Citrus Sinensis ID: 001841

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-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------101

MAAISPIDISSSDSDLDIGESDTSETRQSGNVRILPPWATKAAVNARTGYGGQSQKVPSFERSYASNGSSSNANSYSQEKLQMLPGFSDDHQMSNGQADDSHYLSGNKNVGQLQTVNPRIANVASADYEKISSQQALKRTLPAFPQPHSLNTKSKSSVENMNSSQIRDTFGNAYHLAGPSTVNSKGYIRDYYVKKNDDDIMMYEGNRILPSSLMHGKSVSMTQFGGPSDLAYRSGSADERAVGGDERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFMV

ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcHHHHHHHHHHHHHHcccccccEEEEEEcccccccHHHHccccEEEEccccccccccccccccHHHHHHccccccccccHHHHHHHHccccccccccccccccccccccccccccccccEEcEEEEcccccccccHHHHHHHHHHHccccEEEEEcccccccHHHHHHHHHHHcccccccHHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccccccccccccccHHHHHcccHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHcccccccccccccccccccccEEEEEEccHHHHHHHHHHHHHccccEEEEEccccHHHHHHHHHHHccccccEEEEEEccccccccccccccEEEEEcccccHHHHHHHHHHHHHccccccEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHcc

ccccccEEEcccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHEEccccccccccccccccccccccccccccHHcccccccccccHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHcccccccccEEcccccccHHHHHHHHHHHccccccccccccccccHHHHHcHHHHHHHccHccccccccHHccccccHHHHHHHHccccccccccccEEEccHHHHHHHHHHHHHHccccccEEEEEEEcccccccHHHHHcccEEEEEcHEEEHccccccccccccHcccccccccccccccccccccccccccccccccEEEcccccccccccHHHHEEEEEEEEHHHHHccccHHHHHHHHHHHHHccEEEEcccHHHccHHHHHHHHHHHccccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHcHHcccccccEEEccccEEEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccHHHccccccccccccHHHHHHccHHHHHHHHHHHcccccccccccccccccEEcccccHHHHHHHHHHHcccccccccccccccccHHHccccccHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccccHHHHHccccccHHHHHHHHHHccccccEEEEEHHHHHHHHHHHHHHHcccEEEEEcccccHHHHHHHHHHHccccccEEEEEEEEccccEEEEHHccEEEEEcccccHHHHHHHHHHHHHHcccccEEEEEEEEEccHHHHHHHHHHHHHHHHHHHHcccccHHHcccccHHHHHHHHcc

maaispidisssdsdldigesdtsetrqsgnvrilppwatKAAVnartgyggqsqkvpsfersyasngsssnansysqeklqmlpgfsddhqmsngqaddshylsgnknvgqlqtvnprianvasadyekiSSQQALKrtlpafpqphslntkskssvenmnssqirdtfgnayhlagpstvnskgyirdyyvkkndddimmyegnrilpsslmhgksvsmtqfggpsdlayrsgsaderavggdeRLIYQAALEdlnqpkveatlpdgllSVNLLKHQKIALAWMLQKETRSLhclggiladdqglgkTISIIALIQMQRSlqsksktevlgnqktealnldddddngnagldkvketgesddikpvpevststrsfsrrrpaagtlvvcpASVLRQWARELEDKVPDKAALSVLIYhggsrtkdpvelaKYDVVLTTYSIVtnevpkqpsvdeeeadekngetyglssefsvnkkrKKISNvskrgkkgkkgnvnssidygcgplakvgwFRVVLDEAQTIKNHRTQVARACCSLRAkrrwclsgtpiqnsIDDLYSYFrflkydpyavYKSFYstikipisrnslhGYKKLQAVLRAIMLRRtkgtfidgqpiinlppktisltkvdfskEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQAcdhpllvkeydfdsvgkISGEMAKRLPRDMLIDLLSRLetssaiccvcsdppedsvvtmCGHVFCYQcaseyitgddnmcpaprckeqlgadvvfskttlkncvsddgggsptdspfadksgildneyiSSKIRTVLDILHTQCELNTKCSIVEIHdlagsngssavhskspiegpiksIVFSQWTRMLDLVENSLNQHCIQyrrldgtmslpardravkdfntDREITVMLMSLKAGNLGLNMVAASHVILLdlwwnpttedqavdrahrigqtrpvtvtrltIRDTVEDRILKLQDDKRKMVASAfgedqgggtasrltVEDLRYLFMV

maaispidisssdsdldigesdtsetrqsgnvrilppwATKAAVNARTGYGGQSQKVPSFERSYASNGSSSNANSYSQEKLQMLPGFSDDHQMSNGQADDSHYLSGNKNVGQLQTVNPRIANVASADYEKISSQQALKRTlpafpqphslntkskssvENMNSSQIRDTFGNAYHlagpstvnskgyIRDYYVKKNDDDIMMYEGNRILPSSLMHGKSVSMTQFGGPSDLAYRSGSADERAVGGDERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTealnldddddngNAGLDkvketgesddikpvpevststrsfsrrrpaagtlvvcpaSVLRQWARELEDKVPDKAALSVLIyhggsrtkdpveLAKYDVVLTTYSIvtnevpkqpsvdeeeadekngetyglssefsvnkkrkkisnvskrgkkgkkgnvnssidygcGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLrakrrwclsgtpiqnsIDDLYSYFRFLKYDPYAVYKSFYSTIKipisrnslhgyKKLQAVLRAIMLRRTKgtfidgqpiinlppktisltKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNcvsddgggsptdspfadksgiLDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGssavhskspiegpIKSIVFSQWTRMLDLVENSLNQHCIQYrrldgtmslpaRDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQavdrahrigqtrpvtvtrltirdtvedrilklqddkRKMVAsafgedqgggtasrltvedlrylfmv

MAAispidisssdsdldigesdTSETRQSGNVRILPPWATKAAVNARTGYGGQSQKVPSFERsyasngsssnansysQEKLQMLPGFSDDHQMSNGQADDSHYLSGNKNVGQLQTVNPRIANVASADYEKISSQQALKRTLPAFPQPHSLNTKSKSSVENMNSSQIRDTFGNAYHLAGPSTVNSKGYIRDYYVKKNDDDIMMYEGNRILPSSLMHGKSVSMTQFGGPSDLAYRSGSADERAVGGDERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEalnldddddngnagldKVKETGESDDIKPVPEVststrsfsrrrPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKIsnvskrgkkgkkgnvnssIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFMV

*********************************ILPPWATKAA*****************************************************************************************************************************TFGNAYHLAGPSTVNSKGYIRDYYVKKNDDDIMMYEGNRIL************************************ERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM*****************************************************************AGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTN*****************************************************SIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCV*****************GILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAG**************GPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQ***********************TVEDLRYLF**

****SP****************************************************************************************************************************************************************************************************************************************************************************LLKHQKIALAWML******************GLGKTISIIALIQMQRSLQSKSKTEVLGNQ**********************ETGESDDIK*****************AAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVD**********************************************DYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTK**********NLPPKTISLTKVDFSKEEWAFYKKLESDSLKKF**********QNYANILLMLLRLRQACDHPLLVK*******************RDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSD******************************************************************IEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRK**********************LRYLFMV

MAAISPIDIS******************SGNVRILPPWATKAAVNAR*****************************SQEKLQMLPGFSDDHQMSNGQADDSHYLSGNKNVGQLQTVNPRIANVASADYEKISSQQALKRTLPAFPQPHSLN***********SSQIRDTFGNAYHLAGPSTVNSKGYIRDYYVKKNDDDIMMYEGNRILPSSLMHGKSVSMTQFGGPSDLAY*********VGGDERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKVKE***********************RPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEV**********************************************GNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGS*********SPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFMV

*************S***I**************************************************************************************************************************************************************************RDYYVKKNDDDIMMYEGNRILP**********************************DERLIYQAALEDLNQ****ATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQ*KSKTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQ********************E******************KGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDF****KISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKT******************************ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQG***ASRLTVEDLRYLFMV

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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
Query		1007	2.2.26 [Sep-21-2011]
Q9FNI6		1029	Putative SWI/SNF-related	no	no	0.584	0.572	0.331	5e-98
O60177		1040	Uncharacterized ATP-depen	yes	no	0.631	0.611	0.326	5e-98
Q9FIY7		1277	Putative SWI/SNF-related	no	no	0.571	0.451	0.332	5e-96
O13762		897	Uncharacterized ATP-depen	no	no	0.625	0.702	0.317	2e-90
P31244		790	DNA repair protein RAD16	yes	no	0.508	0.648	0.324	1e-84
Q9FF61		881	Putative SWI/SNF-related	no	no	0.652	0.745	0.299	2e-84
Q10332		830	Uncharacterized ATP-depen	no	no	0.570	0.691	0.305	5e-84
Q08562		1619	ATP-dependent helicase UL	no	no	0.618	0.384	0.312	1e-83
Q14527		1009	Helicase-like transcripti	yes	no	0.514	0.513	0.318	3e-83
Q95216		1005	Helicase-like transcripti	yes	no	0.518	0.519	0.308	9e-83

