Citrus Sinensis ID: 005084

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-----

MVLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVEDLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDNNEDEDGGTSSTSTKVVLEEVLEEAPKWKVLREVLEEIEEERLKQASSREEVLLDGEENDHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTSSKKKKSKEPKGYGILDGVAPVKIAQNAEASSVSKQEHDALLAAASKIRNQGKSDDGDNPETYYGSKGPGRGRGKGRNRNGPACVPQSANKDSKSNSKAAIEDKPEISGSGNEGPADEIHSGVVGYSGGMLETAFVEKEVQWKRSLKTDTAESKDSKPVPPVHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPIDQV

ccHHHHHHHHHHHHcccccEEEEEcccccHHHHHHHHHHHHcccccEEEEEcccHHHHHHHHHHHccccccccccccccccHHHHHHHHccccEEEEccHHHHHHHHccccccccEEEEEEEcccccccccHHHHHHHHHHHHccccEEEEEcccccccccccHHHHHHHHHHcccEEEEEcccccHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccccccEEcccccHHHHHHHHHHHHccccccccccccccccHHHHHHHccccccccccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcHHHHHHcccccccccEEEEEEcccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccEEEEcccccHHHHHHccccEEEEEccccHHHHHHHHHHHcccccccEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccc

ccHHHHHHHHHHHHccccccEEEEEccccHHHHHHHHHHHHcccccEEEEEEccHHHHHHHHHHHHHHcccccEEEcccccHHHHHHHHHcccEEEEccHEEEEHHHcccccHHHEEEEEEEcHHHHHHcHHHHHHHHHHHHcccccEEEEccccccccccccHHHHHHHHHHHHHHEEEccHHHHHHHHHHHcccccEEEEEccccHHHHHHHHHHHHHHHHHHHHHHHcccccHccccHHHHHcccHHHHHHHHHcccHHHccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccEEEEEEccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHcHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHccccccHcccHccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccHHccccHccccccHHHHcccccHHHcccccccHHccccccccEEEEEEccccccHHHHHHccccEEEEEcccHHHHEEEEEEEcccccccEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHcccEEccccc

MVLEFHQHIIAELlqepngglvilssglslPKLIASVLLLhspsqgtllllssspnlksqiihylapnapllpseitadlpanhrhtlyssgqiffvtprILIVDLLtqrlptsnlaGLIILNthaltensTETFICRIIKSLNREAYIRAfsdkptamvsgFAKTERIMKSLFIRKLhlwprfqvnvseelereppvvvdvrvpmskyMGGIQKAILEVMDACLKEMRktnkvdvedltvenglfkSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYRftrsdgvelngqsksvtgkkrklkkvdnnededggtsstSTKVVLEEVLEEAPKWKVLREVLEEIEEERLKQASSREEVlldgeendhGIVLVACKdecscmqledcirngseKVMREEWEKYLLSKVQLRSVqtsskkkkskepkgygildgvapvkiaqnaeassvsKQEHDALLAAASKIRnqgksddgdnpetyygskgpgrgrgkgrnrngpacvpqsankdsksnskaaiedkpeisgsgnegpadeihsgvvgysggMLETAFVEKEVQWKRSlktdtaeskdskpvppvhfyalesdqpildilkPFVIvvyhpdmsfVRQIEVYkaenpsikLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRqksfmmipidqv

MVLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNthaltensteTFICRIIKSLNREAYIRAfsdkptamvsGFAKTERIMKSLFIRKLHLWPRFQVnvseelereppvvvdvrvpmSKYMGGIQKAILEVMDACLKEMRktnkvdvedltvenglfksfDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFaessykifdyaKKRVYRFtrsdgvelngqsksvtgkkrklkkvdnnededggtsststkvvleevleeapkwkvLREVLEEIEEERLKQASSREEVLLDGEENDHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLlskvqlrsvqtsskkkkskepkgygildgvAPVKIAQNAEASSVSKQEHDALLAAASKirnqgksddgdnpetyygskgpgrgrgkgrnrngpacvpqsankdsksnskaaiedkpeisgsgnegpadeIHSGVVGYSGGMLETAFVEKEVQWKRSLktdtaeskdskpvpPVHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTevqkfkagirrENGAfeslirqksfmmipidqv

MVLEFHQHIIAELLQEPNgglvilssglslPKLIASVLLLHSPSQGTllllsssPNLKSQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNvseelereppvvvdvrvpMSKYMGGIQKAILEVMDACLKEMRKTNKVDVEDLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDNNEDEDGGTSSTSTKVVLEEVLEEAPKWKvlrevleeieeerlKQASSREEVLLDGEENDHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTsskkkkskEPKGYGILDGVAPVKIAQNAEASSVSKQEHDALLAAASKIRNQGKSDDGDNPETYYGSkgpgrgrgkgrnrngpACVPQsankdsksnskaaIEDKPEISGSGNEGPADEIHSGVVGYSGGMLETAFVEKEVQWKRSLKTDTAESKDSKPVPPVHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPIDQV

***EFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVEDLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTR****************************************VLEEVLEEAPKWKVLREVL***********************NDHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKV*********************ILDGV******************************************************************************************************GVVGYSGGMLETAFVEKEVQW*******************VHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFM*******

MVLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITA*LPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVEDLTVENGLFKSFDEI****************KQLVSDLKTLRKLLDYLVRYDAVTYLKYLDT**************ESSYKIFDYAK*R**************************************************VLEEAPKWKVLREVLEEIEEER*****************DHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSK***********************************************************************************************************************************************VEKEVQWKRSLKTDTAESKDSKPVPPVHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPID**

MVLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVEDLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTRSDGVELNGQ****************************TKVVLEEVLEEAPKWKVLREVLEEIEEERLKQASSREEVLLDGEENDHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQL***************KGYGILDGVAPVKIAQ***********HDALLAAASKIRNQGKSDDGDNPETYYGSKGPGRGRGKGRNRNGP********************DKPEISGSGNEGPADEIHSGVVGYSGGMLETAFVEKEVQWKRSL***********PVPPVHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPIDQV

MVLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVEDLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTR****************************************VLEEVLEEAPKWKVLREVLEEIEEERLK***************DHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTSSKKKK***********************************************************************************************************************************KEVQWKRSLKTDTAESKDSKPVPPVHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIP****

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MVLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVEDLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDNNEDEDGGTSSTSTKVVLEEVLEEAPKWKVxxxxxxxxxxxxxxxxxxxxxVLLDGEENDHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTSSKKKKSKEPKGYGILDGVAPVKIAQNAEASSVSKQEHDALLAAASKIRNQGKSDDGDNPETYYGSKGPGRGRGKGRNRNGPACVPQSANKDSKSNSKAAIEDKPEISGSGNEGPADEIHSGVVGYSGGMLETAFVEKEVQWKRSLKTDTAESKDSKPVPPVHFYALESDQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPIDQV

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		715	2.2.26 [Sep-21-2011]
Q9LKI5		956	DNA repair endonuclease U	no	no	0.949	0.710	0.634	0.0
Q9QZD4		917	DNA repair endonuclease X	yes	no	0.868	0.677	0.326	4e-95
Q9QYM7		913	DNA repair endonuclease X	yes	no	0.581	0.455	0.383	1e-81
Q92889		916	DNA repair endonuclease X	yes	no	0.586	0.457	0.376	5e-80
P36617		877	DNA repair protein rad16	yes	no	0.613	0.500	0.312	4e-61
P06777		1100	DNA repair protein RAD1 O	yes	no	0.777	0.505	0.287	3e-54
Q24087		961	DNA repair endonuclease X	yes	no	0.583	0.433	0.283	2e-52
Q54PN5		964	DNA repair endonuclease X	yes	no	0.587	0.435	0.282	1e-47
Q8BGE5		2021	Fanconi anemia group M pr	no	no	0.289	0.102	0.233	7e-06
Q9UT23		834	ATP-dependent DNA helicas	no	no	0.279	0.239	0.224	0.0005

>sp\|Q9LKI5\|XPF_ARATH DNA repair endonuclease UVH1 OS=Arabidopsis thaliana GN=UVH1 PE=1 SV=2	Back alignment and function desciption

 Score =  843 bits (2177), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 459/723 (63%), Positives = 556/723 (76%), Gaps = 44/723 (6%)

Query: 1   MVLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSS--SPNLK 58
           M L++HQ II++LL++ NGGL+ILSSGLSL KLIAS+L+LHSPSQGTLLLL S  + +LK
Sbjct: 1   MALKYHQQIISDLLEDSNGGLLILSSGLSLAKLIASLLILHSPSQGTLLLLLSPAAQSLK 60

Query: 59  SQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAG 118
           S+IIHY++      P+EITADLPAN R++LY+SG  FF+TPRILIVDLLTQR+P S+LAG
Sbjct: 61  SRIIHYISSLDSPTPTEITADLPANQRYSLYTSGSPFFITPRILIVDLLTQRIPVSSLAG 120

Query: 119 LIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKL 178
           + ILN H+++E STE FI RI+KSLN  AYIRAFSD+P AMVSGFAKTER M++LF+RK+
Sbjct: 121 IFILNAHSISETSTEAFIIRIVKSLNSSAYIRAFSDRPQAMVSGFAKTERTMRALFLRKI 180

Query: 179 HLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVED 238
           HLWPRFQ++VS+ELEREPP VVD+RV MS YM GIQKAI+EVMDACLKEM+KTNKVDV+D
Sbjct: 181 HLWPRFQLDVSQELEREPPEVVDIRVSMSNYMVGIQKAIIEVMDACLKEMKKTNKVDVDD 240

Query: 239 LTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLD 298
           LTVE+GLFKSFDEI+RRQLDPIWH LGK+TKQLVSDLKTLRKLLDYLVRYDAV++LK+LD
Sbjct: 241 LTVESGLFKSFDEIVRRQLDPIWHTLGKRTKQLVSDLKTLRKLLDYLVRYDAVSFLKFLD 300

Query: 299 TLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDNN 358
           TLRVSES+RSVW+FAESSYKIFD+AKKRVYR  ++  V+     K+ +GKKR  K   ++
Sbjct: 301 TLRVSESYRSVWLFAESSYKIFDFAKKRVYRLVKASDVKSKEHVKNKSGKKRNSKGETDS 360

Query: 359 EDEDGGTSST--STKVVLEEVLEEAPKWKVLREVLEEIEEERLKQASSREEVLLDGEEND 416
            +  GG ++T  +T VV+EEVLEEAPKWKVLRE+LEE +EERLKQA S E    D  +N+
Sbjct: 361 VEAVGGETATNVATGVVVEEVLEEAPKWKVLREILEETQEERLKQAFSEE----DNSDNN 416

Query: 417 HGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTSSKKKKSKEPKG 476
            GIVLVACKDE SCMQLEDCI N  +KVMREEWE YLLSK++LRS+QT  KKK+    KG
Sbjct: 417 -GIVLVACKDERSCMQLEDCITNNPQKVMREEWEMYLLSKIELRSMQTPQKKKQKTP-KG 474

