase, PSI, MCSG, 93.02
1sxj_B323 Activator 1 37 kDa subunit; clamp loader, processi 92.99
4b4t_J405 26S protease regulatory subunit 8 homolog; hydrola 92.81
2gno_A305 DNA polymerase III, gamma subunit-related protein; 92.68
2v1u_A387 Cell division control protein 6 homolog; DNA repli 92.57
2qby_B384 CDC6 homolog 3, cell division control protein 6 ho 92.5
3eie_A322 Vacuolar protein sorting-associated protein 4; AAA 92.23
2qz4_A262 Paraplegin; AAA+, SPG7, protease, ADP, structural 92.09
1w4r_A195 Thymidine kinase; type II, human, cytosolic, phosp 92.02
2z4s_A440 Chromosomal replication initiator protein DNAA; AA 91.91
1jr3_A373 DNA polymerase III subunit gamma; processivity, pr 91.58
1xwi_A322 SKD1 protein; VPS4B, AAA ATPase, protein transport 91.23
3crv_A551 XPD/RAD3 related DNA helicase; XPD helicase DNA re 91.08
1fnn_A389 CDC6P, cell division control protein 6; ORC1, AAA 91.08
2qp9_X355 Vacuolar protein sorting-associated protein 4; ATP 90.97
3vfd_A389 Spastin; ATPase, microtubule severing, hydrolase; 90.88
3co5_A143 Putative two-component system transcriptional RES 90.76
3uk6_A368 RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding 90.53
3e2i_A219 Thymidine kinase; Zn-binding, ATP-binding, DNA syn 90.34
1ofh_A310 ATP-dependent HSL protease ATP-binding subunit HSL 90.25
2q6t_A444 DNAB replication FORK helicase; hydrolase; 2.90A { 89.64
1sxj_E354 Activator 1 40 kDa subunit; clamp loader, processi 89.5
1gm5_A780 RECG; helicase, replication restart; HET: DNA ADP; 89.39
4b4t_H467 26S protease regulatory subunit 7 homolog; hydrola 89.29
3t15_A293 Ribulose bisphosphate carboxylase/oxygenase activ 89.15
2zan_A444 Vacuolar protein sorting-associating protein 4B; S 89.09
2qby_A386 CDC6 homolog 1, cell division control protein 6 ho 88.1
1sxj_C340 Activator 1 40 kDa subunit; clamp loader, processi 88.0
4fcw_A311 Chaperone protein CLPB; AAA domain; HET: ADP; 2.35 87.73
1sxj_A516 Activator 1 95 kDa subunit; clamp loader, processi 87.63
4b4t_L437 26S protease subunit RPT4; hydrolase, AAA-atpases, 87.23
2bjv_A265 PSP operon transcriptional activator; AAA, transcr 87.19
3cf0_A301 Transitional endoplasmic reticulum ATPase; AAA, P9 87.09
2r6a_A454 DNAB helicase, replicative helicase; replication, 87.06
2chq_A319 Replication factor C small subunit; DNA-binding pr 87.04
3oiy_A414 Reverse gyrase helicase domain; topoisomerase, DNA 86.94
3d8b_A357 Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s 86.89
4a1f_A338 DNAB helicase, replicative DNA helicase; hydrolase 86.53
4b4t_I437 26S protease regulatory subunit 4 homolog; hydrola 86.35
3b9p_A297 CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc 86.2
3dm5_A443 SRP54, signal recognition 54 kDa protein; protein- 86.01
1g5t_A196 COB(I)alamin adenosyltransferase; P-loop protein, 85.58
3kl4_A433 SRP54, signal recognition 54 kDa protein; signal r 85.57
3hu3_A489 Transitional endoplasmic reticulum ATPase; VCP, tr 85.51
1d2n_A272 N-ethylmaleimide-sensitive fusion protein; hexamer 85.26
3pvs_A447 Replication-associated recombination protein A; ma 85.01
1w5s_A412 Origin recognition complex subunit 2 ORC2; replica 84.58
1ojl_A304 Transcriptional regulatory protein ZRAR; response 84.42
2kjq_A149 DNAA-related protein; solution structure, NESG, st 84.05
3hjh_A483 Transcription-repair-coupling factor; MFD, mutatio 83.9
1r6b_X758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 82.99
3bgw_A444 DNAB-like replicative helicase; ATPase, replicatio 82.77
2ce7_A476 Cell division protein FTSH; metalloprotease; HET: 82.7
2cvh_A220 DNA repair and recombination protein RADB; filamen 81.71
2zts_A251 Putative uncharacterized protein PH0186; KAIC like 81.37