>sp\|Q9FNI6\|SM3L2_ARATH Putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 2 OS=Arabidopsis thaliana GN=At5g22750 PE=2 SV=1	Back alignment and function desciption

 Score =  359 bits (922), Expect = 5e-98,   Method: Compositional matrix adjust.
 Identities = 243/734 (33%), Positives = 367/734 (50%), Gaps = 145/734 (19%)

Query: 298  GGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKVK 357
            GGILAD  GLGKT+  I+L+ +  S ++ S   +  N +                 DKV 
Sbjct: 414  GGILADAMGLGKTVMTISLL-LAHSWKAASTGFLCPNYEG----------------DKVI 456

Query: 358  ETGESDDIKPVPEVSTSTRSFSRRR-------PAAGTLVVCPASVLRQWARELEDKVPDK 410
             +   DD+   P  +T    F +R           G L+VCP ++L QW  E+E      
Sbjct: 457  SSS-VDDLTSPPVKATKFLGFDKRLLEQKSVLQNGGNLIVCPMTLLGQWKTEIEMHA-KP 514

Query: 411  AALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSS 470
             +LSV +++G SR KD   L++ DVV+TTY ++T+E  ++ S D E              
Sbjct: 515  GSLSVYVHYGQSRPKDAKLLSQSDVVITTYGVLTSEFSQENSADHE-------------- 560

Query: 471  EFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQV 530
                                                +  V WFR+VLDEA TIKN ++Q+
Sbjct: 561  -----------------------------------GIYAVRWFRIVLDEAHTIKNSKSQI 585

Query: 531  ARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHG 590
            + A  +L A RRWCL+GTPIQN+++DLYS  RFL+ +P+  +  +   ++ P       G
Sbjct: 586  SLAAAALVADRRWCLTGTPIQNNLEDLYSLLRFLRIEPWGTWAWWNKLVQKPFEEGDERG 645

Query: 591  YKKLQAVLRAIMLRRTKG-TFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKK 649
             K +Q++L+ IMLRRTK  T  +G+PI+ LPP    +   + S+ E  FY  L   S  K
Sbjct: 646  LKLVQSILKPIMLRRTKSSTDREGRPILVLPPADARVIYCELSESERDFYDALFKRSKVK 705

Query: 650  FKAFADAGTVNQNYANILLMLLRLRQACDHPLLV------KEY-DFDSV------GKISG 696
            F  F + G V  NYA+IL +LLRLRQ CDHP LV       EY D + +      GK SG
Sbjct: 706  FDQFVEQGKVLHNYASILELLLRLRQCCDHPFLVMSRGDTAEYSDLNKLSKRFLSGKSSG 765

Query: 697  --EMAKRLPRDMLI-DLLSRL-ETSSAICCVCSDPPEDSVVTMCGHVFCYQCA-SEYITG 751
                 K +P +  + +++  L +     C +C +  ED+V+T C H  C +C  + +   
Sbjct: 766  LEREGKDVPSEAFVQEVVEELRKGEQGECPICLEALEDAVLTPCAHRLCRECLLASWRNS 825

Query: 752  DDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRT 811
               +CP   C+  +    + +              +PT+S F  +  +  N   SSKI  
Sbjct: 826  TSGLCPV--CRNTVSKQELIT--------------APTESRF--QVDVEKNWVESSKITA 867

Query: 812  VLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENS 871
            +L+                  +L G   S +           KSI+FSQWT  LDL++  
Sbjct: 868  LLE------------------ELEGLRSSGS-----------KSILFSQWTAFLDLLQIP 898

Query: 872  LNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDL 931
            L+++   + RLDGT+S   R++ +K+F+ D  I V+LMSLKAG +G+N+ AAS+  ++D 
Sbjct: 899  LSRNNFSFVRLDGTLSQQQREKVLKEFSEDGSILVLLMSLKAGGVGINLTAASNAFVMDP 958

Query: 932  WWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGG 991
            WWNP  E+QAV R HRIGQT+ V + R  ++ TVE+R+  +Q  K++M++ A   DQ   
Sbjct: 959  WWNPAVEEQAVMRIHRIGQTKEVKIRRFIVKGTVEERMEAVQARKQRMISGAL-TDQEVR 1017

Query: 992  TASRLTVEDLRYLF 1005
            +A    +E+L+ LF
Sbjct: 1018 SAR---IEELKMLF 1028

Possesses intrinsic ATP-dependent nucleosome-remodeling activity. This activity may be required for DNA repair.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: -

>sp\|O60177\|YG42_SCHPO Uncharacterized ATP-dependent helicase C23E6.02 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC23E6.02 PE=3 SV=1	Back alignment and function description

>sp\|Q9FIY7\|SM3L3_ARATH Putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 3 OS=Arabidopsis thaliana GN=At5g43530 PE=3 SV=1	Back alignment and function description

>sp\|O13762\|YF2C_SCHPO Uncharacterized ATP-dependent helicase C17A2.12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC17A2.12 PE=3 SV=1	Back alignment and function description

>sp\|P31244\|RAD16_YEAST DNA repair protein RAD16 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD16 PE=1 SV=1	Back alignment and function description

>sp\|Q9FF61\|SM3L1_ARATH Putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 1 OS=Arabidopsis thaliana GN=At5g05130 PE=2 SV=1	Back alignment and function description

>sp\|Q10332\|YBMA_SCHPO Uncharacterized ATP-dependent helicase C582.10c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC582.10c PE=1 SV=1	Back alignment and function description

>sp\|Q08562\|ULS1_YEAST ATP-dependent helicase ULS1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ULS1 PE=1 SV=1	Back alignment and function description

>sp\|Q14527\|HLTF_HUMAN Helicase-like transcription factor OS=Homo sapiens GN=HLTF PE=1 SV=2	Back alignment and function description

>sp\|Q95216\|HLTF_RABIT Helicase-like transcription factor OS=Oryctolagus cuniculus GN=HLTF PE=1 SV=1	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
Query		1007
359484139		1013	PREDICTED: uncharacterized ATP-dependent	0.972	0.966	0.707	0.0
255544141		993	DNA repair helicase rad5,16, putative [R	0.973	0.986	0.687	0.0
224095220		923	chromatin remodeling complex subunit [Po	0.900	0.982	0.725	0.0
356574101		1027	PREDICTED: ATP-dependent helicase ULS1-l	0.973	0.954	0.644	0.0
356534462		975	PREDICTED: putative SWI/SNF-related matr	0.939	0.970	0.662	0.0
449464954		1015	PREDICTED: uncharacterized ATP-dependent	0.968	0.960	0.631	0.0
297742732		907	unnamed protein product [Vitis vinifera]	0.883	0.981	0.612	0.0
18403061		981	SNF2 and helicase domain-containing prot	0.925	0.950	0.587	0.0
297847386		980	SNF2 domain-containing protein [Arabidop	0.919	0.944	0.582	0.0
297830680		1046	SNF2 domain-containing protein [Arabidop	0.869	0.837	0.596	0.0

>gi\|359484139\|ref\|XP_002267403.2\| PREDICTED: uncharacterized ATP-dependent helicase C23E6.02-like [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1362 bits (3524), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 709/1002 (70%), Positives = 819/1002 (81%), Gaps = 23/1002 (2%)

Query: 20   ESDTSETRQS---GNVRILPPWATKAAVNARTGYGGQSQKVPSFERSYASNGSSSNANSY 76
            E+DTS   +S    N RILPPW + +  N+++   G  QKVPS +R+ ASNGSSSN   Y
Sbjct: 21   ETDTSPVGESVAFANSRILPPWPSTSGTNSKSTSHGHFQKVPSPKRASASNGSSSNFYHY 80

Query: 77   SQEKLQMLPGFSDDHQMSNG---QADDSHYLSGNKNV----GQLQTVNPRIANVASADYE 129
               K+QM P F DD + SN    +  D +Y + N ++       Q +N   A++  ADYE
Sbjct: 81   P-PKIQMHPSFDDDIRASNRHNFREADFNYSTENGDMLDVENHQQLINLNKADIFGADYE 139

Query: 130  KISSQQALKRTLPAFPQPHSLNTKSKSSVENMNSSQIRDTFGNAYHLAGPSTVNSKGYIR 189
            K+S Q A++RTLP+  QP + +    ++V N+ SS I D+ G ++H  GP  +N+  Y++
Sbjct: 140  KLS-QPAMRRTLPSTLQPSAPSAGMNNTVGNIGSSHIHDSQGKSFHPVGP-ILNNMNYMK 197

Query: 190  DYYVKKNDDDIMMYE--GNRILPSSLMHGKSVSMTQFGGPSDLAYRSGSADERAVGGDER 247
            +++ + NDD+++MYE  G+RILP SLMHGKSV  TQ+GG S+ AYR G A+E A   DER
Sbjct: 198  EHFGRGNDDEVIMYENSGSRILPPSLMHGKSVPSTQYGGVSESAYRPGVAEEMAANTDER 257