Query: 477 YGILDGVAPVKIAQNAEASSVSKQEHDALLAAASKIRNQGKSDD----GDNPETYYGSKG 532
           +GILDGV PV   QN+E SSV +QEH+AL+AAAS IR  GK+ D     +NPE +     
Sbjct: 475 FGILDGVVPVTTIQNSEGSSVGRQEHEALMAAASSIRKLGKTTDMASGNNNPEPHVDKAS 534

Query: 533 PGRGRGKGRNRNGPACVPQSANKDSKSNSKAAIEDKPEI-SGSGNEGPADEIHSGVVGYS 591
             +G+ K          P S  +  +S +K     KPEI  G  NE  A+E  +     +
Sbjct: 535 CTKGKAKKD--------PTSLRRSLRSCNKKTTNSKPEILPGPENEEKANEASTSAPQEA 586

Query: 592 GGMLETAFVEKEVQWKRSLKTDTAESKDSKPVPPVHFYALESDQPILDILKPFVIVVYHP 651
             +  +                      +K +PPVHFYALESDQPILDILKP VI+VYHP
Sbjct: 587 NAVRPSG---------------------AKKLPPVHFYALESDQPILDILKPSVIIVYHP 625

Query: 652 DMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIP 711
           DM FVR++EVYKAENP  KLKVYF+FY++STEVQKF+A IRREN AFESLIRQKS M+IP
Sbjct: 626 DMGFVRELEVYKAENPLRKLKVYFIFYDESTEVQKFEASIRRENEAFESLIRQKSSMIIP 685

Query: 712 IDQ 714
           +DQ
Sbjct: 686 VDQ 688

Seems to be involved in nucleotide excision repair (NER) of damaged DNA (dark repair mechanism). Involved in repair of UV light, and probably oxidative damage. The UVH1/RAD1-ERCC1/RAD10 complex may act as an endonuclease making DNA incision 5' to the lesion site. In vitro, is implicated in double strand breaks (DSBs) repair and is required for homologous recombination in the presence of non-homologous overhangs. May mediate the induction of a DNA-damage sensitive cell-cycle checkpoint during the G2 phase.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -

>sp\|Q9QZD4\|XPF_MOUSE DNA repair endonuclease XPF OS=Mus musculus GN=Ercc4 PE=2 SV=3	Back alignment and function description

>sp\|Q9QYM7\|XPF_CRIGR DNA repair endonuclease XPF OS=Cricetulus griseus GN=ERCC4 PE=2 SV=3	Back alignment and function description

>sp\|Q92889\|XPF_HUMAN DNA repair endonuclease XPF OS=Homo sapiens GN=ERCC4 PE=1 SV=3	Back alignment and function description

>sp\|P36617\|RAD16_SCHPO DNA repair protein rad16 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rad16 PE=1 SV=2	Back alignment and function description

>sp\|P06777\|RAD1_YEAST DNA repair protein RAD1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD1 PE=1 SV=1	Back alignment and function description

>sp\|Q24087\|XPF_DROME DNA repair endonuclease XPF OS=Drosophila melanogaster GN=mei-9 PE=2 SV=2	Back alignment and function description

>sp\|Q54PN5\|XPF_DICDI DNA repair endonuclease XPF OS=Dictyostelium discoideum GN=ercc4 PE=3 SV=1	Back alignment and function description

>sp\|Q8BGE5\|FANCM_MOUSE Fanconi anemia group M protein homolog OS=Mus musculus GN=Fancm PE=1 SV=3	Back alignment and function description

>sp\|Q9UT23\|MFH1_SCHPO ATP-dependent DNA helicase mfh1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=mfh1 PE=3 SV=2	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		715
356541275		967	PREDICTED: DNA repair endonuclease UVH1-	0.966	0.714	0.658	0.0
449461269		1003	PREDICTED: DNA repair endonuclease UVH1-	0.983	0.700	0.649	0.0
357482211		984	DNA repair endonuclease UVH1 [Medicago t	0.986	0.716	0.668	0.0
224138752		982	predicted protein [Populus trichocarpa]	0.991	0.721	0.673	0.0
8926611		956	5' repair endonuclease [Arabidopsis thal	0.944	0.706	0.629	0.0
359497108		964	PREDICTED: DNA repair endonuclease UVH1-	0.965	0.715	0.666	0.0
296084726		1195	unnamed protein product [Vitis vinifera]	0.959	0.574	0.668	0.0
297801452		956	hypothetical protein ARALYDRAFT_493859 [	0.945	0.707	0.633	0.0
79329474		689	DNA repair endonuclease UVH1 [Arabidopsi	0.951	0.986	0.632	0.0
15237571		956	DNA repair endonuclease UVH1 [Arabidopsi	0.949	0.710	0.634	0.0

>gi\|356541275\|ref\|XP_003539104.1\| PREDICTED: DNA repair endonuclease UVH1-like [Glycine max]	Back alignment and taxonomy information

 Score =  915 bits (2364), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 475/721 (65%), Positives = 563/721 (78%), Gaps = 30/721 (4%)

Query: 2   VLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQI 61
           +++FH+HII ELL++ NGGLV+LSSGL+L KLIAS+L+LHS SQGTLLLLS S       
Sbjct: 1   MVQFHEHIITELLEDSNGGLVVLSSGLALSKLIASLLILHSSSQGTLLLLSPSSTSLKSK 60

Query: 62  IHY----LAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLA 117
           I +    L P    +P+EITADL A HRH LY+SG  FF+TPRILIVDLLT +LPTS +A
Sbjct: 61  ITFHLKTLNPQFYQIPAEITADLHAPHRHALYTSGNAFFITPRILIVDLLTNKLPTSKIA 120

Query: 118 GLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRK 177
           G+IILN H+L+E STE FI RI +SLNR AY+RAFSDKP AMVSGFAK ER MK L +RK
Sbjct: 121 GIIILNAHSLSETSTEAFIVRIFRSLNRGAYVRAFSDKPHAMVSGFAKAERTMKCLHVRK 180

Query: 178 LHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVE 237
           LHLWPRFQV VS+ELER+PP VVD+RVPMS+YM GIQKAI+EVMDACLKEMRKTNKVDVE
Sbjct: 181 LHLWPRFQVYVSQELERDPPEVVDIRVPMSRYMVGIQKAIVEVMDACLKEMRKTNKVDVE 240

Query: 238 DLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYL 297
           DLTVENGLFKSFDEI+RRQLDPIWH LGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYL
Sbjct: 241 DLTVENGLFKSFDEIVRRQLDPIWHTLGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYL 300

Query: 298 DTLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDN 357
           DTLRVSESFRSVWIFAE+SYKIFDYAKKRV+   R+DGV+ N  SKSV  KKR+ K  D 
Sbjct: 301 DTLRVSESFRSVWIFAEASYKIFDYAKKRVFHLVRADGVKFNESSKSVKNKKRRTKGDDK 360

Query: 358 NEDEDGGTSSTSTK--VVLEEVLEEAPKWKVLREVLEEIEEERLKQASSREEVLLDGEEN 415
           + +E  GTSS+S+   ++LEEVLEEAPKWKVLR VLEE+EEER KQ   REEVL +GE+ 
Sbjct: 361 DIEEVDGTSSSSSNAGLILEEVLEEAPKWKVLRNVLEEVEEERQKQGMLREEVLAEGEDT 420

Query: 416 DHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTSSKKKKSKEPK 475
           ++GIVLVACKDE SC+QLE+CI NG +KVM EEW+KYLL+KVQLR +    KK K  +PK
Sbjct: 421 NNGIVLVACKDERSCLQLEECITNGPKKVMHEEWKKYLLNKVQLRDIVNKKKKPKDPKPK 480

Query: 476 GYGILDGVAPVKIAQNAEASSVSKQEHDALLAAASKIRNQGKSDD--GDNPETYYGSKGP 533
           G+GILDGV P+K  Q+AE +S+SKQEHDALLAAASK+RN  ++D    D P+   G +G 
Sbjct: 481 GFGILDGVTPIKPVQSAETTSISKQEHDALLAAASKLRNIAENDHVGEDTPQPDSGGQGR 540

Query: 534 GRGRGKGRNRNGPACVPQSANKDSKSNSKAAIEDKPEISGSGNEGPADEIHSGVVGYSGG 593
            + + K   RN P  +  S  ++  +N   +  DK  +S S N+   DE +    G    
Sbjct: 541 AKRKRKVGIRNDPVILDGSGVQN--NNKAQSTSDKIGMSDSKNKIDEDETNPISAG---- 594

Query: 594 MLETAFVEKEVQWKRSLKTDTAESKDSKPVPPVHFYALESDQPILDILKPFVIVVYHPDM 653
                F E            T ++++ K +PPV+FYALESDQPILDILKP +++VYHPDM
Sbjct: 595 ----RFCE------------TMQARNGKSLPPVYFYALESDQPILDILKPSIVIVYHPDM 638

Query: 654 SFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPID 713
           +FVR+IEVYKAENPS +LKVYF+FYEDS+EVQKF+A IRRENGAFESLIRQKS MMIP+D
Sbjct: 639 TFVREIEVYKAENPSKRLKVYFIFYEDSSEVQKFEASIRRENGAFESLIRQKSLMMIPVD 698

Query: 714 Q 714
           Q
Sbjct: 699 Q 699

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|449461269\|ref\|XP_004148364.1\| PREDICTED: DNA repair endonuclease UVH1-like [Cucumis sativus] gi\|449505229\|ref\|XP_004162411.1\| PREDICTED: DNA repair endonuclease UVH1-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|357482211\|ref\|XP_003611391.1\| DNA repair endonuclease UVH1 [Medicago truncatula] gi\|355512726\|gb\|AES94349.1\| DNA repair endonuclease UVH1 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|224138752\|ref\|XP_002326681.1\| predicted protein [Populus trichocarpa] gi\|222834003\|gb\|EEE72480.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|8926611\|gb\|AAF81910.1\|AF277377_1 5' repair endonuclease [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|359497108\|ref\|XP_002269337.2\| PREDICTED: DNA repair endonuclease UVH1-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|296084726\|emb\|CBI25868.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|297801452\|ref\|XP_002868610.1\| hypothetical protein ARALYDRAFT_493859 [Arabidopsis lyrata subsp. lyrata] gi\|297314446\|gb\|EFH44869.1\| hypothetical protein ARALYDRAFT_493859 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|79329474\|ref\|NP_001031991.1\| DNA repair endonuclease UVH1 [Arabidopsis thaliana] gi\|332007265\|gb\|AED94648.1\| DNA repair endonuclease UVH1 [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi|15237571|ref|NP_198931.1| DNA repair endonuclease UVH1 [Arabidopsis thaliana] gi|55976770|sp|Q9LKI5.2|XPF_ARATH RecName: Full=DNA repair endonuclease UVH1; AltName: Full=DNA excision repair protein XP-F homolog; AltName: Full=Ultraviolet hypersensitive 1; Short=AtRAD1 gi|6013183|gb|AAF01274.1|AF160500_1 repair endonuclease [Arabidopsis thaliana] gi|11995299|gb|AAG42948.1|AF089003_1 single stranded DNA endonuclease RAD1 [Arabidopsis thaliana] gi|9759161|dbj|BAB09717.1| repair endonuclease [Arabidopsis thaliana] gi|22655254|gb|AAM98217.1| repair endonuclease [Arabidopsis thaliana] gi|87128657|gb|ABD23028.1| ultraviolet hypersensitive 1 [Arabidopsis thaliana] gi|332007264|gb|AED94647.1| DNA repair endonuclease UVH1 [Arabidopsis thaliana]