3bh0_A315 DNAB-like replicative helicase; ATPase, replicatio 81.06
1qvr_A854 CLPB protein; coiled coil, AAA ATPase, chaperone; 80.86
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae} Back     alignment and structure
Probab=100.00  E-value=1.6e-82  Score=768.38  Aligned_cols=491  Identities=45%  Similarity=0.777  Sum_probs=416.3

Q ss_pred             ccCCCCCcCCCCchHHHHHHHHHHHHhhcCCCCeEEecCCCCCHHHHHHHHHHHHHHhcCCCCCEEEEeCCcchHHHHHH
Q 004103           44 VTEQPTLLQGGELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINE  123 (773)
Q Consensus        44 ~~~~P~~l~~~~LrpyQ~~gv~~l~~~~~~~~~gILademGlGKTi~aiali~~l~~~~~~~gp~LIVvP~sll~qW~~E  123 (773)
                      ...+|+.+.+++|||||++|++||+..+.++.+|||||+||+|||+|+|+++.+++......+|+|||||.+++.||..|
T Consensus       225 ~~~~p~~~~~~~Lr~yQ~egv~~l~~~~~~~~~~ILademGlGKT~~ai~~i~~l~~~~~~~~~~LIV~P~sll~qW~~E  304 (800)
T 3mwy_W          225 LSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDT  304 (800)
T ss_dssp             CSSCCTTCCSSCCCTHHHHHHHHHHHHHTTTCCEEECCCTTSSTTHHHHHHHHHHHHHHSCCSCEEEECCTTTHHHHHHH
T ss_pred             cccCCCccCCCCcCHHHHHHHHHHHHHhhcCCCEEEEeCCCcchHHHHHHHHHHHHHhcCCCCCEEEEECchHHHHHHHH
Confidence            34667777789999999999999999999999999999999999999999999998877888999999999999999999


Q ss_pred             HHhhcCCceEEEecCChhHHHHHHHHHH--------hhcCCccEEEcCHHHHHHhHHHHhhcCeeEEEEccccccCChhh
Q 004103          124 FSTWAPSIAAVVYDGRPDERKAMREEFF--------SERGRFNVLITHYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHEC  195 (773)
Q Consensus       124 ~~k~~p~~~v~~~~g~~~~r~~~~~~~~--------~~~~~~~VvItTye~l~~~~~~l~~~~~~~vIiDEaH~lkn~~s  195 (773)
                      |.+|+|++.+++|.|....+..+....+        .....++|+||||+++.++...+..+.|++|||||||++||..+
T Consensus       305 ~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~~~~~~dvvitTy~~l~~~~~~l~~~~w~~vIvDEaH~lkn~~s  384 (800)
T 3mwy_W          305 FEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAES  384 (800)
T ss_dssp             HHHHSTTCCEEECCCSSHHHHHHHHHHSCSCC-----CCCCCSEEEECTTHHHHTHHHHHTSEEEEEEETTGGGGCCSSS
T ss_pred             HHHHCCCceEEEEeCCHHHHHHHHHHHhhccccccccccccCCEEEecHHHHHhhHHHHhcCCcceeehhhhhhhcCchh
Confidence            9999999999999999988877655332        12357899999999999999999999999999999999999999


Q ss_pred             HHHHHHHccccceEEEecCCCCCCCHHHHHHhhccccCCCCCChHhHHHHhcccccccCCccCChHHHHHHHHHHHhhhh
Q 004103          196 ALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIR  275 (773)
Q Consensus       196 ~~~~~l~~~~~~~rllLTgTP~~n~~~el~~lL~~L~p~~~~~~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~~L~  275 (773)
                      ++++++..+.+.+||+|||||++|++.|||++++||.|+.|.....|.-.            .........+..|+.+++
T Consensus       385 ~~~~~l~~l~~~~rl~LTgTPiqN~l~el~~ll~fL~p~~~~~~~~~~~~------------~~~~~~~~~~~~L~~~l~  452 (800)
T 3mwy_W          385 SLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFE------------NQDEEQEEYIHDLHRRIQ  452 (800)
T ss_dssp             HHHHHHTTSEEEEEEEECSCCCSSCSHHHHHHHHHHCSCCC---------------------CCTTHHHHHHHHHHHTTG
T ss_pred             HHHHHHHHhhhccEEEeeCCcCCCCHHHHHHHHHHhCccccCchhhhccc------------ccchhHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999876555311            112234456788999999


Q ss_pred             hhhhhhhhhHHhhcCCCceeEEEEecCCHHHHHHHHHHHHhcccccccC-CCccchHHHHHHHHHHHhCCCCcccccccc
Q 004103          276 PFILRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTG-TGKSKSLQNLSMQLRKCCNHPYLFVGEYNM  354 (773)
Q Consensus       276 p~~lRR~k~dv~~~LP~k~e~~v~~~~s~~q~~~Y~~i~~~~~~~~~~~-~~~~~~~~~~~~~Lrk~~~hP~l~~~~~~~  354 (773)
                      |+++||++.++...||++.+.++.|+|++.|+.+|+.+.......+..+ .+....+.+++++|+++|+||+++......