Query: 248  LIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGL 307
            L+YQAAL+DLNQPKVEATLPDGLL+V+LL+HQKIALAWM QKETRSLHCLGGILADDQGL
Sbjct: 258  LVYQAALQDLNQPKVEATLPDGLLTVSLLRHQKIALAWMHQKETRSLHCLGGILADDQGL 317

Query: 308  GKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA-GLDKVKETGESDDIK 366
            GKT+S+IALIQMQ+SLQSKSK+E L N  TEALNLDDDDDN NA G DK K+T E+ D K
Sbjct: 318  GKTVSMIALIQMQKSLQSKSKSEELHNHSTEALNLDDDDDNANAAGSDKGKQTEETSDSK 377

Query: 367  PVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKD 426
            P+ EVS S   F RRRPAAGTLVVCPASVLRQWAREL++KV ++A LSV +YHGGSRTKD
Sbjct: 378  PISEVSASLPEFRRRRPAAGTLVVCPASVLRQWARELDEKVSEEAKLSVCLYHGGSRTKD 437

Query: 427  PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSK 486
            PVELAKYDVVLTTYSIVTNEVPKQP VD++E DE+NGE YGLSSEFSVNKKRKK SNVSK
Sbjct: 438  PVELAKYDVVLTTYSIVTNEVPKQPLVDDDEGDERNGEKYGLSSEFSVNKKRKKPSNVSK 497

Query: 487  RGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLS 546
            RGKKG+KG  +SSIDY CGPLA+VGWFRV+LDEAQTIKNHRTQVARACCSLRAKRRWCLS
Sbjct: 498  RGKKGRKGIDSSSIDYDCGPLARVGWFRVILDEAQTIKNHRTQVARACCSLRAKRRWCLS 557

Query: 547  GTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRT 606
            GTPIQN+IDDLYSYFRFLKYDPYAVYKSFY+TIK+PISRNS+HGYKKLQAVLRAIMLRRT
Sbjct: 558  GTPIQNAIDDLYSYFRFLKYDPYAVYKSFYNTIKVPISRNSVHGYKKLQAVLRAIMLRRT 617

Query: 607  KGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANI 666
            KGT IDG PIINLPPKTI L+KVDFS EE AFY KLE+DS  +FK +A AGTVNQNYANI
Sbjct: 618  KGTLIDGTPIINLPPKTICLSKVDFSSEERAFYSKLEADSRSQFKEYAAAGTVNQNYANI 677

Query: 667  LLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSD 726
            LLMLLRLRQACDHPLLVK Y+ DS+ K+S EMAK+LP D+LI+LL  LET SAIC VC+D
Sbjct: 678  LLMLLRLRQACDHPLLVKGYNTDSIRKVSSEMAKKLPSDILINLLDILET-SAICRVCND 736

Query: 727  PPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGG 786
            PPED+VVTMCGHVFCYQC SEY+TGDDN CPA  CKEQLGADVVFSK TL +C+SD+  G
Sbjct: 737  PPEDAVVTMCGHVFCYQCVSEYLTGDDNTCPALECKEQLGADVVFSKATLISCISDELDG 796

Query: 787  SPTDSP-FADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHS 845
            S ++S   A+KS  L NEY SSKIR  L+IL + C+L +  S  + H   G NGS   +S
Sbjct: 797  SLSNSSQSAEKSINLQNEYSSSKIRAALEILQSHCKLTSPDS--DPHSSMGCNGS---YS 851

Query: 846  KSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREIT 905
                EGPIK+IVFSQWT MLDLVE S+N  CIQYRRLDGTMSL +RDRAVKDFNTD E+T
Sbjct: 852  NPETEGPIKAIVFSQWTSMLDLVEMSMNHSCIQYRRLDGTMSLASRDRAVKDFNTDPEVT 911

Query: 906  VMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTV 965
            VMLMSLKAGNLGLNMVAAS VILLDLWWNPTTEDQAVDRAHRIGQTRPVTV+R+TI+DTV
Sbjct: 912  VMLMSLKAGNLGLNMVAASLVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVSRITIKDTV 971

Query: 966  EDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFMV 1007
            EDRIL LQ+DKRKMVASAFGEDQ GG+A+RLTVEDL+YLFMV
Sbjct: 972  EDRILALQEDKRKMVASAFGEDQTGGSATRLTVEDLKYLFMV 1013

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|255544141\|ref\|XP_002513133.1\| DNA repair helicase rad5,16, putative [Ricinus communis] gi\|223548144\|gb\|EEF49636.1\| DNA repair helicase rad5,16, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|224095220\|ref\|XP_002310362.1\| chromatin remodeling complex subunit [Populus trichocarpa] gi\|222853265\|gb\|EEE90812.1\| chromatin remodeling complex subunit [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|356574101\|ref\|XP_003555190.1\| PREDICTED: ATP-dependent helicase ULS1-like [Glycine max]	Back alignment and taxonomy information

>gi\|356534462\|ref\|XP_003535773.1\| PREDICTED: putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 3-like [Glycine max]	Back alignment and taxonomy information

>gi\|449464954\|ref\|XP_004150194.1\| PREDICTED: uncharacterized ATP-dependent helicase C23E6.02-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|297742732\|emb\|CBI35366.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|18403061\|ref\|NP_564568.1\| SNF2 and helicase domain-containing protein [Arabidopsis thaliana] gi\|14532630\|gb\|AAK64043.1\| putative DNA-binding protein [Arabidopsis thaliana] gi\|23296945\|gb\|AAN13207.1\| putative DNA-binding protein [Arabidopsis thaliana] gi\|332194424\|gb\|AEE32545.1\| SNF2 and helicase domain-containing protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|297847386\|ref\|XP_002891574.1\| SNF2 domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi\|297337416\|gb\|EFH67833.1\| SNF2 domain-containing protein [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|297830680\|ref\|XP_002883222.1\| SNF2 domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi\|297329062\|gb\|EFH59481.1\| SNF2 domain-containing protein [Arabidopsis lyrata subsp. lyrata]	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
Query		1007
TAIR\|locus:2008096		981	AT1G50410 [Arabidopsis thalian	0.863	0.886	0.609	2e-278
TAIR\|locus:2095360		1047	AT3G20010 [Arabidopsis thalian	0.620	0.596	0.652	1.5e-267
TAIR\|locus:2008470		1280	EDA16 "embryo sac development	0.780	0.614	0.529	5.3e-208
TAIR\|locus:2089318		638	AT3G16600 [Arabidopsis thalian	0.102	0.161	0.718	1.2e-153
POMBASE\|SPBC23E6.02		1040	rrp2 "ATP-dependent DNA helica	0.488	0.473	0.357	1.2e-106
ASPGD\|ASPL0000030172		1184	AN5483 [Emericella nidulans (t	0.238	0.202	0.387	2.8e-94
POMBASE\|SPAC17A2.12		897	rrp1 "ATP-dependent DNA helica	0.269	0.302	0.354	3.7e-86
ZFIN\|ZDB-GENE-030131-3306		942	hltf "helicase-like transcript	0.260	0.278	0.350	1.4e-84
TAIR\|locus:2158357		1277	AT5G43530 [Arabidopsis thalian	0.287	0.227	0.342	1.9e-84
TAIR\|locus:2162504		1029	RAD5 [Arabidopsis thaliana (ta	0.172	0.169	0.474	1.9e-84

TAIR\|locus:2008096 AT1G50410 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2676 (947.1 bits), Expect = 2.0e-278, P = 2.0e-278
 Identities = 563/924 (60%), Positives = 662/924 (71%)

Query:   111 GQLQTVNPRIANVASADYEKISSQQALKRTLP-AFPQPHSLNTKSKSSVENMNSSQIRDT 169
             G    V  RI N++  DYEK SSQQA KRT P  F +P     +      N N+S  R  
Sbjct:    85 GNGSIVTSRIPNISVGDYEKFSSQQAFKRTHPPTFSRP-PFPPRPDIGTSNGNASHFR-- 141

Query:   170 FGNAYHLAGPSTVNSKGYIRDYYVKKNDDDIMMYEGNRILPSSLMHGKSVSMTQFGGPSD 229
              G A+   G   V +                    G RILP S+ HG S S + F G SD
Sbjct:   142 -GGAHDDLGMGRVTN--------------------GTRILPPSVAHGTSASPSHFNGLSD 180

Query:   230 LAYRSGSADERAVGGDERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQK 289
               +R+G  +ER    DERLIYQAAL++LNQPK E  LP GLLSV L+KHQKIALAWM QK
Sbjct:   181 PMHRNGIGEERNSENDERLIYQAALQELNQPKSEVDLPAGLLSVPLMKHQKIALAWMFQK 240

Query:   290 ETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEXXXXXXXXXXX 349
             ET SLHC+GGILADDQGLGKT+S IALI  Q   ++K K++  GNQ+ E           
Sbjct:   241 ETNSLHCMGGILADDQGLGKTVSTIALILKQMH-EAKLKSKNSGNQEAEALDLDADDESE 299