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		715
TAIR\|locus:2163011		956	UVH1 "AT5G41150" [Arabidopsis	0.728	0.544	0.607	2.4e-203
ZFIN\|ZDB-GENE-030131-5533		886	ercc4 "excision repair cross-c	0.393	0.317	0.409	4.1e-79
UNIPROTKB\|F1RLR4		917	ERCC4 "Uncharacterized protein	0.506	0.394	0.351	4.3e-79
UNIPROTKB\|Q92889		916	ERCC4 "DNA repair endonuclease	0.506	0.395	0.356	9e-79
UNIPROTKB\|E2QYD6		918	ERCC4 "Uncharacterized protein	0.423	0.330	0.383	7e-78
UNIPROTKB\|Q6DFB2		897	ercc4 "Ercc4-prov protein" [Xe	0.394	0.314	0.401	1.1e-77
UNIPROTKB\|E1BKV9		916	ERCC4 "Uncharacterized protein	0.518	0.405	0.343	3.1e-77
UNIPROTKB\|F1NAV2		897	ERCC4 "Uncharacterized protein	0.423	0.337	0.402	3.6e-76
UNIPROTKB\|Q9QYM7		913	ERCC4 "DNA repair endonuclease	0.486	0.381	0.364	6.8e-75
MGI\|MGI:1354163		917	Ercc4 "excision repair cross-c	0.518	0.404	0.356	8.1e-75

TAIR\|locus:2163011 UVH1 "AT5G41150" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1586 (563.4 bits), Expect = 2.4e-203, Sum P(2) = 2.4e-203
 Identities = 325/535 (60%), Positives = 394/535 (73%)

Query:     1 MVLEFHQHIIAELLQEPNXXXXXXXXXXXXPKLIASVLLLHSPSQGTXXXXXX--XPNLK 58
             M L++HQ II++LL++ N             KLIAS+L+LHSPSQGT          +LK
Sbjct:     1 MALKYHQQIISDLLEDSNGGLLILSSGLSLAKLIASLLILHSPSQGTLLLLLSPAAQSLK 60

Query:    59 SQIIHYLAPNAPLLPSEITADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAG 118
             S+IIHY++      P+EITADLPAN R++LY+SG  FF+TPRILIVDLLTQR+P S+LAG
Sbjct:    61 SRIIHYISSLDSPTPTEITADLPANQRYSLYTSGSPFFITPRILIVDLLTQRIPVSSLAG 120

Query:   119 LIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKL 178
             + ILN H+++E STE FI RI+KSLN  AYIRAFSD+P AMVSGFAKTER M++LF+RK+
Sbjct:   121 IFILNAHSISETSTEAFIIRIVKSLNSSAYIRAFSDRPQAMVSGFAKTERTMRALFLRKI 180

Query:   179 HLWPRFQVNXXXXXXXXXXXXXXXXXXMSKYMGGIQKAILEVMDACLKEMRKTNKVDVED 238
             HLWPRFQ++                  MS YM GIQKAI+EVMDACLKEM+KTNKVDV+D
Sbjct:   181 HLWPRFQLDVSQELEREPPEVVDIRVSMSNYMVGIQKAIIEVMDACLKEMKKTNKVDVDD 240

Query:   239 LTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLD 298
             LTVE+GLFKSFDEI+RRQLDPIWH LGK+TKQLVSDLKTLRKLLDYLVRYDAV++LK+LD
Sbjct:   241 LTVESGLFKSFDEIVRRQLDPIWHTLGKRTKQLVSDLKTLRKLLDYLVRYDAVSFLKFLD 300

Query:   299 TLRVSESFRSVWIFAESSYKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDNN 358
             TLRVSES+RSVW+FAESSYKIFD+AKKRVYR  ++  V+     K+ +GKKR  K   ++
Sbjct:   301 TLRVSESYRSVWLFAESSYKIFDFAKKRVYRLVKASDVKSKEHVKNKSGKKRNSKGETDS 360

Query:   359 EDEDGGTSSTS--TKVVLEEVLEEAPKWKXXXXXXXXXXXXXXKQASSREEVLLDGEEND 416
              +  GG ++T+  T VV+EEVLEEAPKWK              KQA S E    D  +N+
Sbjct:   361 VEAVGGETATNVATGVVVEEVLEEAPKWKVLREILEETQEERLKQAFSEE----DNSDNN 416

Query:   417 HGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTXXXXXXXXEPKG 476
              GIVLVACKDE SCMQLEDCI N  +KVMREEWE YLLSK++LRS+QT         PKG
Sbjct:   417 -GIVLVACKDERSCMQLEDCITNNPQKVMREEWEMYLLSKIELRSMQTPQKKKQKT-PKG 474

Query:   477 YGILDGVAPVKIAQNAEASSVSKQEHDALLAAASKIRNQGKSDD----GDNPETY 527
             +GILDGV PV   QN+E SSV +QEH+AL+AAAS IR  GK+ D     +NPE +
Sbjct:   475 FGILDGVVPVTTIQNSEGSSVGRQEHEALMAAASSIRKLGKTTDMASGNNNPEPH 529

GO:0000110 "nucleotide-excision repair factor 1 complex" evidence=IBA

GO:0000710 "meiotic mismatch repair" evidence=IBA

GO:0000712 "resolution of meiotic recombination intermediates" evidence=IBA

GO:0003677 "DNA binding" evidence=IEA

GO:0003697 "single-stranded DNA binding" evidence=IBA

GO:0004518 "nuclease activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0006296 "nucleotide-excision repair, DNA incision, 5'-to lesion" evidence=IBA

GO:0000014 "single-stranded DNA specific endodeoxyribonuclease activity" evidence=IMP

GO:0006289 "nucleotide-excision repair" evidence=IMP

GO:0006979 "response to oxidative stress" evidence=IMP

GO:0000724 "double-strand break repair via homologous recombination" evidence=IMP

GO:0006281 "DNA repair" evidence=IEP

GO:0009314 "response to radiation" evidence=IEP

ZFIN\|ZDB-GENE-030131-5533 ercc4 "excision repair cross-complementing rodent repair deficiency, complementation group 4" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RLR4 ERCC4 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|Q92889 ERCC4 "DNA repair endonuclease XPF" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|E2QYD6 ERCC4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|Q6DFB2 ercc4 "Ercc4-prov protein" [Xenopus laevis (taxid:8355)]	Back alignment and assigned GO terms

UNIPROTKB\|E1BKV9 ERCC4 "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NAV2 ERCC4 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|Q9QYM7 ERCC4 "DNA repair endonuclease XPF" [Cricetulus griseus (taxid:10029)]	Back alignment and assigned GO terms

MGI\|MGI:1354163 Ercc4 "excision repair cross-complementing rodent repair deficiency, complementation group 4" [Mus musculus (taxid:10090)]	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

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		715
TIGR00596		814	TIGR00596, rad1, DNA repair protein (rad1)	1e-116

>gnl\|CDD\|233041 TIGR00596, rad1, DNA repair protein (rad1)	Back alignment and domain information

 Score =  367 bits (944), Expect = e-116
 Identities = 205/649 (31%), Positives = 299/649 (46%), Gaps = 118/649 (18%)

Query: 85  RHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLN 144
           R  +Y  G IF +T RIL+VDLLT  +P   + G+++L    + E+S E FI R+ +  N
Sbjct: 1   REKVYLEGGIFSITSRILVVDLLTGIIPPELITGILVLRADRIIESSQEAFILRLYRQKN 60

Query: 145 REAYIRAFSDKPTAMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRV 204
           +  +I+AFSD P A   GF+  E  M++LF+R ++LWPRF V V+  LE+    V+++ V
Sbjct: 61  KTGFIKAFSDNPEAFTMGFSPLETKMRNLFLRHVYLWPRFHVEVASSLEKHKAEVIELHV 120

Query: 205 PMSKYMGGIQKAILEVMDACLKEMRKTNK-VDVEDLTVENGLFKSFDEILRRQLDPIWHI 263
            ++  M  IQ AILE ++ C+ E+++ N  +D+ED  +EN L KSFD I+RRQLDP WH 
Sbjct: 121 SLTDSMSQIQSAILECLNKCIAELKRKNPELDMEDWNLENALTKSFDRIIRRQLDPNWHR 180

Query: 264 LGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDT-LRVSES------FRSVWIFAESS 316
           L  KTKQLV DLK LR LL  LV YDAV++L  LDT LR ++         S W+  +++
Sbjct: 181 LSYKTKQLVGDLKILRHLLQSLVTYDAVSFLGLLDTSLRANKPAVSRKYSESPWLLLDAA 240

Query: 317 YKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDNNEDEDGGTSSTSTKVVLEE 376
             IF YA++RVY                                           +  E 
Sbjct: 241 QLIFSYARQRVYY------------------------------------EGEGPNMKNEP 264

Query: 377 VLEEAPKWKVLREVLEEIEEERLKQASSREEVLLDGEENDHGIVLVACKDECSCMQLED- 435
           VLEE PKW+VL +VL+EI  E       R    L G     G VL+ C D  +C+QL D 
Sbjct: 265 VLEENPKWEVLTDVLKEISHE------MRMTNRLQGP----GKVLIMCSDNRTCLQLRDY 314

Query: 436 ----CIRNGSEKVMREEWEKYLLSKVQLRSVQTSSKKKKSKEPKGYGILDGVAPVKIAQN 491
                 + GS   +  +   Y   + +   +     + +   P+                
Sbjct: 315 LTTSNKKRGSRAFLLNKLRWYRKWREETSKLAKEV-QSQDTFPEN--------------- 358

Query: 492 AEASSVSKQEHDALLAAASKIRNQGKSDDGDNPETYYGSKGPGRGRGKGRNRNGPACVPQ 551
             ASS   +          + R +G               G      K RN N      Q
Sbjct: 359 --ASSNVNKTFRKEQVPTKRRRVRG---------------GSEVAVEKLRNANTNDM--Q 399

Query: 552 SANKDSK-SNSKAAIEDKPEISGSGNEGPADEIHSGVVGYSGGMLETAFVEKEVQWKRSL 610
              +D +       +ED P    +     A++           + E    E ++      
Sbjct: 400 HFEEDHELEEEGDDLEDGPAQEIN----AANDS---------KIFEIIDEENDID----- 441