T Consensus       453 p~~lRR~k~dv~~~LP~k~~~~v~v~ls~~q~~~Y~~i~~~~~~~l~~~~~~~~~~~l~~l~~Lrk~~~hp~l~~~~~~~  532 (800)
T 3mwy_W          453 PFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKNILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEER  532 (800)
T ss_dssp             GGEEECCGGGGTTTSCCEEEEEEEECCCHHHHHHHHHHHHHCCC----------CTHHHHHHHHHHHHHCGGGSSSHHHH
T ss_pred             HHHhhhhHHhhhhccCCcEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHhcChhhhcchHHH
Confidence            9999999999999999999999999999999999999988765544332 234457899999999999999998653211


Q ss_pred             -------------hhhHHHHhhcchHHHHHHHHHHhhhcCCcEEEEeecHHHHHHHHHHHHhCCCeEEEEcCCCCHHHHH
Q 004103          355 -------------WRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERG  421 (773)
Q Consensus       355 -------------~~~~~l~~~s~K~~~L~~ll~~l~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~  421 (773)
                                   .....++..|+|+.+|.++|..+...|+|+||||+++.++++|+++|...|+++.+++|+++.++|+
T Consensus       533 ~~~~~~~~~~~~~~~~~~l~~~s~K~~~L~~lL~~~~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~  612 (800)
T 3mwy_W          533 VLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRR  612 (800)
T ss_dssp             HCCCC----CCSHHHHHHHHHTCHHHHHHHHHHHHHTTTTCCEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHH
T ss_pred             HHHhcccccccHHHHHHHhhhcChHHHHHHHHHHHHhhCCCeEEEEechHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHH
Confidence                         1134567889999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEecccccccCCcccCCeeEEeCCCCChhhHHHHhhhhhhcCCcCeEEEEEEEeCCCHHHHHHH
Q 004103          422 TLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILE  501 (773)
Q Consensus       422 ~~i~~Fn~~~~~~~v~LlSt~agg~GLNL~~ad~VI~~D~~wNp~~~~Qa~gRa~RiGQ~k~V~V~rLi~~~tiEe~i~~  501 (773)
                      +++++|++++++.++||+||++||+||||+.|++||+||++|||..+.||+||+||+||+++|.||+|++.+|+|++|++
T Consensus       613 ~~i~~F~~~~~~~~v~LlSt~agg~GlNL~~a~~VI~~D~~wnp~~~~Qa~gR~~RiGQ~k~V~Vyrlv~~~TiEe~i~~  692 (800)
T 3mwy_W          613 ISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLE  692 (800)
T ss_dssp             HHHHTTSSTTCSCCCEEEEHHHHTTTCCCTTCCEEEESSCCSCSHHHHHHHTTTSCSSCCSCEEEEEEEETTSHHHHHHH
T ss_pred             HHHHHhhCCCCCceEEEEecccccCCCCccccceEEEecCCCChhhHHHHHHHHHhcCCCceEEEEEEecCCCHHHHHHH
Confidence            99999999988888999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhHHHHHHHcCccCCCCC---HHHHHHHHHHHHHhccCCCCCC
Q 004103          502 RAKQKMGIDAKVIQAGLFNTTST---AQDRREMLKEIMRRGTSSLGTD  546 (773)
Q Consensus       502 ~~~~K~~l~~~vi~~g~~~~~~~---~~~~~~~l~~i~~~~~~~~~~~  546 (773)
                      ++.+|+.++.++|+.|..+....   .....+.|.+|++.|+..+..+
T Consensus       693 ~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~el~~ll~~g~~~~~~~  740 (800)
T 3mwy_W          693 RARKKMILEYAIISLGVTDGNKYTKKNEPNAGELSAILKFGAGNMFTA  740 (800)
T ss_dssp             HHHHHTTSCC----------------CCCCHHHHHHHHSSCSSSSCCS
T ss_pred             HHHHHHHHHHHHHccCcccccccccccCCCHHHHHHHHHcchHhhhhc
Confidence            99999999999999876544221   0112345777888887765443
>1z3i_X Similar to RAD54-like; recombination ATPase helicase, recombination-DNA binding COM; 3.00A {Danio rerio} SCOP: c.37.1.19 c.37.1.19 Back     alignment and structure
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A Back     alignment and structure
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12} Back     alignment and structure
>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 Back     alignment and structure
>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* Back     alignment and structure
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase-recombination complex; 2.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 Back     alignment and structure
>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* Back     alignment and structure
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos} Back     alignment and structure
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos} Back     alignment and structure
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus} Back     alignment and structure
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4} Back     alignment and structure
>4gl2_A Interferon-induced helicase C domain-containing P; MDA5, dsRNA, anti-viral signaling, RIG-I, MAVS, oligomerizat helicase, ATPase; HET: ANP; 3.56A {Homo sapiens} Back     alignment and structure
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A* Back     alignment and structure
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain, chromatin regulator, coiled coil, nucleus, repressor, transcription; 2.20A {Saccharomyces cerevisiae} PDB: 3hgq_A Back     alignment and structure
>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 Back     alignment and structure
>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii} Back     alignment and structure
>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} Back     alignment and structure
>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} Back     alignment and structure
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens} Back     alignment and structure
>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* Back     alignment and structure
>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* Back     alignment and structure
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A* Back     alignment and structure
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix, helix-turn-helix, ATP binding, Zn(2+) binding, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43 c.37.1.19 c.37.1.19 PDB: 1oyy_A* Back     alignment and structure
>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 Back     alignment and structure