Query:   350 XXXX---XKVKE-TGESDD--IKPVP--EVXXXXXXXXXXXPAAGTLVVCPASVLRQWAR 401
                     K    +G + D  IK     E            PAAGTL+VCPASV+RQWAR
Sbjct:   300 NAFEKPESKASNGSGVNGDSGIKKAKGEEASTSTRKFNRKRPAAGTLIVCPASVVRQWAR 359

Query:   402 ELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEK 461
             EL++KV D+A LSVLIYHGG+RTKDP+ELAKYDVV+TTY+IV+NEVPKQP VD++E DEK
Sbjct:   360 ELDEKVTDEAKLSVLIYHGGNRTKDPIELAKYDVVMTTYAIVSNEVPKQPLVDDDENDEK 419

Query:   462 NGETYGLSSEFSVNKKRKKIXXXXXXXXXXXXXXXXX-XIDYGCGPLAKVGWFRVVLDEA 520
             N E YGL+S FS+NKKRK +                    D   G LAKVGWFRVVLDEA
Sbjct:   420 NSEKYGLASGFSINKKRKNVVGTTKKSKKKKGNNNAGDSSDPDSGTLAKVGWFRVVLDEA 479

Query:   521 QTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIK 580
             QTIKNHRTQVARACC LRAKRRWCLSGTPIQN+IDDLYSYFRFLKYDPYAVYKSF   IK
Sbjct:   480 QTIKNHRTQVARACCGLRAKRRWCLSGTPIQNTIDDLYSYFRFLKYDPYAVYKSFCHQIK 539

Query:   581 IPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYK 640
              PISRNSL GYKKLQAVLRAIMLRRTKGT +DGQPIINLPPKTI+L++VDFS EE +FY 
Sbjct:   540 GPISRNSLQGYKKLQAVLRAIMLRRTKGTLLDGQPIINLPPKTINLSQVDFSVEERSFYV 599

Query:   641 KLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAK 700
             KLESDS  +FKA+A AGT+NQNYANILLMLLRLRQACDHP LVK Y+ DSVGK+S E  K
Sbjct:   600 KLESDSRSQFKAYAAAGTLNQNYANILLMLLRLRQACDHPQLVKRYNSDSVGKVSEEAVK 659

Query:   701 RLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPR 760
             +LP++ L+ LLSRLE SS ICCVC DPPED VVT+CGH+FCYQC S+YITGD++ CPAPR
Sbjct:   660 KLPKEDLVSLLSRLE-SSPICCVCHDPPEDPVVTLCGHIFCYQCVSDYITGDEDTCPAPR 718

Query:   761 CKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQC 820
             C+EQL  DVVFSK+TL++CV+DD G S ++    DKS   + E+ SSKI+ VLDIL +  
Sbjct:   719 CREQLAHDVVFSKSTLRSCVADDLGCSSSEDNSHDKSVFQNGEFSSSKIKAVLDILQSLS 778

Query:   821 ELNTKCSIVEIHDLAGSNGSS-----------AVHSKSPIE------GPIKSIVFSQWTR 863
                T  S  +   +A S+               +  K+ ++      GPIK+I+FSQWT 
Sbjct:   779 NQGTSNS-TQNGQMASSSQQPNDDDDDDDDDVTIVEKTSLKSTPSNGGPIKTIIFSQWTG 837

Query:   864 MLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAA 923
             MLDLVE SL ++ I++RRLDGTMSL ARDRAVK+F+ D ++ VM+MSLKAGNLGLNM+AA
Sbjct:   838 MLDLVELSLIENSIEFRRLDGTMSLIARDRAVKEFSNDPDVKVMIMSLKAGNLGLNMIAA 897

Query:   924 SHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASA 983
              HVILLDLWWNPTTEDQA+DRAHRIGQTRPVTVTR+TI++TVEDRIL LQ++KRKMVASA
Sbjct:   898 CHVILLDLWWNPTTEDQAIDRAHRIGQTRPVTVTRITIKNTVEDRILALQEEKRKMVASA 957

Query:   984 FGEDQGGGTASRLTVEDLRYLFMV 1007
             FGED GG +A+RLTV+DL+YLFMV
Sbjct:   958 FGEDHGGSSATRLTVDDLKYLFMV 981

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:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

GO:0006487 "protein N-linked glycosylation" evidence=RCA

GO:0006816 "calcium ion transport" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR\|locus:2095360 AT3G20010 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2008470 EDA16 "embryo sac development arrest 16" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2089318 AT3G16600 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

POMBASE\|SPBC23E6.02 rrp2 "ATP-dependent DNA helicase (predicted)" [Schizosaccharomyces pombe (taxid:4896)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000030172 AN5483 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

POMBASE\|SPAC17A2.12 rrp1 "ATP-dependent DNA helicase (predicted)" [Schizosaccharomyces pombe (taxid:4896)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-030131-3306 hltf "helicase-like transcription factor" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

TAIR\|locus:2158357 AT5G43530 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2162504 RAD5 [Arabidopsis thaliana (taxid:3702)]	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 Level	EC number	Confidence of Prediction
3rd Layer	3.6.4.12	LOW CONFIDENCE prediction!
3rd Layer	3.6.4	0.691

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	CHR934	chromatin remodeling complex subunit (923 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		1007
pfam00176		301	pfam00176, SNF2_N, SNF2 family N-terminal domain	1e-50
COG0553		866	COG0553, HepA, Superfamily II DNA/RNA helicases, S	2e-37
COG0553		866	COG0553, HepA, Superfamily II DNA/RNA helicases, S	8e-36
PLN03142		1033	PLN03142, PLN03142, Probable chromatin-remodeling	3e-22
cd00079		131	cd00079, HELICc, Helicase superfamily c-terminal d	4e-20
smart00490		82	smart00490, HELICc, helicase superfamily c-termina	5e-18
pfam00271		78	pfam00271, Helicase_C, Helicase conserved C-termin	6e-18
PLN03142		1033	PLN03142, PLN03142, Probable chromatin-remodeling	6e-12
smart00487		201	smart00487, DEXDc, DEAD-like helicases superfamily	2e-10
smart00184		40	smart00184, RING, Ring finger	3e-09
pfam13923		45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	5e-09
cd00162		45	cd00162, RING, RING-finger (Really Interesting New	1e-08
pfam00176		301	pfam00176, SNF2_N, SNF2 family N-terminal domain	1e-07
pfam13639		46	pfam13639, zf-RING_2, Ring finger domain	2e-06
pfam00097		40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	3e-05
pfam13920		49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	4e-05
COG5574		271	COG5574, PEX10, RING-finger-containing E3 ubiquiti	0.001
PLN03208		193	PLN03208, PLN03208, E3 ubiquitin-protein ligase RM	0.002

>gnl\|CDD\|215770 pfam00176, SNF2_N, SNF2 family N-terminal domain	Back alignment and domain information

 Score =  180 bits (459), Expect = 1e-50
 Identities = 89/313 (28%), Positives = 139/313 (44%), Gaps = 78/313 (24%)

Query: 387 TLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVE------LAKYDVVLTTY 440
           TLVVCP S L  W  E E   P   AL V++YHG  R +  +       L  YDVV+TTY
Sbjct: 51  TLVVCPLSTLHNWLNEFEKWAP---ALRVVVYHGDGRERSKLRQSMAKRLDTYDVVITTY 107

Query: 441 SIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSI 500
            ++  +                               +K +S ++K              
Sbjct: 108 EVLRKD-------------------------------KKLLSLLNK-------------- 122

Query: 501 DYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSY 560
                    V W RVVLDEA  +KN ++++ +A   L+ + R  L+GTPIQN++++L++ 
Sbjct: 123 ---------VEWDRVVLDEAHRLKNSKSKLYKALKKLKTRNRLLLTGTPIQNNLEELWAL 173

Query: 561 FRFLKYDPYAVYKSFYSTIKIPISRNSLH----------GYKKLQAVLRAIMLRRTKGTF 610
             FL+  P+  +K F     IPI+  + +          G  +L  +L+  +LRRTK   
Sbjct: 174 LNFLRPGPFGSFKVFEEWFNIPIANTADNKNKNLEKGKEGINRLHKLLKPFLLRRTKDDV 233

Query: 611 IDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLML 670
                   LPPKT  +   + S E+   YKKL +          + G  N   A++L ++
Sbjct: 234 EKS-----LPPKTEHVLYCNLSDEQRKLYKKLLTKRRLALSFAVEGGEKNVGIASLLNLI 288

Query: 671 LRLRQACDHPLLV 683
           ++LR+ C+HP L 
Sbjct: 289 MQLRKICNHPYLF 301

This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g. ERCC6, RAD16, RAD5), DNA recombination (e.g. RAD54), and chromatin unwinding (e.g. ISWI) as well as a variety of other proteins with little functional information (e.g. lodestar, ETL1). Length = 301