Query: 611 KTDTAESKDSKPVPPVHFYALESDQ----PILDILKPFVIVVYHPDMSFVRQIEVYKAEN 666
              +    D+ P    HF   E D+      L+ L P  +++Y PD+SF+RQ+EVYKA  
Sbjct: 442 -IYSGAEFDNLPQHITHFLWGERDEYVLRCSLEELMPRYVIMYEPDISFIRQLEVYKASR 500

Query: 667 PSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPIDQV 715
           P   L+VYFL+Y  S E Q++   +RRE  AF  LIR+K+ M IP +  
Sbjct: 501 PLRPLRVYFLYYGGSIEEQRYLTSLRREKDAFTKLIREKANMSIPFETN 549

All proteins in this family for which functions are known are components in a multiprotein endonuclease complex (usually made up of Rad1 and Rad10 homologs). This complex is used primarily for nucleotide excision repair but also for some aspects of recombinational repair in some species. Most Archaeal species also have homologs of these genes, but the function of these Archaeal genes is not known, so we have set our cutoff to only pick up the eukaryotic genes.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit [DNA metabolism, DNA replication, recombination, and repair]. Length = 814

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		715
KOG0442		892	consensus Structure-specific endonuclease ERCC1-XP	100.0
TIGR00596		814	rad1 DNA repair protein (rad1). This family is bas	100.0
COG1111		542	MPH1 ERCC4-like helicases [DNA replication, recomb	100.0
PRK13766		773	Hef nuclease; Provisional	100.0
KOG0354		746	consensus DEAD-box like helicase [General function	100.0
cd00268		203	DEADc DEAD-box helicases. A diverse family of prot	99.37
smart00487		201	DEXDc DEAD-like helicases superfamily.	99.1
PF00270		169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	99.1
PRK11192		434	ATP-dependent RNA helicase SrmB; Provisional	99.07
PF04851		184	ResIII: Type III restriction enzyme, res subunit;	99.07
TIGR00603		732	rad25 DNA repair helicase rad25. All proteins in t	99.04
COG1061		442	SSL2 DNA or RNA helicases of superfamily II [Trans	98.99
PHA02558		501	uvsW UvsW helicase; Provisional	98.95
PTZ00424		401	helicase 45; Provisional	98.94
PRK11448		1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	98.94
TIGR00614		470	recQ_fam ATP-dependent DNA helicase, RecQ family.	98.89
TIGR01389		591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	98.85
PLN00206		518	DEAD-box ATP-dependent RNA helicase; Provisional	98.81
PTZ00110		545	helicase; Provisional	98.81
PRK10590		456	ATP-dependent RNA helicase RhlE; Provisional	98.76
cd00046		144	DEXDc DEAD-like helicases superfamily. A diverse f	98.75
PRK11776		460	ATP-dependent RNA helicase DbpA; Provisional	98.73
PRK11057		607	ATP-dependent DNA helicase RecQ; Provisional	98.68
PLN03142		1033	Probable chromatin-remodeling complex ATPase chain	98.64
PRK04837		423	ATP-dependent RNA helicase RhlB; Provisional	98.61
PRK10917		681	ATP-dependent DNA helicase RecG; Provisional	98.59
PRK01172		674	ski2-like helicase; Provisional	98.58
PRK13767		876	ATP-dependent helicase; Provisional	98.57
PRK02362		737	ski2-like helicase; Provisional	98.57
PRK11634		629	ATP-dependent RNA helicase DeaD; Provisional	98.56
PRK05580		679	primosome assembly protein PriA; Validated	98.55
PRK04914		956	ATP-dependent helicase HepA; Validated	98.55
PRK00254		720	ski2-like helicase; Provisional	98.53
PLN03137		1195	ATP-dependent DNA helicase; Q4-like; Provisional	98.53
PRK01297		475	ATP-dependent RNA helicase RhlB; Provisional	98.51
TIGR00580		926	mfd transcription-repair coupling factor (mfd). Al	98.46
TIGR00643		630	recG ATP-dependent DNA helicase RecG.	98.46
TIGR03817		742	DECH_helic helicase/secretion neighborhood putativ	98.45
COG1204		766	Superfamily II helicase [General function predicti	98.44
PRK10689		1147	transcription-repair coupling factor; Provisional	98.43
TIGR00348		667	hsdR type I site-specific deoxyribonuclease, HsdR	98.42
PRK04537		572	ATP-dependent RNA helicase RhlB; Provisional	98.39
TIGR03714		762	secA2 accessory Sec system translocase SecA2. Memb	98.3
PRK09401		1176	reverse gyrase; Reviewed	98.29
TIGR00595		505	priA primosomal protein N'. All proteins in this f	98.22
TIGR01054		1171	rgy reverse gyrase. Generally, these gyrases are e	98.17
TIGR03158		357	cas3_cyano CRISPR-associated helicase, Cyano-type.	98.15
PRK09200		790	preprotein translocase subunit SecA; Reviewed	98.1
PRK14701		1638	reverse gyrase; Provisional	98.09
COG0514		590	RecQ Superfamily II DNA helicase [DNA replication,	98.04
PF00176		299	SNF2_N: SNF2 family N-terminal domain; InterPro: I	97.84
PHA02653		675	RNA helicase NPH-II; Provisional	97.8
TIGR02621		844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	97.76
PRK11664		812	ATP-dependent RNA helicase HrpB; Provisional	97.73
KOG0331		519	consensus ATP-dependent RNA helicase [RNA processi	97.66
PRK09751		1490	putative ATP-dependent helicase Lhr; Provisional	97.65
TIGR01970		819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	97.62
COG0513		513	SrmB Superfamily II DNA and RNA helicases [DNA rep	97.54
COG1205		851	Distinct helicase family with a unique C-terminal	97.48
TIGR01587		358	cas3_core CRISPR-associated helicase Cas3. This mo	97.46
COG4096		875	HsdR Type I site-specific restriction-modification	97.45
PRK13104		896	secA preprotein translocase subunit SecA; Reviewed	97.38
KOG0952		1230	consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup	97.29
PRK12899		970	secA preprotein translocase subunit SecA; Reviewed	97.29
TIGR00963		745	secA preprotein translocase, SecA subunit. The pro	97.27
PRK13103		913	secA preprotein translocase subunit SecA; Reviewed	97.23
KOG0351		941	consensus ATP-dependent DNA helicase [Replication,	97.22
PF07652		148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	97.19
KOG0385		971	consensus Chromatin remodeling complex WSTF-ISWI,	97.09
PRK11131		1294	ATP-dependent RNA helicase HrpA; Provisional	96.99
TIGR01967		1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	96.71
PF07517		266	SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011	96.67
COG1201		814	Lhr Lhr-like helicases [General function predictio	96.63
KOG0330		476	consensus ATP-dependent RNA helicase [RNA processi	96.58
COG4581		1041	Superfamily II RNA helicase [DNA replication, reco	96.55
KOG0333		673	consensus U5 snRNP-like RNA helicase subunit [RNA	96.32
KOG0352		641	consensus ATP-dependent DNA helicase [Replication,	96.24
PRK12904		830	preprotein translocase subunit SecA; Reviewed	96.17
KOG1000		689	consensus Chromatin remodeling protein HARP/SMARCA	96.11
PRK13107		908	preprotein translocase subunit SecA; Reviewed	95.78
PRK12898		656	secA preprotein translocase subunit SecA; Reviewed	95.43
COG1200		677	RecG RecG-like helicase [DNA replication, recombin	95.29
KOG0336		629	consensus ATP-dependent RNA helicase [RNA processi	95.11
PRK12906		796	secA preprotein translocase subunit SecA; Reviewed	95.04
PRK12326		764	preprotein translocase subunit SecA; Reviewed	94.62
KOG0348		708	consensus ATP-dependent RNA helicase [RNA processi	94.21
PRK12902		939	secA preprotein translocase subunit SecA; Reviewed	93.74
KOG0344		593	consensus ATP-dependent RNA helicase [RNA processi	93.7
PF13872		303	AAA_34: P-loop containing NTP hydrolase pore-1	93.63
PF09848		352	DUF2075: Uncharacterized conserved protein (DUF207	93.31
KOG0347		731	consensus RNA helicase [RNA processing and modific	93.28
KOG0387		923	consensus Transcription-coupled repair protein CSB	92.94
KOG0951		1674	consensus RNA helicase BRR2, DEAD-box superfamily	92.84
KOG0338		691	consensus ATP-dependent RNA helicase [RNA processi	92.68
CHL00122		870	secA preprotein translocase subunit SecA; Validate	92.56
TIGR03117		636	cas_csf4 CRISPR-associated DEAD/DEAH-box helicase	91.93
KOG0329		387	consensus ATP-dependent RNA helicase [RNA processi	91.87
COG4098		441	comFA Superfamily II DNA/RNA helicase required for	91.36
PHA02533		534	17 large terminase protein; Provisional	91.3
PRK12903		925	secA preprotein translocase subunit SecA; Reviewed	91.03
KOG0335		482	consensus ATP-dependent RNA helicase [RNA processi	91.0
PRK00411		394	cdc6 cell division control protein 6; Reviewed	90.99
COG1198		730	PriA Primosomal protein N' (replication factor Y)	90.95
COG1110		1187	Reverse gyrase [DNA replication, recombination, an	90.36
KOG1002		791	consensus Nucleotide excision repair protein RAD16	90.34
KOG0342		543	consensus ATP-dependent RNA helicase pitchoune [RN	90.29
COG0610		962	Type I site-specific restriction-modification syst	90.07
COG4889		1518	Predicted helicase [General function prediction on	90.01
KOG0339		731	consensus ATP-dependent RNA helicase [RNA processi	89.97
COG1202		830	Superfamily II helicase, archaea-specific [General	89.2
KOG0353		695	consensus ATP-dependent DNA helicase [General func	88.73
PRK09694		878	helicase Cas3; Provisional	88.47
KOG0920		924	consensus ATP-dependent RNA helicase A [RNA proces	88.14
PRK15483		986	type III restriction-modification system StyLTI en	87.9
KOG0949		1330	consensus Predicted helicase, DEAD-box superfamily	87.86
KOG4284		980	consensus DEAD box protein [Transcription]	87.47
KOG0343		758	consensus RNA Helicase [RNA processing and modific	87.02
COG1643		845	HrpA HrpA-like helicases [DNA replication, recombi	86.47
KOG0345		567	consensus ATP-dependent RNA helicase [RNA processi	85.34
PRK14873		665	primosome assembly protein PriA; Provisional	85.3
PF03354		477	Terminase_1: Phage Terminase ; InterPro: IPR005021	85.28
KOG0391		1958	consensus SNF2 family DNA-dependent ATPase [Genera	84.81
KOG0392		1549	consensus SNF2 family DNA-dependent ATPase domain-	83.02
KOG0947		1248	consensus Cytoplasmic exosomal RNA helicase SKI2,	82.59
cd00009		151	AAA The AAA+ (ATPases Associated with a wide varie	82.52
KOG0950		1008	consensus DNA polymerase theta/eta, DEAD-box super	81.97
PF13401		131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	81.66
PRK12900		1025	secA preprotein translocase subunit SecA; Reviewed	81.57
PF13086		236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	81.38
KOG0340		442	consensus ATP-dependent RNA helicase [RNA processi	80.79
KOG0389		941	consensus SNF2 family DNA-dependent ATPase [Chroma	80.27
KOG0922		674	consensus DEAH-box RNA helicase [RNA processing an	80.22
PRK12901		1112	secA preprotein translocase subunit SecA; Reviewed	80.13