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch repair, nucleotide-binding, DNA-binding, polymorphism, nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens} PDB: 2wwy_A* Back     alignment and structure
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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} Back     alignment and structure
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae} Back     alignment and structure
>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 Back     alignment and structure
>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} Back     alignment and structure
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus} Back     alignment and structure
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure
>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A Back     alignment and structure
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system, helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP; 2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B* Back     alignment and structure
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B* Back     alignment and structure
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A Back     alignment and structure
>1tf5_A Preprotein translocase SECA subunit; ATPase, helicase, translocation, secretion, protein transport; 2.18A {Bacillus subtilis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19 c.37.1.19 PDB: 1tf2_A 3iqy_A 1m6n_A 1m74_A* 3iqm_A 3jv2_A* 2ibm_A* 3dl8_A 1sx0_A 1sx1_A 1tm6_A Back     alignment and structure
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus} Back     alignment and structure
>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 Back     alignment and structure
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A* Back     alignment and structure
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A Back     alignment and structure
>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B Back     alignment and structure
>2fsf_A Preprotein translocase SECA subunit; ATPase, DNA-RNA helicase, protein translocation, protein transport; 2.00A {Escherichia coli} PDB: 2fsg_A* 2fsh_A* 2fsi_A* 2vda_A 3bxz_A* Back     alignment and structure
>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 Back     alignment and structure
>1nkt_A Preprotein translocase SECA 1 subunit; preprotein translocation, ATPase, transmembrane transport, helicase-like motor domain; HET: ADP; 2.60A {Mycobacterium tuberculosis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19 c.37.1.19 PDB: 1nl3_A Back     alignment and structure
>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B Back     alignment and structure
>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 Back     alignment and structure
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo sapiens} SCOP: c.37.1.19 Back     alignment and structure
>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* Back     alignment and structure
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis} Back     alignment and structure
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A Back     alignment and structure
>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 Back     alignment and structure
>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA compl protease/ntpase/helicase, hydrolase; 1.95A {Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4b71_A* 4b73_A* 4b74_A* 4b76_A* 4b75_A* 4a92_A* 1cu1_A 4b6e_A* 4b6f_A* 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A* 3kqh_A 3kqk_A ... Back     alignment and structure
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation, nucleotide-binding, hydrolase, RNA-binding, ATP-binding, DNA-binding, nuclear protein; 1.91A {Homo sapiens} Back     alignment and structure
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B* Back     alignment and structure
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19 Back     alignment and structure
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens} Back     alignment and structure
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural genomics, structural consortium, SGC, alternative initiation, ATP-binding, devel protein; 2.80A {Homo sapiens} Back     alignment and structure
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A* Back     alignment and structure
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer, ATP-binding, helicase, hydrolase, nucleotide-binding; 2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3jux_A Protein translocase subunit SECA; protein translocation, ATPase, conformational change, peptide binding, ATP-binding, cell inner membrane; HET: ADP; 3.10A {Thermotoga maritima} PDB: 3din_A* Back     alignment and structure
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity A; hydrolase inhibitor-hydrolase complex, DEAD box RNA helicase; 2.90A {Escherichia coli} Back     alignment and structure
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens} Back     alignment and structure
>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19 Back     alignment and structure
>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} Back     alignment and structure
>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* Back     alignment and structure
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens} Back     alignment and structure
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA recognition motif, ATP-BIND helicase, nucleotide-binding; 2.80A {Thermus thermophilus} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19 Back     alignment and structure
>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* Back     alignment and structure
>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} Back     alignment and structure