>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\|223627 COG0553, HepA, Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional	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\|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\|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional	Back alignment and domain information

>gnl\|CDD\|214692 smart00487, DEXDc, DEAD-like helicases superfamily	Back alignment and domain information

>gnl\|CDD\|214546 smart00184, RING, Ring finger	Back alignment and domain information

>gnl\|CDD\|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)	Back alignment and domain information

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Back alignment and domain information

>gnl\|CDD\|215770 pfam00176, SNF2_N, SNF2 family N-terminal domain	Back alignment and domain information

>gnl\|CDD\|222279 pfam13639, zf-RING_2, Ring finger domain	Back alignment and domain information

>gnl\|CDD\|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)	Back alignment and domain information

>gnl\|CDD\|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)	Back alignment and domain information

>gnl\|CDD\|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>gnl\|CDD\|178747 PLN03208, PLN03208, E3 ubiquitin-protein ligase RMA2; Provisional	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1007
KOG1002		791	consensus Nucleotide excision repair protein RAD16	100.0
KOG4439		901	consensus RNA polymerase II transcription terminat	100.0
KOG0385		971	consensus Chromatin remodeling complex WSTF-ISWI,	100.0
KOG0387		923	consensus Transcription-coupled repair protein CSB	100.0
KOG0392		1549	consensus SNF2 family DNA-dependent ATPase domain-	100.0
KOG0389		941	consensus SNF2 family DNA-dependent ATPase [Chroma	100.0
PLN03142		1033	Probable chromatin-remodeling complex ATPase chain	100.0
KOG1001		674	consensus Helicase-like transcription factor HLTF/	100.0
KOG0391		1958	consensus SNF2 family DNA-dependent ATPase [Genera	100.0
KOG0384		1373	consensus Chromodomain-helicase DNA-binding protei	100.0
KOG0388		1185	consensus SNF2 family DNA-dependent ATPase [Replic	100.0
KOG0390		776	consensus DNA repair protein, SNF2 family [Replica	100.0
KOG0386		1157	consensus Chromatin remodeling complex SWI/SNF, co	100.0
KOG1015		1567	consensus Transcription regulator XNP/ATRX, DEAD-b	100.0
COG0553		866	HepA Superfamily II DNA/RNA helicases, SNF2 family	100.0
KOG1016		1387	consensus Predicted DNA helicase, DEAD-box superfa	100.0
KOG1000		689	consensus Chromatin remodeling protein HARP/SMARCA	100.0
PRK04914		956	ATP-dependent helicase HepA; Validated	100.0
KOG0298		1394	consensus DEAD box-containing helicase-like transc	100.0
PF00176		299	SNF2_N: SNF2 family N-terminal domain; InterPro: I	100.0
KOG0383		696	consensus Predicted helicase [General function pre	100.0
TIGR00603		732	rad25 DNA repair helicase rad25. All proteins in t	100.0
PRK13766		773	Hef nuclease; Provisional	100.0
COG1111		542	MPH1 ERCC4-like helicases [DNA replication, recomb	99.95
PHA02558		501	uvsW UvsW helicase; Provisional	99.95
COG1061		442	SSL2 DNA or RNA helicases of superfamily II [Trans	99.94
KOG1123		776	consensus RNA polymerase II transcription initiati	99.9
PTZ00110		545	helicase; Provisional	99.88
KOG0354		746	consensus DEAD-box like helicase [General function	99.86
PRK11776		460	ATP-dependent RNA helicase DbpA; Provisional	99.86
PRK11192		434	ATP-dependent RNA helicase SrmB; Provisional	99.85
TIGR00614		470	recQ_fam ATP-dependent DNA helicase, RecQ family.	99.85
PLN00206		518	DEAD-box ATP-dependent RNA helicase; Provisional	99.85
PRK10590		456	ATP-dependent RNA helicase RhlE; Provisional	99.85
PRK01297		475	ATP-dependent RNA helicase RhlB; Provisional	99.84
PRK04837		423	ATP-dependent RNA helicase RhlB; Provisional	99.84
PRK11634		629	ATP-dependent RNA helicase DeaD; Provisional	99.83
PRK04537		572	ATP-dependent RNA helicase RhlB; Provisional	99.83
PTZ00424		401	helicase 45; Provisional	99.82
PRK11057		607	ATP-dependent DNA helicase RecQ; Provisional	99.82
TIGR00643		630	recG ATP-dependent DNA helicase RecG.	99.82
TIGR01389		591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	99.82
PRK11448		1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	99.8
TIGR00580		926	mfd transcription-repair coupling factor (mfd). Al	99.78
PRK10917		681	ATP-dependent DNA helicase RecG; Provisional	99.78
KOG0331		519	consensus ATP-dependent RNA helicase [RNA processi	99.77
PRK10689		1147	transcription-repair coupling factor; Provisional	99.77
PLN03137		1195	ATP-dependent DNA helicase; Q4-like; Provisional	99.76
TIGR03817		742	DECH_helic helicase/secretion neighborhood putativ	99.72
PRK02362		737	ski2-like helicase; Provisional	99.7
PRK13767		876	ATP-dependent helicase; Provisional	99.69
COG0513		513	SrmB Superfamily II DNA and RNA helicases [DNA rep	99.68
PRK01172		674	ski2-like helicase; Provisional	99.65
TIGR01587		358	cas3_core CRISPR-associated helicase Cas3. This mo	99.64
TIGR00348		667	hsdR type I site-specific deoxyribonuclease, HsdR	99.63
KOG0328		400	consensus Predicted ATP-dependent RNA helicase FAL	99.62
PRK00254		720	ski2-like helicase; Provisional	99.62
KOG0330		476	consensus ATP-dependent RNA helicase [RNA processi	99.61
TIGR03714		762	secA2 accessory Sec system translocase SecA2. Memb	99.61
cd00079		131	HELICc Helicase superfamily c-terminal domain; ass	99.61
TIGR02621		844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	99.6
PRK12898		656	secA preprotein translocase subunit SecA; Reviewed	99.58
COG1200		677	RecG RecG-like helicase [DNA replication, recombin	99.58
PRK09200		790	preprotein translocase subunit SecA; Reviewed	99.57
COG4096		875	HsdR Type I site-specific restriction-modification	99.55
KOG0335		482	consensus ATP-dependent RNA helicase [RNA processi	99.55
TIGR00963		745	secA preprotein translocase, SecA subunit. The pro	99.53
KOG0333		673	consensus U5 snRNP-like RNA helicase subunit [RNA	99.51
KOG0350		620	consensus DEAD-box ATP-dependent RNA helicase [RNA	99.51
PRK09401		1176	reverse gyrase; Reviewed	99.49
PF04851		184	ResIII: Type III restriction enzyme, res subunit;	99.48
KOG4284		980	consensus DEAD box protein [Transcription]	99.47
PRK05580		679	primosome assembly protein PriA; Validated	99.47
TIGR03158		357	cas3_cyano CRISPR-associated helicase, Cyano-type.	99.47
PF00271		78	Helicase_C: Helicase conserved C-terminal domain;	99.46
PHA02653		675	RNA helicase NPH-II; Provisional	99.46
smart00487		201	DEXDc DEAD-like helicases superfamily.	99.43
KOG0348		708	consensus ATP-dependent RNA helicase [RNA processi	99.42
KOG0343		758	consensus RNA Helicase [RNA processing and modific	99.4
PRK09751		1490	putative ATP-dependent helicase Lhr; Provisional	99.39
cd00046		144	DEXDc DEAD-like helicases superfamily. A diverse f	99.37
TIGR01054		1171	rgy reverse gyrase. Generally, these gyrases are e	99.36
TIGR00595		505	priA primosomal protein N'. All proteins in this f	99.36
COG0514		590	RecQ Superfamily II DNA helicase [DNA replication,	99.36
COG1205		851	Distinct helicase family with a unique C-terminal	99.35
smart00490		82	HELICc helicase superfamily c-terminal domain.	99.34
KOG0342		543	consensus ATP-dependent RNA helicase pitchoune [RN	99.33
COG1201		814	Lhr Lhr-like helicases [General function predictio	99.33
TIGR01970		819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	99.32
KOG0336		629	consensus ATP-dependent RNA helicase [RNA processi	99.32
PRK12906		796	secA preprotein translocase subunit SecA; Reviewed	99.31
COG1204		766	Superfamily II helicase [General function predicti	99.3
PRK14701		1638	reverse gyrase; Provisional	99.28
KOG0326		459	consensus ATP-dependent RNA helicase [RNA processi	99.28
PRK13104		896	secA preprotein translocase subunit SecA; Reviewed	99.28
KOG0339		731	consensus ATP-dependent RNA helicase [RNA processi	99.27
COG1197		1139	Mfd Transcription-repair coupling factor (superfam	99.27
PRK11664		812	ATP-dependent RNA helicase HrpB; Provisional	99.26
KOG0338		691	consensus ATP-dependent RNA helicase [RNA processi	99.24
KOG0345		567	consensus ATP-dependent RNA helicase [RNA processi	99.22
PRK09694		878	helicase Cas3; Provisional	99.2
KOG0340		442	consensus ATP-dependent RNA helicase [RNA processi	99.19
COG1202		830	Superfamily II helicase, archaea-specific [General	99.19
COG4889		1518	Predicted helicase [General function prediction on	99.17
PRK12904		830	preprotein translocase subunit SecA; Reviewed	99.17
PRK13107		908	preprotein translocase subunit SecA; Reviewed	99.14
KOG0344		593	consensus ATP-dependent RNA helicase [RNA processi	99.1
KOG0347		731	consensus RNA helicase [RNA processing and modific	99.08
TIGR00631		655	uvrb excinuclease ABC, B subunit. This family is b	99.07
cd00268		203	DEADc DEAD-box helicases. A diverse family of prot	99.04
PRK05298		652	excinuclease ABC subunit B; Provisional	99.0
KOG0334		997	consensus RNA helicase [RNA processing and modific	98.95
TIGR01967		1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	98.93
KOG0332		477	consensus ATP-dependent RNA helicase [RNA processi	98.93