>KOG0442 consensus Structure-specific endonuclease ERCC1-XPF, catalytic component XPF/ERCC4 [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=6.7e-124  Score=1053.94  Aligned_cols=596  Identities=43%  Similarity=0.683  Sum_probs=477.9

Q ss_pred             chHHHHHHHHHHhcCCCCe-EEEecCCCCHHHHHHHHHHHhcCCCCEEEEecCCHhHHHHHHHHhCCCCCCCCeeecCCC
Q 005084            2 VLEFHQHIIAELLQEPNGG-LVILSSGLSLPKLIASVLLLHSPSQGTLLLLSSSPNLKSQIIHYLAPNAPLLPSEITADL   80 (715)
Q Consensus         2 lL~YQ~~I~~~~l~~~~d~-LvVL~tGLG~~~Iva~ll~~y~~~~~lVlvl~~t~~~~~~i~~~L~~~~~~~~~~itge~   80 (715)
                      +|+||++++.+++..  || |+|||.|||+.+|+++++++|+++++|||+||+.+.+.++|...++.   ..++.++.++
T Consensus        14 lL~Ye~qv~~~ll~~--d~~L~V~a~GLsl~~l~~~~l~~~s~~~sL~LvLN~~~~ee~~f~s~lk~---~~~t~~~s~l   88 (892)
T KOG0442|consen   14 LLEYEQQVLLELLEA--DGNLLVLAPGLSLLRLVAELLILFSPPGSLVLVLNTQEAEEEYFSSKLKE---PLVTEDPSEL   88 (892)
T ss_pred             cchhHHHHHHhhhcc--cCceEEecCCcCHHHHHHHHHHHhCCccceEEEecCchhhHHHHHHhcCc---CCCccChhhc
Confidence            499999999999955  55 99999999999999999999999999999999999999988877765   4688888899


Q ss_pred             ChhhHHHhhcCCCEEEECchHHHHHhhcCCCCCCCeeEEEEecccccCCCChHHHHHHHHHhcCcCccEEeecCCCcccc
Q 005084           81 PANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTAMV  160 (715)
Q Consensus        81 ~~~~R~~lY~~ggV~fvTprIL~~DLLs~ri~~~~ItgiVV~~AHr~~~~~~eaFI~rlyr~~nk~gfIkAfSdsP~sf~  160 (715)
                      +.++|+..|..|||||+|||||++|||+|+||++.|+||+|++||++.++|+++||+|+||++|++||||||||+|++|+
T Consensus        89 s~~~R~~~Yl~GGv~fiSsRiLvvDlLt~rIp~~ki~gI~vl~Ah~i~ets~eaFIlRl~R~knk~gfIkAFsd~P~sf~  168 (892)
T KOG0442|consen   89 SVNKRRSKYLEGGVFFISSRILVVDLLTGRIPTEKITGILVLNAHTISETSQEAFILRLYRSKNKTGFIKAFSDSPESFV  168 (892)
T ss_pred             chhhhHHhhhcCCeEEeeeceeeeehhcCccchhHcceEEEechhhhhhcchhHHHHHHHHHhcCCcceeccccCchhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCcchHHHHHHHhccCeeEeccCCchhhhhhhccCCCeEEEEEecCCccHHHHHHHHHHHHHHHHHHHHHcCC-CCCCcc
Q 005084          161 SGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNK-VDVEDL  239 (715)
Q Consensus       161 ~g~~~l~~vmk~L~I~~v~l~PRf~~~V~~~l~~~~~~V~Ei~V~lt~~m~~Iq~~l~~~~~~~l~ELkr~n~-ld~~~~  239 (715)
                      +||+++++.|++|++++|+||||||+.|..+|++.+++|+|++|+||+.|.+||.+|++||+.|++||+++|+ +|+++|
T Consensus       169 ~gf~~l~r~mR~Lfvr~v~l~PRF~~~V~s~L~~~~~kVvei~V~~s~~~~~iQ~~lleii~~clrel~r~n~~~~~ee~  248 (892)
T KOG0442|consen  169 SGFSHLERKMRNLFVRHVLLWPRFHVNVESSLNQLPPKVVEINVSMSNSMSQIQSHLLEIIKKCLRELKRLNPELDMEEV  248 (892)
T ss_pred             ccchHHHHHHHHHHhhhheeccchHhHHhhhhccCCCceEEEEeecCccHHHHHHHHHHHHHHHHHHHHhhCcccchhhc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999 999999


Q ss_pred             chhhccchhHHHHHHhhcCcccccchHhHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhccc---CCCccccchhH
Q 005084          240 TVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSES---FRSVWIFAESS  316 (715)
Q Consensus       240 t~e~~L~~~f~~~ir~qL~p~wh~~s~ktkqLv~Dl~~Lr~Ll~~L~~~d~vsF~~yLe~l~~~~~---~~S~Wl~~~aa  316 (715)
                      +++++++++|++++++||+|+||+++++|||||+||++||+||.+|.+||||+||++++++++++.   .+|+|+++++|
T Consensus       249 ~~E~~~~~sf~~i~~~~Ld~~wh~ls~ktkqlv~Dl~~LR~Ll~~L~~~D~vsfl~~l~tlr~~~~~~s~~s~Wl~ldss  328 (892)
T KOG0442|consen  249 NVENILDKSFDKILRSQLDPIWHQLSTKTKQLVNDLKTLRILLKSLVSYDAVSFLKILKTLRNSEIVSSIPSGWLLLDSS  328 (892)
T ss_pred             chhhcccccHHHHHHHhhchhhhhccHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhhhhhccCCCCceecchH
Confidence            999999999999999999999999999999999999999999999999999999999999999875   35699999999


Q ss_pred             HHHHHHHHHHhccccccCcccccCCCcccccccccccccCCCCCCCCCCCCCCchhhhhhhcccCCcHHHHHHHH-HHHH
Q 005084          317 YKIFDYAKKRVYRFTRSDGVELNGQSKSVTGKKRKLKKVDNNEDEDGGTSSTSTKVVLEEVLEEAPKWKVLREVL-EEIE  395 (715)
Q Consensus       317 ~~lf~~Ak~Rvy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEe~PKW~~L~eiL-~eI~  395 (715)
                      +.||+.|+.|||...                                          -++.+|++|||++|.+|| +||.
T Consensus       329 ~~i~~~a~~rv~~~~------------------------------------------~e~~lE~~pKw~~Ltdil~~e~~  366 (892)
T KOG0442|consen  329 NKIFEEARKRVYSLE------------------------------------------NESELEECPKWEVLTDILFKEIE  366 (892)
T ss_pred             HHHHHHHHHHHhhcc------------------------------------------cccccccCCCcHHHHHHHHhhhh
Confidence            999999999999621                                          267899999999999999 8888


Q ss_pred             HHHHhhhcchhhhhccCCCCCCCeEEEEeCChhhHHHHHHHHHhCcHHHHHHHHHHHHHHHHhhhhhhhccccccCCCCC
Q 005084          396 EERLKQASSREEVLLDGEENDHGIVLVACKDECSCMQLEDCIRNGSEKVMREEWEKYLLSKVQLRSVQTSSKKKKSKEPK  475 (715)
Q Consensus       396 ~e~~~~~~~~~~~~~~~~~~~~~~vLI~~~~~~T~~qL~~~L~~~~~~~m~~~~r~yl~~k~~~~~~~~~~~~~~~~~~~  475 (715)
                      ++......          .+.+|.|||+|+|++||.||++||+.|+++||.+. ++|++..-...+.+....++. ..+ 
T Consensus       367 ~~~~~~~~----------~~~~~~Vlv~c~dertC~ql~d~lt~g~~~~~~~~-~~~~~~~~~~~kl~~~~~k~d-~~~-  433 (892)
T KOG0442|consen  367 HEKERADR----------SNDQGSVLVACSDERTCAQLRDYLTLGINKVLLMT-RQYLLKDDKSEKLVEVLQKRD-STP-  433 (892)
T ss_pred             hHHHHhhh----------cCCCCceEEEeccchhHHHHHHHHhccchhhhhhH-HHhhccCchhhhhhhhhhchh-hcc-
Confidence            77655322          27789999999999999999999999999999888 888865443333333332211 000 


Q ss_pred             CCCcCCCCcccccccccccccchhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccc
Q 005084          476 GYGILDGVAPVKIAQNAEASSVSKQEHDALLAAASKIRNQGKSDDGDNPETYYGSKGPGRGRGKGRNRNGPACVPQSANK  555 (715)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~krrr~rg~~~~~~~~~~~~~~~~~~~  555 (715)
                          .....+|....++++++.. +...+-.+|..++++...+    ++.. ..-           +-..++...+ ..+
T Consensus       434 ----~~~~~sv~~~~~kE~~~~~-~~~~~~~sa~~k~r~~~e~----sG~~-~~~-----------~~~~~~~~~~-~~~  491 (892)
T KOG0442|consen  434 ----SVSPVSVHVEKNKEQVSTV-QRTLAGSSALEKVRGEAEE----SGNN-SDE-----------RYQTNATQFG-ESQ  491 (892)
T ss_pred             ----ccccCCCcchhhhhhhhhc-ccCcccHHHHHHHhcchhh----ccCC-ccc-----------hhhhcccccc-ccc
Confidence                0122233333444433221 1111222244444421100    0000 000           0000000000 000


Q ss_pred             cccccccccccCcccccCCCCCCCCccccccccccCCCccchhhhHHHHHhhhcccccccccCCCCCCCcEEe--ecCCC
Q 005084          556 DSKSNSKAAIEDKPEISGSGNEGPADEIHSGVVGYSGGMLETAFVEKEVQWKRSLKTDTAESKDSKPVPPVHF--YALES  633 (715)
Q Consensus       556 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~--y~~~~  633 (715)
                      .  ..-+.+.                    ......++..+...+..+++...   ...+        ..+.+  |++  
T Consensus       492 ~--~~~~~~~--------------------~~~~~~e~~~e~~~v~k~~~~~~---~~~~--------~~~~~~~y~l--  536 (892)
T KOG0442|consen  492 P--KELKIAK--------------------TDNSTLEPMEETPEVNKDAKTSE---HQLY--------NSVDTYSYAL--  536 (892)
T ss_pred             h--hhhcccc--------------------ccccccCccccchhhhhhhhhcc---cccc--------ceechhhhhH--
Confidence            0  0000000                    00000001111111222221111   0111        12333  445  