>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} Back     alignment and structure
>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} Back     alignment and structure
>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 Back     alignment and structure
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii} Back     alignment and structure
>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold, ATPase, parallel dimer; 2.80A {Thermus thermophilus} Back     alignment and structure
>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} Back     alignment and structure
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A* Back     alignment and structure
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1* Back     alignment and structure
>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} Back     alignment and structure
>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A Back     alignment and structure
>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 Back     alignment and structure
>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} Back     alignment and structure
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae} Back     alignment and structure
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A* Back     alignment and structure
>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 Back     alignment and structure
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A* Back     alignment and structure
>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* Back     alignment and structure
>2o0j_A Terminase, DNA packaging protein GP17; nucleotide-binding fold, hydrolase; HET: DNA ADP; 1.80A {Enterobacteria phage T4} PDB: 2o0h_A* 2o0k_A* Back     alignment and structure
>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex (helicase/DNA), DNA unwinding, hydrolase/DNA complex; HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 Back     alignment and structure
>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A* Back     alignment and structure
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus} Back     alignment and structure
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP- binding, DNA-binding; 2.50A {Geobacillus stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C* 2pjr_B* Back     alignment and structure
>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* Back     alignment and structure
>3cpe_A Terminase, DNA packaging protein GP17; large terminase, alternative initiation, ATP-binding, DNA- binding, hydrolase, nuclease; HET: DNA; 2.80A {Bacteriophage T4} PDB: 3ezk_A* Back     alignment and structure
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Back     alignment and structure
>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* Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure
>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* Back     alignment and structure
>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* Back     alignment and structure
>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} Back     alignment and structure
>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 Back     alignment and structure
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae} Back     alignment and structure
>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum} Back     alignment and structure
>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20 Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure
>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Back     alignment and structure
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli} Back     alignment and structure
>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 Back     alignment and structure
>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>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 Back     alignment and structure
>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Back     alignment and structure
>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} Back     alignment and structure
>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 Back     alignment and structure
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Back     alignment and structure
>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A* Back     alignment and structure
>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* Back     alignment and structure
>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* Back     alignment and structure
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Back     alignment and structure
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1* Back     alignment and structure
>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 Back     alignment and structure
>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* Back     alignment and structure
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Back     alignment and structure
>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae} Back     alignment and structure
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Back     alignment and structure
>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus} Back     alignment and structure
>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* Back     alignment and structure
>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Back     alignment and structure
>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 Back     alignment and structure
>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} Back     alignment and structure
>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 Back     alignment and structure
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A* Back     alignment and structure
>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 Back     alignment and structure