PRK12900		1025	secA preprotein translocase subunit SecA; Reviewed	98.91
KOG0952		1230	consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup	98.9
PRK12326		764	preprotein translocase subunit SecA; Reviewed	98.88
PRK11131		1294	ATP-dependent RNA helicase HrpA; Provisional	98.85
PF00270		169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	98.85
PF13872		303	AAA_34: P-loop containing NTP hydrolase pore-1	98.82
KOG0341		610	consensus DEAD-box protein abstrakt [RNA processin	98.76
COG1203		733	CRISPR-associated helicase Cas3 [Defense mechanism	98.75
PF11496		297	HDA2-3: Class II histone deacetylase complex subun	98.69
COG4098		441	comFA Superfamily II DNA/RNA helicase required for	98.66
PRK12899		970	secA preprotein translocase subunit SecA; Reviewed	98.61
KOG0351		941	consensus ATP-dependent DNA helicase [Replication,	98.57
PRK13103		913	secA preprotein translocase subunit SecA; Reviewed	98.54
KOG0337		529	consensus ATP-dependent RNA helicase [RNA processi	98.53
KOG0352		641	consensus ATP-dependent DNA helicase [Replication,	98.53
KOG1513		1300	consensus Nuclear helicase MOP-3/SNO (DEAD-box sup	98.49
PRK12903		925	secA preprotein translocase subunit SecA; Reviewed	98.44
COG0556		663	UvrB Helicase subunit of the DNA excision repair c	98.42
TIGR00596		814	rad1 DNA repair protein (rad1). This family is bas	98.42
KOG0327		397	consensus Translation initiation factor 4F, helica	98.35
COG1198		730	PriA Primosomal protein N' (replication factor Y)	98.33
PF13871		278	Helicase_C_4: Helicase_C-like	98.23
KOG0951		1674	consensus RNA helicase BRR2, DEAD-box superfamily	98.23
KOG0353		695	consensus ATP-dependent DNA helicase [General func	98.22
COG1110		1187	Reverse gyrase [DNA replication, recombination, an	98.11
KOG0947		1248	consensus Cytoplasmic exosomal RNA helicase SKI2,	98.0
KOG0823		230	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
PF07652		148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	97.94
CHL00122		870	secA preprotein translocase subunit SecA; Validate	97.84
KOG0346		569	consensus RNA helicase [RNA processing and modific	97.83
KOG0349		725	consensus Putative DEAD-box RNA helicase DDX1 [RNA	97.8
PRK12901		1112	secA preprotein translocase subunit SecA; Reviewed	97.76
PF02399		824	Herpes_ori_bp: Origin of replication binding prote	97.69
PLN03208		193	E3 ubiquitin-protein ligase RMA2; Provisional	97.69
COG4581		1041	Superfamily II RNA helicase [DNA replication, reco	97.65
PRK12902		939	secA preprotein translocase subunit SecA; Reviewed	97.58
PRK15483		986	type III restriction-modification system StyLTI en	97.54
KOG0953		700	consensus Mitochondrial RNA helicase SUV3, DEAD-bo	97.45
smart00504		63	Ubox Modified RING finger domain. Modified RING fi	97.45
KOG2164		513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.44
PF13923		39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	97.43
COG0610		962	Type I site-specific restriction-modification syst	97.41
PF15227		42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	97.39
KOG0329		387	consensus ATP-dependent RNA helicase [RNA processi	97.37
KOG0949		1330	consensus Predicted helicase, DEAD-box superfamily	97.31
KOG0317		293	consensus Predicted E3 ubiquitin ligase, integral	97.23
KOG0922		674	consensus DEAH-box RNA helicase [RNA processing an	97.23
KOG0978		698	consensus E3 ubiquitin ligase involved in syntaxin	97.21
COG1643		845	HrpA HrpA-like helicases [DNA replication, recombi	97.19
KOG0320		187	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
KOG0948		1041	consensus Nuclear exosomal RNA helicase MTR4, DEAD	97.15
TIGR01407		850	dinG_rel DnaQ family exonuclease/DinG family helic	97.05
COG0653		822	SecA Preprotein translocase subunit SecA (ATPase,	96.83
KOG0950		1008	consensus DNA polymerase theta/eta, DEAD-box super	96.82
TIGR00599		397	rad18 DNA repair protein rad18. This family is bas	96.81
PF00097		41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	96.78
smart00488		289	DEXDc2 DEAD-like helicases superfamily.	96.69
smart00489		289	DEXDc3 DEAD-like helicases superfamily.	96.69
PHA02929		238	N1R/p28-like protein; Provisional	96.66
PF13920		50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	96.65
PF13086		236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.63
TIGR03117		636	cas_csf4 CRISPR-associated DEAD/DEAH-box helicase	96.5
PF13445		43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	96.46
PF04564		73	U-box: U-box domain; InterPro: IPR003613 Quality c	96.34
smart00184		39	RING Ring finger. E3 ubiquitin-protein ligase acti	96.12
COG3587		985	Restriction endonuclease [Defense mechanisms]	96.09
COG5432		391	RAD18 RING-finger-containing E3 ubiquitin ligase [	95.98
PF14835		65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	95.96
cd00162		45	RING RING-finger (Really Interesting New Gene) dom	95.94
COG5574		271	PEX10 RING-finger-containing E3 ubiquitin ligase [	95.86
PF13639		44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	95.84
PHA02926		242	zinc finger-like protein; Provisional	95.77
PRK07246		820	bifunctional ATP-dependent DNA helicase/DNA polyme	95.67
KOG0824		324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.59
PF14634		44	zf-RING_5: zinc-RING finger domain	95.55
PRK10536		262	hypothetical protein; Provisional	95.51
PF11789		57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	95.46
TIGR00570		309	cdk7 CDK-activating kinase assembly factor MAT1. A	95.45
PF13307		167	Helicase_C_2: Helicase C-terminal domain; PDB: 4A1	95.25
PF02562		205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.24
KOG1802		935	consensus RNA helicase nonsense mRNA reducing fact	95.18
KOG1133		821	consensus Helicase of the DEAD superfamily [Replic	95.17
COG0553		866	HepA Superfamily II DNA/RNA helicases, SNF2 family	95.15
KOG0287		442	consensus Postreplication repair protein RAD18 [Re	94.95
PRK08074		928	bifunctional ATP-dependent DNA helicase/DNA polyme	94.82
PF07517		266	SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011	94.73
KOG4172		62	consensus Predicted E3 ubiquitin ligase [Posttrans	94.61
KOG1132		945	consensus Helicase of the DEAD superfamily [Replic	94.2
PRK14873		665	primosome assembly protein PriA; Provisional	94.19
TIGR01407		850	dinG_rel DnaQ family exonuclease/DinG family helic	94.11
PRK08074		928	bifunctional ATP-dependent DNA helicase/DNA polyme	93.29
KOG2879		298	consensus Predicted E3 ubiquitin ligase [Posttrans	93.06
COG1199		654	DinG Rad3-related DNA helicases [Transcription / D	92.98
smart00492		141	HELICc3 helicase superfamily c-terminal domain.	92.65
PRK11747		697	dinG ATP-dependent DNA helicase DinG; Provisional	92.51
TIGR00604		705	rad3 DNA repair helicase (rad3). All proteins in t	92.42
TIGR00376		637	DNA helicase, putative. The gene product may repre	92.24
COG5540		374	RING-finger-containing ubiquitin ligase [Posttrans	92.22
PF13604		196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	92.21
KOG1785		563	consensus Tyrosine kinase negative regulator CBL [	92.12
KOG0311		381	consensus Predicted E3 ubiquitin ligase [Posttrans	92.0
KOG1131		755	consensus RNA polymerase II transcription initiati	91.95
KOG4150		1034	consensus Predicted ATP-dependent RNA helicase [RN	91.92
COG5152		259	Uncharacterized conserved protein, contains RING a	91.87
KOG1803		649	consensus DNA helicase [Replication, recombination	91.09
PF09848		352	DUF2075: Uncharacterized conserved protein (DUF207	90.87
TIGR02562		1110	cas3_yersinia CRISPR-associated helicase Cas3. The	90.65
KOG2177		386	consensus Predicted E3 ubiquitin ligase [Posttrans	90.6
smart00491		142	HELICc2 helicase superfamily c-terminal domain.	90.43
COG5222		427	Uncharacterized conserved protein, contains RING Z	90.38
PRK07246		820	bifunctional ATP-dependent DNA helicase/DNA polyme	89.91
KOG4159		398	consensus Predicted E3 ubiquitin ligase [Posttrans	89.85
PHA02533		534	17 large terminase protein; Provisional	89.53
PF12678		73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	89.36
PRK10875		615	recD exonuclease V subunit alpha; Provisional	89.0
TIGR01447		586	recD exodeoxyribonuclease V, alpha subunit. This f	88.99
KOG0926		1172	consensus DEAH-box RNA helicase [RNA processing an	88.74
KOG0826		357	consensus Predicted E3 ubiquitin ligase involved i	88.67
TIGR01448		720	recD_rel helicase, putative, RecD/TraA family. Thi	87.65
KOG2660		331	consensus Locus-specific chromosome binding protei	86.99
PF06862		442	DUF1253: Protein of unknown function (DUF1253); In	86.45
KOG4692		489	consensus Predicted E3 ubiquitin ligase [Posttrans	85.77
PF05876		557	Terminase_GpA: Phage terminase large subunit (GpA)	85.52
COG5220		314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	85.52
KOG4628		348	consensus Predicted E3 ubiquitin ligase [Posttrans	84.96
KOG1813		313	consensus Predicted E3 ubiquitin ligase [Posttrans	84.74
PRK04296		190	thymidine kinase; Provisional	83.26
KOG0346		569	consensus RNA helicase [RNA processing and modific	82.1
PF06733		174	DEAD_2: DEAD_2; InterPro: IPR010614 This represent	81.55
KOG0802		543	consensus E3 ubiquitin ligase [Posttranslational m	80.95