Q ss_pred             ChhhhhhcCCCeEEEecCCchhhhhhhhhhccCCCCceeEEEEEecchhHHHHHHHHHHHHHhHHHHHHhcccccccccc
Q 005084          634 DQPILDILKPFVIVVYHPDMSFVRQIEVYKAENPSIKLKVYFLFYEDSTEVQKFKAGIRRENGAFESLIRQKSFMMIPID  713 (715)
Q Consensus       634 d~~~L~el~P~~IImYdpd~~FIR~iEvY~A~~p~~~lrVYFm~Y~~SvEEQ~yL~~irrEK~AFe~LIreKa~M~ip~~  713 (715)
                       .++|++++|+|||||+||+.||||||||+|+||..++|||||||++|+|||+||++|||||+|||+|||||++|+||.+
T Consensus       537 -~~~L~~~kP~yvi~y~~~~~~vRqiEvYka~~p~~~lkVYfl~y~~S~EeQ~yltSirREk~sFe~LIre~ssm~ip~e  615 (892)
T KOG0442|consen  537 -ERVLEELKPRYVIMYESDLTFVRQIEVYKATRPFRSLKVYFLYYGESTEEQRYLTSIRREKASFEKLIREKSSLRIPLE  615 (892)
T ss_pred             -HHHHHhhCCceEEEEcCCCCceeeeeeeeccCCCCCceEEEEEecCchHHHHHHHHHHHhHHHHHHHHhhccceeeeee
Confidence             5699999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q 005084          714 QV  715 (715)
Q Consensus       714 q~  715 (715)
                      +|
T Consensus       616 ~d  617 (892)
T KOG0442|consen  616 QD  617 (892)
T ss_pred             cc
Confidence            86

>TIGR00596 rad1 DNA repair protein (rad1)	Back alignment and domain information

>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK13766 Hef nuclease; Provisional	Back alignment and domain information

>KOG0354 consensus DEAD-box like helicase [General function prediction only]	Back alignment and domain information

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

>smart00487 DEXDc DEAD-like helicases superfamily	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

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional	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

>TIGR00603 rad25 DNA repair helicase rad25	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

>PHA02558 uvsW UvsW helicase; Provisional	Back alignment and domain information

>PTZ00424 helicase 45; Provisional	Back alignment and domain information

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

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

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

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

>PTZ00110 helicase; Provisional	Back alignment and domain information

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

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

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional	Back alignment and domain information

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

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional	Back alignment and domain information

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

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

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

>PRK13767 ATP-dependent helicase; Provisional	Back alignment and domain information

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

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

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

>PRK04914 ATP-dependent helicase HepA; Validated	Back alignment and domain information

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

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

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

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

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

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

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

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

>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family	Back alignment and domain information

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

>TIGR03714 secA2 accessory Sec system translocase SecA2	Back alignment and domain information

>PRK09401 reverse gyrase; Reviewed	Back alignment and domain information

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

>TIGR01054 rgy reverse gyrase	Back alignment and domain information

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type	Back alignment and domain information

>PRK09200 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK14701 reverse gyrase; Provisional	Back alignment and domain information

>COG0514 RecQ Superfamily II DNA helicase [DNA 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

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

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

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

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

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

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB	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

>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

>TIGR01587 cas3_core CRISPR-associated helicase Cas3	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

>PRK13104 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

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

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

>PRK13103 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

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

>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]	Back alignment and domain information

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional	Back alignment and domain information

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA	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

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

>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

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

>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]	Back alignment and domain information

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

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

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

>PRK13107 preprotein translocase subunit SecA; Reviewed	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

>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

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

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

>PRK12902 secA 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

>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1	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

>KOG0347 consensus RNA helicase [RNA processing and modification]	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

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

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

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

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

>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]	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

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

>PRK12903 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

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

>PRK00411 cdc6 cell division control protein 6; Reviewed	Back alignment and domain information

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

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

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

>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]	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

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

>KOG0339 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

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

>PRK09694 helicase Cas3; Provisional	Back alignment and domain information

>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]	Back alignment and domain information

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

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

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

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

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

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

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

>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase)	Back alignment and domain information

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

>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]	Back alignment and domain information

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

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold	Back alignment and domain information

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

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B	Back alignment and domain information

>PRK12900 secA preprotein translocase subunit SecA; Reviewed	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

>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

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

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

>PRK12901 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		715
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-09
4a2w_A		936	RIG-I, retinoic acid inducible protein I; hydrolas	1e-04
3tbk_A		555	RIG-I helicase domain; DECH helicase, ATP binding,	1e-04
2ykg_A		696	Probable ATP-dependent RNA helicase DDX58; hydrola	2e-04
4a2q_A		797	RIG-I, retinoic acid inducible protein I; hydrolas	8e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

 Score = 57.9 bits (139), Expect = 9e-09
 Identities = 70/529 (13%), Positives = 148/529 (27%), Gaps = 141/529 (26%)

Query: 83  NHRHTL--------YSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTET 134
           +H H +        Y    I  V     + +   + +     +   IL+   +       
Sbjct: 2   HHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS---ILSKEEIDH----- 53

Query: 135 FICRIIKSLNREAYIR----AFSDKPTAMVSGFA---------------KTERIMKSLFI 175
               II S +  +           K   MV  F                KTE+   S+ +
Sbjct: 54  ----IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM-M 108

Query: 176 RKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDA---CLKEMR--- 229
            ++++  R      + L  +  V     V   +    +++A+LE+  A    +  +    
Sbjct: 109 TRMYIEQR------DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG 162

Query: 230 KT---NKVDVEDLTVE----NGLF-------KSFDEI------LRRQLDPIWHILGKKTK 269
           KT     V      V+      +F        S + +      L  Q+DP W      + 
Sbjct: 163 KTWVALDV-CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221

Query: 270 QLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSYKIFDYAKKRVYR 329
            +   + +++  L  L++        Y + L V     +V      ++  F+    ++  
Sbjct: 222 NIKLRIHSIQAELRRLLKSK-----PYENCLLV---LLNVQN--AKAWNAFNL-SCKILL 270

Query: 330 FTRSDGVELNGQSKSVTGKKRKLKKVDNNEDEDGGTSSTSTKVVLEEVL--------EEA 381
            TR   V     +  ++        +   +      +    K +L + L         E 
Sbjct: 271 TTRFKQV-----TDFLSAATTTHISL---DHHSMTLTPDEVKSLLLKYLDCRPQDLPREV 322

Query: 382 PK---------WKVLREVLEEIEE------ERLKQA--SSREEVLLDGEENDHGIVLVAC 424
                       + +R+ L   +       ++L     SS     L+  E          
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV--LEPAE------YRKM 374

Query: 425 KDECSCMQLEDC-IRNGSEKVMREEWEKYLLSKVQLRSVQTSSKK---KKSKEPKGYGIL 480
            D  S        I      ++   W   ++    +  V    K    +K  +     I 
Sbjct: 375 FDRLSVFP-PSAHI---PTILLSLIWFD-VIKSDVMVVVNKLHKYSLVEKQPKESTISIP 429

Query: 481 DGVAPVKIAQNAEASSVSKQE-HDALLAAASKIRNQGKSDDGDNPETYY 528
                  I    +    ++   H +++   +  +     D        Y
Sbjct: 430 S------IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472

PyMOL of 1vt4

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos} Length = 936	Back alignment and structure

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus} Length = 555	Back alignment and structure

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A* Length = 696	Back alignment and structure

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos} Length = 797	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		715
1wp9_A		494	ATP-dependent RNA helicase, putative; ATPase, DNA	99.95
4a2p_A		556	RIG-I, retinoic acid inducible protein I; hydrolas	99.82
3tbk_A		555	RIG-I helicase domain; DECH helicase, ATP binding,	99.8
4a2q_A		797	RIG-I, retinoic acid inducible protein I; hydrolas	99.79
4a2w_A		936	RIG-I, retinoic acid inducible protein I; hydrolas	99.77
2ykg_A		696	Probable ATP-dependent RNA helicase DDX58; hydrola	99.75
4gl2_A		699	Interferon-induced helicase C domain-containing P;	99.7
1qde_A		224	EIF4A, translation initiation factor 4A; DEAD box	99.36
1t6n_A		220	Probable ATP-dependent RNA helicase; RECA-like fol	99.36
2oxc_A		230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	99.32
1vec_A		206	ATP-dependent RNA helicase P54; DEAD-box protein,	99.31
2gxq_A		207	Heat resistant RNA dependent ATPase; RNA helicase,	99.31
1z63_A		500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	99.3
1hv8_A		367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	99.3
3iuy_A		228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	99.28
3mwy_W		800	Chromo domain-containing protein 1; SWI2/SNF2 ATPa	99.28
2pl3_A		236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	99.27
3fe2_A		242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	99.24
1xti_A		391	Probable ATP-dependent RNA helicase P47; alpha-bet	99.23
1q0u_A		219	Bstdead; DEAD protein, RNA binding protein; 1.85A	99.23
3b6e_A		216	Interferon-induced helicase C domain-containing P;	99.23
2z0m_A		337	337AA long hypothetical ATP-dependent RNA helicase	99.22
3bor_A		237	Human initiation factor 4A-II; translation initiat	99.22
1fuu_A		394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	99.2
3ber_A		249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	99.18
1wrb_A		253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	99.15
2oca_A		510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	99.13
3pey_A		395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	99.11
1rif_A		282	DAR protein, DNA helicase UVSW; bacteriophage, REC	99.1
2j0s_A		410	ATP-dependent RNA helicase DDX48; mRNA processing,	99.09
3ly5_A		262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	99.08
3eiq_A		414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	99.07
1z3i_X		644	Similar to RAD54-like; recombination ATPase helica	99.06
2v1x_A		591	ATP-dependent DNA helicase Q1; DNA strand annealin	99.05
1s2m_A		400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	99.04
3fho_A		508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	99.04
1oyw_A		523	RECQ helicase, ATP-dependent DNA helicase; winged	98.98
2db3_A		434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	98.96
3oiy_A		414	Reverse gyrase helicase domain; topoisomerase, DNA	98.96
3dkp_A		245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	98.95
3fht_A		412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	98.95
3h1t_A		590	Type I site-specific restriction-modification syst	98.93
3fmo_B		300	ATP-dependent RNA helicase DDX19B; nuclear porin,	98.91
2fwr_A		472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	98.9
2i4i_A		417	ATP-dependent RNA helicase DDX3X; DEAD, structural	98.9
2xgj_A		1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	98.88
3l9o_A		1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	98.86
4a4z_A		997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	98.83
2fz4_A		237	DNA repair protein RAD25; RECA-like domain, DNA da	98.83
3dmq_A		968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	98.83
2va8_A		715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	98.75
3i5x_A		563	ATP-dependent RNA helicase MSS116; protein-RNA com	98.73
2zj8_A		720	DNA helicase, putative SKI2-type helicase; RECA fo	98.72
3fmp_B		479	ATP-dependent RNA helicase DDX19B; nuclear porin,	98.71
2p6r_A		702	Afuhel308 helicase; protein-DNA complex, SF2 helic	98.71
2w00_A		1038	HSDR, R.ECOR124I; ATP-binding, DNA-binding, restri	98.67
3sqw_A		579	ATP-dependent RNA helicase MSS116, mitochondrial;	98.65
2eyq_A		1151	TRCF, transcription-repair coupling factor; MFD, S	98.57
1gm5_A		780	RECG; helicase, replication restart; HET: DNA ADP;	98.55
4ddu_A		1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	98.44
3llm_A		235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	98.33
4f92_B		1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	98.28
4f92_B		1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	98.27
1gku_B		1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	98.22
2v6i_A		431	RNA helicase; membrane, hydrolase, transmembrane,	98.07
2jlq_A		451	Serine protease subunit NS3; ribonucleoprotein, nu	97.96
2z83_A		459	Helicase/nucleoside triphosphatase; hydrolase, mem	97.94
2xau_A		773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	97.81
3o8b_A		666	HCV NS3 protease/helicase; ntpase, RNA, translocat	97.61
3crv_A		551	XPD/RAD3 related DNA helicase; XPD helicase DNA re	97.59
1yks_A		440	Genome polyprotein [contains: flavivirin protease	97.57
2whx_A		618	Serine protease/ntpase/helicase NS3; transcription	97.49
2wv9_A		673	Flavivirin protease NS2B regulatory subunit, FLAV	97.44
2vl7_A		540	XPD; helicase, unknown function; 2.25A {Sulfolobus	97.26
2fsf_A		853	Preprotein translocase SECA subunit; ATPase, DNA-R	96.98
2ipc_A		997	Preprotein translocase SECA subunit; nucleotide bi	96.98
1nkt_A		922	Preprotein translocase SECA 1 subunit; preprotein	96.83
1tf5_A		844	Preprotein translocase SECA subunit; ATPase, helic	96.78
3rc3_A		677	ATP-dependent RNA helicase SUPV3L1, mitochondrial;	96.1
2o0j_A		385	Terminase, DNA packaging protein GP17; nucleotide-	93.72
2gk6_A		624	Regulator of nonsense transcripts 1; UPF1, helicas	91.36
3cpe_A		592	Terminase, DNA packaging protein GP17; large termi	90.99
2xzl_A		802	ATP-dependent helicase NAM7; hydrolase-RNA complex	89.28
3jux_A		822	Protein translocase subunit SECA; protein transloc	88.06
4b3f_X		646	DNA-binding protein smubp-2; hydrolase, helicase;	87.45
2wjy_A		800	Regulator of nonsense transcripts 1; nonsense medi	86.8
1w36_D		608	RECD, exodeoxyribonuclease V alpha chain; recombin	86.73
4a15_A		620	XPD helicase, ATP-dependent DNA helicase TA0057; h	85.99
3e1s_A		574	Exodeoxyribonuclease V, subunit RECD; alpha and be	82.54