>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>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* Back     alignment and structure
>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} Back     alignment and structure
>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A Back     alignment and structure
>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 Back     alignment and structure
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A* Back     alignment and structure
>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} Back     alignment and structure
>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori} Back     alignment and structure
>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Back     alignment and structure
>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} Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* Back     alignment and structure
>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* Back     alignment and structure
>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Back     alignment and structure
>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* Back     alignment and structure
>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium} Back     alignment and structure
>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B} Back     alignment and structure
>3hjh_A Transcription-repair-coupling factor; MFD, mutation frequency decline, ATP-binding, DNA DAMA repair, DNA-binding, helicase, hydrolase; 1.95A {Escherichia coli} PDB: 2b2n_A* 4dfc_A Back     alignment and structure
>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* Back     alignment and structure
>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1} Back     alignment and structure
>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* Back     alignment and structure
>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A* Back     alignment and structure
>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii} Back     alignment and structure
>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1} Back     alignment and structure
>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 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 773
d1z3ix1346 c.37.1.19 (X:390-735) Rad54-like, Rad54L {Zebra fi 3e-46
d1z3ix2298 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fis 5e-46
d1z63a1230 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 h 4e-45
d1z5za1244 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 h 2e-28
d2fwra1200 c.37.1.19 (A:257-456) DNA repair protein RAD25 {Ar 9e-20
d1wp9a2286 c.37.1.19 (A:201-486) putative ATP-dependent RNA h 4e-17
d2fz4a1206 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Arc 6e-12
d1wp9a1200 c.37.1.19 (A:1-200) putative ATP-dependent RNA hel 1e-05
d1yksa1140 c.37.1.14 (A:185-324) YFV helicase domain {Yellow 6e-05
d1hv8a2155 c.37.1.19 (A:211-365) Putative DEAD box RNA helica 2e-04
>d1z3ix1 c.37.1.19 (X:390-735) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]} Length = 346 Back     information, alignment and structure

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]

 Score =  166 bits (421), Expect = 3e-46
 Identities = 84/253 (33%), Positives = 133/253 (52%), Gaps = 18/253 (7%)

Query: 283 KDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSK-SLQNLSMQLRKC 341
            D + KYLP K + ++ C+++  QK  Y+      +      TGK   S  +    L+K 
Sbjct: 2   SDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKISVSSLSSITSLKKL 61

Query: 342 CNHPYLFVGEY----------------NMWRKEEIIRASGKFELLDRLLPKLRKS-GHRV 384
           CNHP L   +                 N   K    + SGK  +LD +L   R +   +V
Sbjct: 62  CNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDYILAMTRTTTSDKV 121

Query: 385 LLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAG 444
           +L S  T+ +D+ E   +   + ++RLDG+   ++R  ++++FN P SP F+F+LS++AG
Sbjct: 122 VLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAG 181

Query: 445 GLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAK 504
           G GLNL  A+ +++FD DWNP  D+QA  R  R GQKK   ++ L+S G+IEE IL+R  
Sbjct: 182 GCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKILQRQA 241

Query: 505 QKMGIDAKVIQAG 517
            K  + + V+   
Sbjct: 242 HKKALSSCVVDEE 254
>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]} Length = 298 Back     information, alignment and structure
>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]} Length = 230 Back     information, alignment and structure
>d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]} Length = 244 Back     information, alignment and structure
>d2fwra1 c.37.1.19 (A:257-456) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 200 Back     information, alignment and structure
>d1wp9a2 c.37.1.19 (A:201-486) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Length = 286 Back     information, alignment and structure
>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 206 Back     information, alignment and structure
>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Length = 200 Back     information, alignment and structure
>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]} Length = 140 Back     information, alignment and structure
>d1hv8a2 c.37.1.19 (A:211-365) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 155 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query773
d1z3ix1346 Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI 100.0
d1z63a1230 Helicase of the SNF2/Rad54 hamily {Sulfolobus solf 100.0
d1z3ix2298 Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI 100.0
d1z5za1244 Helicase of the SNF2/Rad54 hamily {Sulfolobus solf 100.0
d2fwra1200 DNA repair protein RAD25 {Archaeoglobus fulgidus [ 99.9
d2fz4a1206 DNA repair protein RAD25 {Archaeoglobus fulgidus [ 99.85