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=2.8e-104  Score=856.21  Aligned_cols=575  Identities=41%  Similarity=0.683  Sum_probs=482.2

Q ss_pred             cCCCCCCcccccCchHHHHHHHHHHHhhhcCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccC
Q 001841          263 EATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNL  342 (1007)
Q Consensus       263 ~~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADdmGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~  342 (1007)
                      ...+|.++ -++|+|||+++|.|+..+|.+.  ..|||||||||+|||||+|||++..                      
T Consensus       174 ~aeqP~dl-ii~LL~fQkE~l~Wl~~QE~Ss--~~GGiLADEMGMGKTIQtIaLllae----------------------  228 (791)
T KOG1002|consen  174 RAEQPDDL-IIPLLPFQKEGLAWLTSQEESS--VAGGILADEMGMGKTIQTIALLLAE----------------------  228 (791)
T ss_pred             cccCcccc-eecchhhhHHHHHHHHHhhhhh--hccceehhhhccchHHHHHHHHHhc----------------------
Confidence            35567775 7899999999999999999875  4899999999999999999999762                      


Q ss_pred             CCCCCCCCcCcccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 001841          343 DDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS  422 (1007)
Q Consensus       343 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~QW~~Ei~k~~~~~~~l~vlv~~g~~  422 (1007)
                                                             ...++||||||.-.+.||.+||.+|...  .+++++|||.+
T Consensus       229 ---------------------------------------~~ra~tLVvaP~VAlmQW~nEI~~~T~g--slkv~~YhG~~  267 (791)
T KOG1002|consen  229 ---------------------------------------VDRAPTLVVAPTVALMQWKNEIERHTSG--SLKVYIYHGAK  267 (791)
T ss_pred             ---------------------------------------cccCCeeEEccHHHHHHHHHHHHHhccC--ceEEEEEeccc
Confidence                                                   1224599999999999999999999874  89999999999


Q ss_pred             CCCCccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCCcchhhhhhhhcccccccccccCCCCCCCCCCccc
Q 001841          423 RTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDY  502 (1007)
Q Consensus       423 r~~~~~~l~~~dVVItSy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~k~~~~~~k~~~~~~~~~  502 (1007)
                      |.++...+..||||+|||.++.+.+.++              .+|    |.            +      |    ...+.
T Consensus       268 R~~nikel~~YDvVLTty~vvEs~yRk~--------------~~G----fr------------r------K----ngv~k  307 (791)
T KOG1002|consen  268 RDKNIKELMNYDVVLTTYAVVESVYRKQ--------------DYG----FR------------R------K----NGVDK  307 (791)
T ss_pred             ccCCHHHhhcCcEEEEecHHHHHHHHhc--------------ccc----cc------------c------c----CCccc
Confidence            9999999999999999999999876552              111    00            0      0    12233


Q ss_pred             CCCCccccceeEEEEccCcccCCcccHHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHhcCCcchh----------
Q 001841          503 GCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVY----------  572 (1007)
Q Consensus       503 ~~~~L~~~~w~rVIlDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~----------  572 (1007)
                      ..++||.+.|.|||+||||.||++.+.+++|++.|++.+||||||||+||++.|||||++||+.+||.-+          
T Consensus       308 e~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~~~  387 (791)
T KOG1002|consen  308 EKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCASL  387 (791)
T ss_pred             ccchhhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhcccccc
Confidence            4568999999999999999999999999999999999999999999999999999999999999886422          


Q ss_pred             ---------------------HHHHHHcccCcccCc-----hhHHHHHHHHHHHhhhhcccCcccCCCccccCCCceEEE
Q 001841          573 ---------------------KSFYSTIKIPISRNS-----LHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL  626 (1007)
Q Consensus       573 ---------------------~~F~~~~~~pi~~~~-----~~~~~~L~~~L~~~~lRRtk~~v~~g~~~~~LP~k~~~~  626 (1007)
                                           -.|......||....     ..++...+.+|+.+|+||||-.-.+   -+.|||+.+.+
T Consensus       388 ~~~ftdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAd---DLgLPPRiv~v  464 (791)
T KOG1002|consen  388 DWKFTDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERAD---DLGLPPRIVTV  464 (791)
T ss_pred             ceeecccccCCcccchhhhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhccccc---ccCCCccceee
Confidence                                 124444456665432     3456788899999999999864333   25799999999


Q ss_pred             EEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcccHHHHHHHHHHHHhhcCcccccccccccccccchHHHhhcCChHH
Q 001841          627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDM  706 (1007)
Q Consensus       627 v~v~ls~~er~lY~~l~~~~~~~~~~~~~~g~~~~~~~~il~~L~rLRq~~~hP~L~~~~~~~~~~~~~~e~~~~~~~~~  706 (1007)
                      ..--|+.+|..+|+.+...+...|+.|...|.+..+|++|+.++.||||+++||.|+.-...           +.++.  
T Consensus       465 RrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~-----------~n~~~--  531 (791)
T KOG1002|consen  465 RRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSAN-----------ANLPD--  531 (791)
T ss_pred             ehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhh-----------cCCCc--
Confidence            99999999999999999999999999999999999999999999999999999999863110           01110  


Q ss_pred             HHHHHhhcccccccccccCCCCCCccccccCcccchhhhhhhccC--CCCCCCCcchhhcccccceecccccccccCCCC
Q 001841          707 LIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITG--DDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDG  784 (1007)
Q Consensus       707 ~~~ll~~le~~~~~C~~c~d~~~~~v~t~CgH~~c~~ci~~~~~~--~~~~cp~~~cr~~l~~~~~~~~~~l~~~~~~~~  784 (1007)
                             -..+..+|.+|.|+.++++++.|.|.||.-|+.+|+.+  +.....||.|...+..+.-.  ..+..      
T Consensus       532 -------enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse--~alek------  596 (791)
T KOG1002|consen  532 -------ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSE--PALEK------  596 (791)
T ss_pred             -------cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccc--hhhhh------
Confidence                   01245789999999999999999999999999998753  33334455787777665211  11100      


Q ss_pred             CCCCCCCcccc----cCCCcCcccchhhHHHHHHHHHhhhhcccccchhhhhhcccCCCCCccccCCCCCCCCeEEEEec
Q 001841          785 GGSPTDSPFAD----KSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQ  860 (1007)
Q Consensus       785 ~~~~~~~~~~~----~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFsq  860 (1007)
                         .....+..    ..+..+.+..|+|+++|.+.|..+.+.+.                           ..|.|||||
T Consensus       597 ---~~l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~rd~---------------------------t~KsIVFSQ  646 (791)
T KOG1002|consen  597 ---TDLKGFKASSILNRINMDDWQSSTKIEALVEELYFLRERDR---------------------------TAKSIVFSQ  646 (791)
T ss_pred             ---cchhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHHccc---------------------------chhhhhHHH
Confidence               00011111    12234567789999999999998887655                           459999999


Q ss_pred             chhHHHHHHHHHhhcCCeEEEecCCCChHHHHHHHHhhccCcccceeeeeccCcccccccccCCEEEEecCCCCCChhHH
Q 001841          861 WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQ  940 (1007)
Q Consensus       861 ~~~~ld~L~~~L~~~gi~~~~i~Gs~s~~~R~~~I~~F~~~~~~~VlLlStkagg~GLNL~~A~~VI~~Dp~WNp~~e~Q  940 (1007)
                      ||+|||+|...|.+.|+..+.+.|+|++++|.+.|+.|.++++++|||+|++|||+.|||+.|++|++|||||||+.+.|
T Consensus       647 FTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Q  726 (791)
T KOG1002|consen  647 FTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQ  726 (791)
T ss_pred             HHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccCceEeeechhceeEeecccccHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhHhhhccCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCccCCCCHHHHHhhhc
Q 001841          941 AVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFM 1006 (1007)
Q Consensus       941 aigRi~RiGQ~k~V~VyrLi~~~TIEe~I~~lq~~K~~li~~~~g~~~~~~~~~~~t~edl~~lf~ 1006 (1007)
                      |.+|+|||||.+||.|.+|++++|||++|+++|++|..|+++.+|.++.  ...+||.||+++||.
T Consensus       727 a~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~qde~--Ai~kLt~eDmqfLF~  790 (791)
T KOG1002|consen  727 AQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIGQDEE--AISKLTEEDMQFLFN  790 (791)
T ss_pred             hhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcCCcHH--HHHhcCHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999998753  357899999999995

>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]	Back alignment and domain information

>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]	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

>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]	Back alignment and domain information

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional	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

>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]	Back alignment and domain information

>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]	Back alignment and domain information

>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]	Back alignment and domain information

>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]	Back alignment and domain information

>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

>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]	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

>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]	Back alignment and domain information

>PRK04914 ATP-dependent helicase HepA; Validated	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

>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

>KOG0383 consensus Predicted helicase [General function prediction only]	Back alignment and domain information

>TIGR00603 rad25 DNA repair helicase rad25	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

>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

>PTZ00110 helicase; Provisional	Back alignment and domain information

>KOG0354 consensus DEAD-box like helicase [General function prediction only]	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

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family	Back alignment and domain information

>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional	Back alignment and domain information

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional	Back alignment and domain information

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional	Back alignment and domain information

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>PTZ00424 helicase 45; Provisional	Back alignment and domain information

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional	Back alignment and domain information

>TIGR00643 recG ATP-dependent DNA helicase RecG	Back alignment and domain information

>TIGR01389 recQ ATP-dependent DNA helicase RecQ	Back alignment and domain information

>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional	Back alignment and domain information

>TIGR00580 mfd transcription-repair coupling factor (mfd)	Back alignment and domain information

>PRK10917 ATP-dependent DNA helicase RecG; Provisional	Back alignment and domain information

>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK10689 transcription-repair coupling factor; Provisional	Back alignment and domain information

>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional	Back alignment and domain information

>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase	Back alignment and domain information

>PRK02362 ski2-like helicase; Provisional	Back alignment and domain information

>PRK13767 ATP-dependent helicase; 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

>PRK01172 ski2-like helicase; Provisional	Back alignment and domain information

>TIGR01587 cas3_core CRISPR-associated helicase Cas3	Back alignment and domain information

>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family	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

>PRK00254 ski2-like helicase; Provisional	Back alignment and domain information

>KOG0330 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

>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

>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype	Back alignment and domain information

>PRK12898 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]	Back alignment and domain information

>PRK09200 preprotein translocase subunit SecA; Reviewed	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

>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR00963 secA preprotein translocase, SecA subunit	Back alignment and domain information

>KOG0333 consensus U5 snRNP-like RNA helicase subunit [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

>PRK09401 reverse gyrase; Reviewed	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

>KOG4284 consensus DEAD box protein [Transcription]	Back alignment and domain information

>PRK05580 primosome assembly protein PriA; Validated	Back alignment and domain information

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type	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

>PHA02653 RNA helicase NPH-II; Provisional	Back alignment and domain information

>smart00487 DEXDc DEAD-like helicases superfamily	Back alignment and domain information

>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0343 consensus RNA Helicase [RNA processing and modification]	Back alignment and domain information

>PRK09751 putative ATP-dependent helicase Lhr; Provisional	Back alignment and domain information

>cd00046 DEXDc DEAD-like helicases superfamily	Back alignment and domain information

>TIGR01054 rgy reverse gyrase	Back alignment and domain information

>TIGR00595 priA primosomal protein N'	Back alignment and domain information

>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]	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

>smart00490 HELICc helicase superfamily c-terminal domain	Back alignment and domain information

>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]	Back alignment and domain information

>COG1201 Lhr Lhr-like helicases [General function prediction only]	Back alignment and domain information

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB	Back alignment and domain information

>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK12906 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>COG1204 Superfamily II helicase [General function prediction only]	Back alignment and domain information

>PRK14701 reverse gyrase; Provisional	Back alignment and domain information

>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK13104 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]	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

>PRK11664 ATP-dependent RNA helicase HrpB; Provisional	Back alignment and domain information

>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK09694 helicase Cas3; Provisional	Back alignment and domain information

>KOG0340 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

>COG4889 Predicted helicase [General function prediction only]	Back alignment and domain information

>PRK12904 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK13107 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0347 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR00631 uvrb excinuclease ABC, B subunit	Back alignment and domain information

>cd00268 DEADc DEAD-box helicases	Back alignment and domain information

>PRK05298 excinuclease ABC subunit B; Provisional	Back alignment and domain information

>KOG0334 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA	Back alignment and domain information

>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK12900 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

>PRK12326 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional	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

>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1	Back alignment and domain information

>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]	Back alignment and domain information

>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]	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

>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK12899 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>PRK13103 secA 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

>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]	Back alignment and domain information

>PRK12903 secA preprotein translocase subunit SecA; Reviewed	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

>TIGR00596 rad1 DNA repair protein (rad1)	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

>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>PF13871 Helicase_C_4: Helicase_C-like	Back alignment and domain information

>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]	Back alignment and domain information

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain	Back alignment and domain information

>CHL00122 secA preprotein translocase subunit SecA; Validated	Back alignment and domain information

>KOG0346 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]	Back alignment and domain information

>PRK12901 secA preprotein translocase subunit SecA; Reviewed	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

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional	Back alignment and domain information

>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK12902 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional	Back alignment and domain information

>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>smart00504 Ubox Modified RING finger domain	Back alignment and domain information

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A	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

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A	Back alignment and domain information

>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, 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

>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]	Back alignment and domain information

>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>TIGR00599 rad18 DNA repair protein rad18	Back alignment and domain information

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule	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

>PHA02929 N1R/p28-like protein; Provisional	Back alignment and domain information

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A	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

>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4	Back alignment and domain information

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A	Back alignment and domain information

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis	Back alignment and domain information

>smart00184 RING Ring finger	Back alignment and domain information

>COG3587 Restriction endonuclease [Defense mechanisms]	Back alignment and domain information

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]	Back alignment and domain information

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B	Back alignment and domain information

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Back alignment and domain information

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A	Back alignment and domain information

>PHA02926 zinc finger-like protein; Provisional	Back alignment and domain information

>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF14634 zf-RING_5: zinc-RING finger domain	Back alignment and domain information

>PRK10536 hypothetical protein; Provisional	Back alignment and domain information

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C	Back alignment and domain information

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1	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

>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

>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]	Back alignment and domain information

>KOG1133 consensus Helicase of the DEAD superfamily [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

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]	Back alignment and domain information

>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	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

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]	Back alignment and domain information

>PRK14873 primosome assembly protein PriA; Provisional	Back alignment and domain information

>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative	Back alignment and domain information

>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>smart00492 HELICc3 helicase superfamily c-terminal domain	Back alignment and domain information

>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional	Back alignment and domain information

>TIGR00604 rad3 DNA repair helicase (rad3)	Back alignment and domain information

>TIGR00376 DNA helicase, putative	Back alignment and domain information

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	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

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]	Back alignment and domain information

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	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

>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]	Back alignment and domain information

>KOG1803 consensus DNA helicase [Replication, recombination and repair]	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

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3	Back alignment and domain information

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>smart00491 HELICc2 helicase superfamily c-terminal domain	Back alignment and domain information

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]	Back alignment and domain information

>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PHA02533 17 large terminase protein; Provisional	Back alignment and domain information

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule	Back alignment and domain information

>PRK10875 recD exonuclease V subunit alpha; Provisional	Back alignment and domain information

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit	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

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR01448 recD_rel helicase, putative, RecD/TraA family	Back alignment and domain information

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]	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

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	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

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK04296 thymidine kinase; Provisional	Back alignment and domain information

>KOG0346 consensus RNA helicase [RNA processing and modification]	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

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

Homologous Structure Templates