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19	Back alignment and structure

Probab=99.95  E-value=7e-25  Score=238.49  Aligned_cols=368  Identities=15%  Similarity=0.183  Sum_probs=283.5

Q ss_pred             chHHHHHHHHHHhcCCCCeEEEecCCCCHHHHHHHHHH-HhcCCCCEEEEecCCHhHHHHHHHHhCCC---CCCCCeeec
Q 005084            2 VLEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLL-LHSPSQGTLLLLSSSPNLKSQIIHYLAPN---APLLPSEIT   77 (715)
Q Consensus         2 lL~YQ~~I~~~~l~~~~d~LvVL~tGLG~~~Iva~ll~-~y~~~~~lVlvl~~t~~~~~~i~~~L~~~---~~~~~~~it   77 (715)
                      +.+||++++..++..  ++|++.|||+|||.++..++. ....+++.+|++.|+..+..+..+.+...   ....+..++
T Consensus        10 l~~~Q~~~i~~~~~~--~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~v~~~~   87 (494)
T 1wp9_A           10 PRIYQEVIYAKCKET--NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALT   87 (494)
T ss_dssp             CCHHHHHHHHHGGGS--CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHHHHHHHHHHHHBCSCGGGEEEEC
T ss_pred             ccHHHHHHHHHHhhC--CEEEEcCCCCCHHHHHHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHHHHHhCcchhheEEee
Confidence            568999999999987  999999999999966655555 22234677888888877776554444321   112567889


Q ss_pred             CCCChhhHHHhhcCCCEEEECchHHHHHhhcCCCCCCCeeEEEEecccccCCCChHHHHHHHHHhcCcCccEEeecCCCc
Q 005084           78 ADLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPT  157 (715)
Q Consensus        78 ge~~~~~R~~lY~~ggV~fvTprIL~~DLLs~ri~~~~ItgiVV~~AHr~~~~~~eaFI~rlyr~~nk~gfIkAfSdsP~  157 (715)
                      |+....++..+|....|+++||+.|..++..+.+....+..|||||||++.+.+.+.++.+.++...+...+.+||++|.
T Consensus        88 g~~~~~~~~~~~~~~~ivv~T~~~l~~~~~~~~~~~~~~~~vIiDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lTaTp~  167 (494)
T 1wp9_A           88 GEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPG  167 (494)
T ss_dssp             SCSCHHHHHHHHHHCSEEEECHHHHHHHHHTTSCCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEESCSC
T ss_pred             CCcchhhhhhhccCCCEEEecHHHHHHHHhcCCcchhhceEEEEECCcccCCCCcHHHHHHHHHhcCCCCeEEEEecCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999888999999999998


Q ss_pred             ccccCcchHHHHHHHhccCeeEeccCCchhhhhhhccCCCeEEEEEecCCccHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Q 005084          158 AMVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEELEREPPVVVDVRVPMSKYMGGIQKAILEVMDACLKEMRKTNKVDVE  237 (715)
Q Consensus       158 sf~~g~~~l~~vmk~L~I~~v~l~PRf~~~V~~~l~~~~~~V~Ei~V~lt~~m~~Iq~~l~~~~~~~l~ELkr~n~ld~~  237 (715)
                      .   +...+..++..|++..+.++..++.++.+++  .+..+..+.+.+++.+..+...+...+...++++...+.+...
T Consensus       168 ~---~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (494)
T 1wp9_A          168 S---TPEKIMEVINNLGIEHIEYRSENSPDVRPYV--KGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLESS  242 (494)
T ss_dssp             S---SHHHHHHHHHHTTCCEEEECCTTSTTTGGGC--CCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHTSSSCC
T ss_pred             C---CcHHHHHHHHhcChheeeccCCCcHHHHHhc--CCCceeEEecCCcHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence            4   6678999999999999999999999999999  5677888999999999999999999999999999998864332


Q ss_pred             ccchhhccchhHHHHHHhhcCcccccchHhHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcccCCCccccchhHH
Q 005084          238 DLTVENGLFKSFDEILRRQLDPIWHILGKKTKQLVSDLKTLRKLLDYLVRYDAVTYLKYLDTLRVSESFRSVWIFAESSY  317 (715)
Q Consensus       238 ~~t~e~~L~~~f~~~ir~qL~p~wh~~s~ktkqLv~Dl~~Lr~Ll~~L~~~d~vsF~~yLe~l~~~~~~~S~Wl~~~aa~  317 (715)
                      ...+...-...+...++..+.. .....|.....+..+..+.+.+..+..++...+..|+..+......    .......
T Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~~  317 (494)
T 1wp9_A          243 SPDIPKKEVLRAGQIINEEMAK-GNHDLRGLLLYHAMALKLHHAIELLETQGLSALRAYIKKLYEEAKA----GSTKASK  317 (494)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHTT-TCCSTTTHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHT----TCCHHHH
T ss_pred             CCCcchhHHHHHHHHHHHHhhc-cccchhhHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhhcc----ccchhhh
Confidence            2222211111234444544442 2334566667788889999999999999999999999988765321    1234444


Q ss_pred             HHHHHHHHH-hccccccCcccccCCCcccccccccccccCCCCCCCCCCCCCCchhhhhhhcccCCcHHHHHHHHHHHHH
Q 005084          318 KIFDYAKKR-VYRFTRSDGVELNGQSKSVTGKKRKLKKVDNNEDEDGGTSSTSTKVVLEEVLEEAPKWKVLREVLEEIEE  396 (715)
Q Consensus       318 ~lf~~Ak~R-vy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEe~PKW~~L~eiL~eI~~  396 (715)
                      .++.....+ +.....                                        .........||+..|.++|.++..
T Consensus       318 ~~~~~~~~~~~~~~~~----------------------------------------~~~~~~~~~~k~~~l~~~l~~~~~  357 (494)
T 1wp9_A          318 EIFSDKRMKKAISLLV----------------------------------------QAKEIGLDHPKMDKLKEIIREQLQ  357 (494)
T ss_dssp             HHHTSHHHHHHHHHHH----------------------------------------HHHHHTCSCHHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHH----------------------------------------HHHhcCCCChHHHHHHHHHHHHhc
Confidence            444322111 000000                                        012223678999999999988654


Q ss_pred             HHHhhhcchhhhhccCCCCCCCeEEEEeCChhhHHHHHHHHH
Q 005084          397 ERLKQASSREEVLLDGEENDHGIVLVACKDECSCMQLEDCIR  438 (715)
Q Consensus       397 e~~~~~~~~~~~~~~~~~~~~~~vLI~~~~~~T~~qL~~~L~  438 (715)
                      .                 .+.+++||||++.++|..|.++|.
T Consensus       358 ~-----------------~~~~k~lVF~~~~~~~~~l~~~L~  382 (494)
T 1wp9_A          358 R-----------------KQNSKIIVFTNYRETAKKIVNELV  382 (494)
T ss_dssp             H-----------------CTTCCEEEECSCHHHHHHHHHHHH
T ss_pred             c-----------------CCCCeEEEEEccHHHHHHHHHHHH
Confidence            3                 345799999999999999998874

PyMOL of 1wp9

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*	Back alignment and structure

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}	Back alignment and structure

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos}	Back alignment and structure

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos}	Back alignment and structure

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*	Back alignment and structure

>4gl2_A Interferon-induced helicase C domain-containing P; MDA5, dsRNA, anti-viral signaling, RIG-I, MAVS, oligomerizat helicase, ATPase; HET: ANP; 3.56A {Homo sapiens}	Back alignment and structure

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A	Back alignment and structure

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19	Back alignment and structure

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*	Back alignment and structure

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19	Back alignment and structure

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A	Back alignment and structure

>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A	Back alignment and structure

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19	Back alignment and structure

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}	Back alignment and structure

>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae}	Back alignment and structure

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}	Back alignment and structure

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A	Back alignment and structure

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A	Back alignment and structure

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19	Back alignment and structure

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}	Back alignment and structure

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}	Back alignment and structure

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*	Back alignment and structure

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*	Back alignment and structure

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}	Back alignment and structure

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19	Back alignment and structure

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}	Back alignment and structure

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*	Back alignment and structure

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23	Back alignment and structure

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A	Back alignment and structure

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}	Back alignment and structure

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}	Back alignment and structure

>1z3i_X Similar to RAD54-like; recombination ATPase helicase, recombination-DNA binding COM; 3.00A {Danio rerio} SCOP: c.37.1.19 c.37.1.19	Back alignment and structure

>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch repair, nucleotide-binding, DNA-binding, polymorphism, nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens} PDB: 2wwy_A*	Back alignment and structure

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A	Back alignment and structure

>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix, helix-turn-helix, ATP binding, Zn(2+) binding, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43 c.37.1.19 c.37.1.19 PDB: 1oyy_A*	Back alignment and structure

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}	Back alignment and structure

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*	Back alignment and structure

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}	Back alignment and structure

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B	Back alignment and structure

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}	Back alignment and structure

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}	Back alignment and structure

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*	Back alignment and structure

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}	Back alignment and structure

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}	Back alignment and structure

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}	Back alignment and structure

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A	Back alignment and structure

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19	Back alignment and structure

>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}	Back alignment and structure

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}	Back alignment and structure

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A	Back alignment and structure

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*	Back alignment and structure

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}	Back alignment and structure

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A	Back alignment and structure

>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system, helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP; 2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*	Back alignment and structure

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}	Back alignment and structure

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1	Back alignment and structure

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19	Back alignment and structure

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A	Back alignment and structure

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}	Back alignment and structure

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B	Back alignment and structure

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B	Back alignment and structure

>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B*	Back alignment and structure

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A	Back alignment and structure

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A	Back alignment and structure

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A	Back alignment and structure

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*	Back alignment and structure

>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA compl protease/ntpase/helicase, hydrolase; 1.95A {Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4b71_A* 4b73_A* 4b74_A* 4b76_A* 4b75_A* 4a92_A* 1cu1_A 4b6e_A* 4b6f_A* 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A* 3kqh_A 3kqk_A ...	Back alignment and structure

>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1*	Back alignment and structure

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*	Back alignment and structure

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A	Back alignment and structure

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}	Back alignment and structure

>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}	Back alignment and structure

>2fsf_A Preprotein translocase SECA subunit; ATPase, DNA-RNA helicase, protein translocation, protein transport; 2.00A {Escherichia coli} PDB: 2fsg_A* 2fsh_A* 2fsi_A* 2vda_A 3bxz_A*	Back alignment and structure

>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold, ATPase, parallel dimer; 2.80A {Thermus thermophilus}	Back alignment and structure

>1nkt_A Preprotein translocase SECA 1 subunit; preprotein translocation, ATPase, transmembrane transport, helicase-like motor domain; HET: ADP; 2.60A {Mycobacterium tuberculosis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19 c.37.1.19 PDB: 1nl3_A	Back alignment and structure

>1tf5_A Preprotein translocase SECA subunit; ATPase, helicase, translocation, secretion, protein transport; 2.18A {Bacillus subtilis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19 c.37.1.19 PDB: 1tf2_A 3iqy_A 1m6n_A 1m74_A* 3iqm_A 3jv2_A* 2ibm_A* 3dl8_A 1sx0_A 1sx1_A 1tm6_A	Back alignment and structure

>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A	Back alignment and structure

>2o0j_A Terminase, DNA packaging protein GP17; nucleotide-binding fold, hydrolase; HET: DNA ADP; 1.80A {Enterobacteria phage T4} PDB: 2o0h_A* 2o0k_A*	Back alignment and structure

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A	Back alignment and structure

>3cpe_A Terminase, DNA packaging protein GP17; large terminase, alternative initiation, ATP-binding, DNA- binding, hydrolase, nuclease; HET: DNA; 2.80A {Bacteriophage T4} PDB: 3ezk_A*	Back alignment and structure

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}	Back alignment and structure

>3jux_A Protein translocase subunit SECA; protein translocation, ATPase, conformational change, peptide binding, ATP-binding, cell inner membrane; HET: ADP; 3.10A {Thermotoga maritima} PDB: 3din_A*	Back alignment and structure

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A	Back alignment and structure

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A	Back alignment and structure

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*	Back alignment and structure

>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A*	Back alignment and structure

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		715
d1wp9a1		200	putative ATP-dependent RNA helicase PF2015 {Pyroco	99.86
d1oywa2		206	RecQ helicase domain {Escherichia coli [TaxId: 562	99.18
d1hv8a1		208	Putative DEAD box RNA helicase {Archaeon Methanoco	99.16
d2p6ra3		202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	99.1
d1rifa_		282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	99.06
d2fz4a1		206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	99.05
d1wp9a2		286	putative ATP-dependent RNA helicase PF2015 {Pyroco	99.01
d1yksa1		140	YFV helicase domain {Yellow fever virus [TaxId: 11	98.95
d1gkub1		237	Helicase-like "domain" of reverse gyrase {Archaeon	98.71
d1a1va1		136	HCV helicase domain {Human hepatitis C virus (HCV)	98.71
d1qdea_		212	Initiation factor 4a {Baker's yeast (Saccharomyces	98.63
d1veca_		206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	98.47
d1t6na_		207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	98.46
d2j0sa1		222	Probable ATP-dependent RNA helicase DDX48 {Human (	98.34
d2g9na1		218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	98.34
d2bmfa2		305	Dengue virus helicase {Dengue virus type 2 [TaxId:	98.24
d1s2ma1		206	Putative ATP-dependent RNA helicase DHH1 {Baker's	98.1
d1wrba1		238	putative ATP-dependent RNA helicase VlgB {Flatworm	98.01
d1q0ua_		209	Probable DEAD box RNA helicase YqfR {Bacillus stea	97.86
d1z63a1		230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	97.79
d1gm5a3		264	RecG helicase domain {Thermotoga maritima [TaxId:	97.63
d2eyqa3		233	Transcription-repair coupling factor, TRCF {Escher	97.63
d1z3ix2		298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	97.59
d1tf5a3		273	Translocation ATPase SecA, nucleotide-binding doma	94.87
d1nkta3		288	Translocation ATPase SecA, nucleotide-binding doma	93.41
d1z5za1		244	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	92.9
d1fuka_		162	Initiation factor 4a {Baker's yeast (Saccharomyces	86.75
d1c4oa2		174	Nucleotide excision repair enzyme UvrB {Thermus th	85.33
d1s2ma2		171	Putative ATP-dependent RNA helicase DHH1 {Baker's	82.13
d1hv8a2		155	Putative DEAD box RNA helicase {Archaeon Methanoco	81.97
d1t5ia_		168	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	81.94
d1t5ia_		168	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	80.89
d1w36d1		359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	80.18

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=99.86  E-value=4.6e-21  Score=186.56  Aligned_cols=185  Identities=17%  Similarity=0.252  Sum_probs=155.9

Q ss_pred             hHHHHHHHHHHhcCCCCeEEEecCCCCHHHHHHHHHHHh-cCCCCEEEEecCCHhHHHHHHHHhCC-C--CCCCCeeecC
Q 005084            3 LEFHQHIIAELLQEPNGGLVILSSGLSLPKLIASVLLLH-SPSQGTLLLLSSSPNLKSQIIHYLAP-N--APLLPSEITA   78 (715)
Q Consensus         3 L~YQ~~I~~~~l~~~~d~LvVL~tGLG~~~Iva~ll~~y-~~~~~lVlvl~~t~~~~~~i~~~L~~-~--~~~~~~~itg   78 (715)
                      -+||+.+++.++..  |+||++|||.|||.+.+.++..+ ...++.++++.|+..+.+|..+.+.. .  ....+....+
T Consensus        11 r~~Q~~~~~~~~~~--n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P~~~L~~q~~~~~~~~~~~~~~~v~~~~~   88 (200)
T d1wp9a1          11 RIYQEVIYAKCKET--NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTG   88 (200)
T ss_dssp             CHHHHHHHHHGGGS--CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHHHHHHHHHHHHBCSCGGGEEEECS
T ss_pred             CHHHHHHHHHHhcC--CeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcCchHHHHHHHHHHHHhhcccccceeeeec
Confidence            47999999999987  99999999999996555444422 22356677777887777654333321 1  1123456678


Q ss_pred             CCChhhHHHhhcCCCEEEECchHHHHHhhcCCCCCCCeeEEEEecccccCCCChHHHHHHHHHhcCcCccEEeecCCCcc
Q 005084           79 DLPANHRHTLYSSGQIFFVTPRILIVDLLTQRLPTSNLAGLIILNTHALTENSTETFICRIIKSLNREAYIRAFSDKPTA  158 (715)
Q Consensus        79 e~~~~~R~~lY~~ggV~fvTprIL~~DLLs~ri~~~~ItgiVV~~AHr~~~~~~eaFI~rlyr~~nk~gfIkAfSdsP~s  158 (715)
                      +.....|.+.|....++++||+.+..++..+.+..+.+..||+||||.+.+++.+.++...+...+++++++++||+|+.
T Consensus        89 ~~~~~~~~~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~~~~~~~~~~~~l~~SATp~~  168 (200)
T d1wp9a1          89 EKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGS  168 (200)
T ss_dssp             CSCHHHHHHHHHHCSEEEECHHHHHHHHHTTSCCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEESCSCS
T ss_pred             ccchhHHHHhhhcccccccccchhHHHHhhhhhhccccceEEEEehhhhhcchhHHHHHHHHHhcCCCCcEEEEEecCCC
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999986


Q ss_pred             cccCcchHHHHHHHhccCeeEeccCCchhhhhhh
Q 005084          159 MVSGFAKTERIMKSLFIRKLHLWPRFQVNVSEEL  192 (715)
Q Consensus       159 f~~g~~~l~~vmk~L~I~~v~l~PRf~~~V~~~l  192 (715)
                         ....+.+++.+|.+..+.+++++.++|++|+
T Consensus       169 ---~~~~~~~~~~~l~~~~i~~~~~~~~~ik~yv  199 (200)
T d1wp9a1         169 ---TPEKIMEVINNLGIEHIEYRSENSPDVRPYV  199 (200)
T ss_dssp             ---SHHHHHHHHHHTTCCEEEECCTTSTTTGGGC
T ss_pred             ---cHHHHHHHHhcCCceEEEeCCCCChhhhhhh
Confidence               5678999999999999999999999999997

PyMOL of d1wp9a1

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}	Back information, alignment and structure

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}	Back information, alignment and structure

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}	Back information, alignment and structure

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}	Back information, alignment and structure

>d1wp9a2 c.37.1.19 (A:201-486) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}	Back information, alignment and structure

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}	Back information, alignment and structure

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}	Back information, alignment and structure

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}	Back information, alignment and structure

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}	Back information, alignment and structure

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}	Back information, alignment and structure

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}	Back information, alignment and structure

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}	Back information, alignment and structure

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}	Back information, alignment and structure

>d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}	Back information, alignment and structure

>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme UvrB {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1s2ma2 c.37.1.19 (A:252-422) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1hv8a2 c.37.1.19 (A:211-365) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}	Back information, alignment and structure

>d1t5ia_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1t5ia_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}	Back information, alignment and structure