d1t5ia_168 Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo 99.83
d1s2ma2171 Putative ATP-dependent RNA helicase DHH1 {Baker's 99.83
d1wp9a2286 putative ATP-dependent RNA helicase PF2015 {Pyroco 99.82
d1hv8a2155 Putative DEAD box RNA helicase {Archaeon Methanoco 99.81
d1fuka_162 Initiation factor 4a {Baker's yeast (Saccharomyces 99.81
d2bmfa2305 Dengue virus helicase {Dengue virus type 2 [TaxId: 99.8
d2j0sa2168 Probable ATP-dependent RNA helicase DDX48 {Human ( 99.79
d1rifa_282 DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665] 99.78
d1wp9a1200 putative ATP-dependent RNA helicase PF2015 {Pyroco 99.76
d2rb4a1168 ATP-dependent RNA helicase DDX25 {Human (Homo sapi 99.76
d1oywa3200 RecQ helicase domain {Escherichia coli [TaxId: 562 99.71
d1t5la2181 Nucleotide excision repair enzyme UvrB {Bacillus c 99.67
d1c4oa2174 Nucleotide excision repair enzyme UvrB {Thermus th 99.66
d2p6ra3202 Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22 99.58
d1gkub1237 Helicase-like "domain" of reverse gyrase {Archaeon 99.55
d1oywa2206 RecQ helicase domain {Escherichia coli [TaxId: 562 99.53
d1yksa1140 YFV helicase domain {Yellow fever virus [TaxId: 11 99.48
d1a1va1136 HCV helicase domain {Human hepatitis C virus (HCV) 99.46
d1gm5a3264 RecG helicase domain {Thermotoga maritima [TaxId: 99.43
d1jr6a_138 HCV helicase domain {Human hepatitis C virus (HCV) 99.38
d2eyqa3233 Transcription-repair coupling factor, TRCF {Escher 99.36
d1hv8a1208 Putative DEAD box RNA helicase {Archaeon Methanoco 99.35
d2j0sa1222 Probable ATP-dependent RNA helicase DDX48 {Human ( 99.33
d1t6na_207 Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo 99.32
d1veca_206 DEAD box RNA helicase rck/p54 {Human (Homo sapiens 99.3
d1wrba1238 putative ATP-dependent RNA helicase VlgB {Flatworm 99.27
d2p6ra4201 Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22 99.26
d1gkub2248 Helicase-like "domain" of reverse gyrase {Archaeon 99.23
d2g9na1218 Initiation factor 4a {Human (Homo sapiens) [TaxId: 99.15
d1qdea_212 Initiation factor 4a {Baker's yeast (Saccharomyces 99.12
d1s2ma1206 Putative ATP-dependent RNA helicase DHH1 {Baker's 99.12
d1q0ua_209 Probable DEAD box RNA helicase YqfR {Bacillus stea 99.07
d1gm5a4206 RecG helicase domain {Thermotoga maritima [TaxId: 99.07
d1a1va2299 HCV helicase domain {Human hepatitis C virus (HCV) 99.07
d2eyqa5211 Transcription-repair coupling factor, TRCF {Escher 98.95
d1tf5a4175 Translocation ATPase SecA, nucleotide-binding doma 98.6
d1yksa2299 YFV helicase domain {Yellow fever virus [TaxId: 11 98.44
d1nkta4219 Translocation ATPase SecA, nucleotide-binding doma 97.8
d1uaaa1306 DEXX box DNA helicase {Escherichia coli, RepD [Tax 97.17
d1w36d1359 Exodeoxyribonuclease V alpha chain (RecD) {Escheri 97.06
d1tf5a3273 Translocation ATPase SecA, nucleotide-binding doma 96.84
d1a5ta2207 delta prime subunit of DNA polymerase III, N-domai 96.79
d1pjra1318 DEXX box DNA helicase {Bacillus stearothermophilus 96.32
d1gm5a3264 RecG helicase domain {Thermotoga maritima [TaxId: 96.1
d1nkta3288 Translocation ATPase SecA, nucleotide-binding doma 95.95
d1sxje2252 Replication factor C5 {Baker's yeast (Saccharomyce 95.92
d1njfa_239 delta prime subunit of DNA polymerase III, N-domai 95.87
d2gnoa2198 gamma subunit of DNA polymerase III, N-domain {The 95.56
d1t5la1413 Nucleotide excision repair enzyme UvrB {Bacillus c 94.48
d2eyqa3233 Transcription-repair coupling factor, TRCF {Escher 94.45
d1sxjb2224 Replication factor C4 {Baker's yeast (Saccharomyce 94.17
d1sxjd2237 Replication factor C2 {Baker's yeast (Saccharomyce 93.0
d1c4oa1408 Nucleotide excision repair enzyme UvrB {Thermus th 92.9
d2qy9a2211 GTPase domain of the signal recognition particle r 92.27
d1okkd2207 GTPase domain of the signal recognition particle r 92.1
d1sxjc2227 Replication factor C3 {Baker's yeast (Saccharomyce 92.08
d1vmaa2213 GTPase domain of the signal recognition particle r 91.76
d1iqpa2231 Replication factor C {Archaeon Pyrococcus furiosus 91.59
d1r6bx2268 ClpA, an Hsp100 chaperone, AAA+ modules {Escherich 90.71
d1xbta1133 Thymidine kinase, TK1, N-terminal domain {Human (H 90.22
d1ls1a2207 GTPase domain of the signal sequence recognition p 89.76
d1ixza_247 AAA domain of cell division protein FtsH {Thermus 89.38
g1qhh.1623 DEXX box DNA helicase {Bacillus stearothermophilus 89.05
d1jbka_195 ClpB, AAA+ modules {Escherichia coli [TaxId: 562]} 88.58
d1j8yf2211 GTPase domain of the signal sequence recognition p 88.53
d1l8qa2213 Chromosomal replication initiation factor DnaA {Aq 88.39
d1xx6a1141 Thymidine kinase, TK1, N-terminal domain {Clostrid 87.19
d1sxja2253 Replication factor C1 {Baker's yeast (Saccharomyce 87.01
d2b8ta1139 Thymidine kinase, TK1, N-terminal domain {Ureaplas 86.73
d1lv7a_256 AAA domain of cell division protein FtsH {Escheric 85.71
d1e32a2258 Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu 84.94
d2eyqa5211 Transcription-repair coupling factor, TRCF {Escher 83.53
d1tf7a2242 Circadian clock protein KaiC {Synechococcus sp. st 81.34
d1qvra2387 ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2 80.64
>d1z3ix1 c.37.1.19 (X:390-735) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]} Back     information, alignment and structure
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=100.00  E-value=1.2e-42  Score=375.32  Aligned_cols=234  Identities=35%  Similarity=0.575  Sum_probs=203.1

Q ss_pred             HHh-hcCCCceeEEEEecCCHHHHHHHHHHHHhcccccccCCC-ccchHHHHHHHHHHHhCCCCcccccccc--------
Q 004103          285 EVE-KYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTG-KSKSLQNLSMQLRKCCNHPYLFVGEYNM--------  354 (773)
Q Consensus       285 dv~-~~LP~k~e~~v~~~~s~~q~~~Y~~i~~~~~~~~~~~~~-~~~~~~~~~~~Lrk~~~hP~l~~~~~~~--------  354 (773)
                      +|. +.||||.+.+++|+||+.|+++|+.+............+ ......+.++.||++||||+|+......        
T Consensus         3 ~vl~k~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~L~~l~~LRkiCnHP~L~~~~~~~~~~~~~~~   82 (346)
T d1z3ix1           3 DILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKISVSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGA   82 (346)
T ss_dssp             GGGGGTSCCEEEEEEEECCCHHHHHHHHHHHHHHCGGGSSCTTCCCHHHHHHHHHHHHHHHCTHHHHHHHHHTCTTCTTG
T ss_pred             hhhhccCCCCEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhhcCCchHHHHHHHHHHHHHhCCHHHhhhhhccccccccch
Confidence            444 589999999999999999999999998765543333332 3346778889999999999986431100        


Q ss_pred             --------hhhHHHHhhcchHHHHHHHHHHhh-hcCCcEEEEeecHHHHHHHHHHHHhCCCeEEEEcCCCCHHHHHHHHH
Q 004103          355 --------WRKEEIIRASGKFELLDRLLPKLR-KSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLK  425 (773)
Q Consensus       355 --------~~~~~l~~~s~K~~~L~~ll~~l~-~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~  425 (773)
                              .........|+|+.+|.++|..+. ..|+||||||+|+.++++|+.+|...|+++.+++|+++.++|..+++
T Consensus        83 ~~~~~~~~~~~~~~~~~S~Kl~~L~~ll~~~~~~~g~KvlIFs~~~~~ld~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~  162 (346)
T d1z3ix1          83 LDLFPQNYSTKAVEPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVE  162 (346)
T ss_dssp             GGTSCSSCCSSSCCGGGSHHHHHHHHHHHHHHHHCCCEEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHH
T ss_pred             hhhccccccccccccccCHHHHHHHHHHHHHHHhcCCceeEEeehhhhhHHHHHHHhhhhccccccccchhHHHHHHHHH
Confidence                    001112356999999999998875 67899999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEecccccccCCcccCCeeEEeCCCCChhhHHHHhhhhhhcCCcCeEEEEEEEeCCCHHHHHHHHHHH
Q 004103          426 QFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQ  505 (773)
Q Consensus       426 ~Fn~~~~~~~v~LlSt~agg~GLNL~~ad~VI~~D~~wNp~~~~Qa~gRa~RiGQ~k~V~V~rLi~~~tiEe~i~~~~~~  505 (773)
                      .||+++.+.+|||+|+.+||+||||+.|++||+||++|||..+.||+||+||+||+++|+||+|++.|||||+|++++..
T Consensus       163 ~F~~~~~~~~vlLls~~agg~GlnL~~a~~vi~~d~~wnp~~~~Qa~~R~~R~GQ~~~V~v~rli~~~TiEe~i~~~~~~  242 (346)
T d1z3ix1         163 RFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKILQRQAH  242 (346)
T ss_dssp             HHHSTTCCCCEEEEEGGGSCTTCCCTTEEEEEECSCCSSHHHHHHHHTTSSSTTCCSCEEEEEEEETTSHHHHHHHHHHH
T ss_pred             hhhcccccceeeeecchhhhhccccccceEEEEecCCCccchHhHhhhcccccCCCCceEEEEEEeCCCHHHHHHHHHHH
Confidence            99998887889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHHHcCc
Q 004103          506 KMGIDAKVIQAGL  518 (773)
Q Consensus       506 K~~l~~~vi~~g~  518 (773)
                      |..+...|++++.
T Consensus       243 K~~l~~~v~~~~~  255 (346)
T d1z3ix1         243 KKALSSCVVDEEQ  255 (346)
T ss_dssp             HHHTSCCCCSCSS
T ss_pred             HHHHHHHHhCCch
Confidence            9999988887654
>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]} Back     information, alignment and structure
>d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d2fwra1 c.37.1.19 (A:257-456) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1t5ia_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1s2ma2 c.37.1.19 (A:252-422) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1wp9a2 c.37.1.19 (A:201-486) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1hv8a2 c.37.1.19 (A:211-365) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]} Back     information, alignment and structure
>d2j0sa2 c.37.1.19 (A:244-411) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]} Back     information, alignment and structure
>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1oywa3 c.37.1.19 (A:207-406) RecQ helicase domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1t5la2 c.37.1.19 (A:415-595) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]} Back     information, alignment and structure
>d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme UvrB {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]} Back     information, alignment and structure
>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]} Back     information, alignment and structure
>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1jr6a_ c.37.1.14 (A:) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]} Back     information, alignment and structure
>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]} Back     information, alignment and structure
>d2p6ra4 c.37.1.19 (A:203-403) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1gkub2 c.37.1.16 (B:251-498) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1gm5a4 c.37.1.19 (A:550-755) RecG helicase domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1a1va2 c.37.1.14 (A:326-624) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]} Back     information, alignment and structure
>d2eyqa5 c.37.1.19 (A:779-989) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1tf5a4 c.37.1.19 (A:396-570) Translocation ATPase SecA, nucleotide-binding domains {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1yksa2 c.37.1.14 (A:325-623) YFV helicase domain {Yellow fever virus [TaxId: 11089]} Back     information, alignment and structure
>d1nkta4 c.37.1.19 (A:397-615) Translocation ATPase SecA, nucleotide-binding domains {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]} Back     information, alignment and structure
>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]} Back     information, alignment and structure
>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]} Back     information, alignment and structure
>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]} Back     information, alignment and structure
>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]} Back     information, alignment and structure
>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]} Back     information, alignment and structure
>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2eyqa5 c.37.1.19 (A:779-989) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Back     information, alignment and structure
>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure