Psyllid ID: psy14291

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-------54
MGIENLYQSPWTNMSQWRYVLPSVALPIQRVGAQRKTLKSKAASNADKVRSDLLKNLLEQQLLNDVLGKNEMALPPPSVSREVDMFELPPAPAQTVQDEEEDTLENIYIMGVNGLWKLLEASGKPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDILEMIRAEEENEIEFEEEIAGGKEEKTEKIKLTREMLAEQQKILDSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGKQTRLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQRS
ccccccccccccccccccEEccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccccccHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHcccccccHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccEEEcccHHHHHHHHHHHcccEEEEEccccccccccccEEEEEcccccccEEEEEHHHHHHHccccHHHHHHHHHHcccccccccccccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccc
cccHHcccccccccccHHEHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHccccccccccccccccccccccEEcccccccccccccEEEEEEEEEEcccccccccccccccEEEEEEEEcccccHHHHHHHHHHcccEEccccccEEcccccccccccccccccccccEEEEEEcccccccccHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHccccEEEccHHHHHHHHHHHHcccEEEEEEccccEEEccHHHHHHHHHcccccEEEEcHHHHHHHccccHHHHHHHHHHHccccccccccccHHHHHHHHHHcccHHHHHHHcccccccccccccHHHHHccHHHHHHccEEEcccccccHHHHHHHccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccc
mgienlyqspwtnmsqwryvlpsvalpiqRVGAQRKTLKSKAASNADKVRSDLLKNLLEQQLLNDvlgknemalpppsvsrevdmfelppapaqtvqdeeedTLENIYIMGVNGLWKLLeasgkpvpvetlENKVLAVGILYFTQGRASALLdrrkedniidAEEKDILEMIRAEeeneiefeeeiaggkeektEKIKLTREMLAEQQKILDSLVKkkaksddvidvdltetstsgffdygcdviksstleKDRDQLLLERGKQTRLASTITEQMSREAQELLQLFGvpfivapgeaeAQCASlelgtdkkrrpyvSRKMLEAQELLQLFgvpfivapgeaEAQCASLElgnhtqgvitddsdiwLFGARTVYKNffdkkshvlrytapDIRYYFELTREKLIQLALLVgsdytpglqgvgpVTALEILAkfspsdspnqnYIVESMRRFKNWLakknkpdthltrklrnvklnddfpnvSVIEAYlkpdintnvqklawgtpdldgLRRFAAnkfgwsqnrvdQTLIPIMKKISQRS
mgienlyqspwtnmSQWRYVLPSVALPIQRVGAQRKtlkskaasnadKVRSDLLKNLLEQQLLNDVLGKNEMALPPPSVSREVDMFELPPAPAQTVQDEEEDTLENIYIMGVNGLWKLLEASGKPVPVETLENKVLAVGILYFTQGrasalldrrkedniidaEEKDILEMIRaeeeneiefeeeiaggkeekteKIKLTREMLAEQQKILDSlvkkkaksddvidvdltetstsgffdygCDVIKsstlekdrdqlllergkqtrlASTITEQMSREAQELLQLFGVPFIVAPGEAEAQcaslelgtdkkrrPYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKnffdkkshvlrytAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKfspsdspnqnYIVESMRRFKNWlakknkpdthltrklrnvklnddfpnVSVIEAylkpdintnvQKLAWGTPDLDGLRRFAAnkfgwsqnrvdqtlipimkkisqrs
MGIENLYQSPWTNMSQWRYVLPSVALPIQRVGAQRKTLKSKAASNADKVRSDllknlleqqllnDVLGKNEMALPPPSVSREVDMFELPPAPAQTVQDEEEDTLENIYIMGVNGLWKLLEASGKPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDilemiraeeeneiefeeeiaggkeektekikltreMLAEQQKILDSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGKQTRLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQRS
*****LYQSPWTNMSQWRYVLPSVALPIQRVG************************LL**QLL****************************************LENIYIMGVNGLWKLLEASGKPVPVETLENKVLAVGILYFTQGRASALLDR*****II*************************************************************DVIDVDLTETSTSGFFDYGCDVIKSS*******************************QELLQLFGVPFIVAPGEAEAQCASLELGT*****PYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKF********NYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIM*******
***********TNMSQWRYVLPSVA**********************************************************************************YIMGVNGLWK*********************GILYFT***************************************************************************************************************************************************************************VSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKI****
MGIENLYQSPWTNMSQWRYVLPSVALPIQRVG**************DKVRSDLLKNLLEQQLLNDVLGKNEMALPPPSVSREVDMFELPPAP********EDTLENIYIMGVNGLWKLLEASGKPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDILEMIRAEEENEIEFEEEIAGGKEEKTEKIKLTREMLAEQQKILDSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGKQTRLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQRS
*GI*NLYQSPWTNMSQWRYVLPSVALPIQRVGAQRKTLKSKAASNADKVRSDLLKNLLEQQLLNDVLGKNEMALPPPS********ELPPAPAQTVQD**EDTLENIYIMGVNGLWKLLEASGKPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDILEMIR*****************EEKTEKIKLTREML*************************************************R*QLLLERGKQTRLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQ**
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGIENLYQSPWTNMSQWRYVLPSVALPIQRVGAQRKTLKSKAASNADKVRSDLLKNLLEQQLLNDVLGKNEMALPPPSVSREVDMFELPPAPAQTVQDEEEDTLENIYIMGVNGLWKLLEASGKPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEExxxxxxxxxxxxxxxxxxxxxxxxxxxxTEKIKLTREMLAEQQKILDSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGKQTRLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQRS
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 ?
Query538 2.2.26 [Sep-21-2011]
P14629 1196 DNA repair protein comple N/A N/A 0.388 0.174 0.491 1e-55
P28715 1186 DNA repair protein comple yes N/A 0.386 0.175 0.479 1e-53
P35689 1170 DNA repair protein comple yes N/A 0.388 0.178 0.464 1e-50
P072761031 DNA repair protein RAD2 O yes N/A 0.399 0.208 0.404 2e-47
Q9ATY5 1479 DNA repair protein UVH3 O yes N/A 0.412 0.150 0.371 5e-45
P28706 1112 DNA repair protein rad13 yes N/A 0.410 0.198 0.400 1e-43
Q8W5R1 641 Flap endonuclease GEN-lik no N/A 0.373 0.313 0.331 1e-22
Q17RS7 908 Flap endonuclease GEN hom no N/A 0.226 0.134 0.408 1e-20
Q8BMI4 908 Flap endonuclease GEN hom no N/A 0.256 0.151 0.38 2e-20
A0CYG2390 Flap endonuclease 1-2 OS= N/A N/A 0.373 0.515 0.303 6e-20
>sp|P14629|ERCC5_XENLA DNA repair protein complementing XP-G cells homolog OS=Xenopus laevis GN=ercc5 PE=2 SV=1 Back     alignment and function desciption
 Score =  217 bits (553), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 110/224 (49%), Positives = 147/224 (65%), Gaps = 15/224 (6%)

Query: 320  MLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDK 379
             LE+QELLQLFG+P+IVAP EAEAQCA L+L + T G ITDDSDIWLFGAR VYKNFF +
Sbjct: 802  CLESQELLQLFGIPYIVAPMEAEAQCAILDLTDQTSGTITDDSDIWLFGARHVYKNFFSQ 861

Query: 380  KSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPN 439
              HV  Y   DI     L R KLI LA L+GSDYT G+  VG V+A+EIL +F     P 
Sbjct: 862  NKHVEYYQYADIHNQLGLDRSKLINLAYLLGSDYTEGIPTVGYVSAMEILNEF-----PG 916

Query: 440  QNYIVESMRRFKNWLA-----KKNKP---DTHLTRKLRNVKLNDDFPNVSVIEAYLKPDI 491
            Q   +E + +FK W +     KK +P   DT + +KLR + L   FPN +V  AYLKP +
Sbjct: 917  QG--LEPLVKFKEWWSEAQKDKKMRPNPNDTKVKKKLRLLDLQQSFPNPAVASAYLKPVV 974

Query: 492  NTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKIS 535
            + +    +WG PDL+ +R F  ++FGW + + D+ L+P++K+++
Sbjct: 975  DESKSAFSWGRPDLEQIREFCESRFGWYRLKTDEVLLPVLKQLN 1018
Single-stranded structure-specific DNA endonuclease involved in DNA excision repair. Makes the 3'incision in DNA nucleotide excision repair (NER). Acts as a cofactor for a DNA glycosylase that removes oxidized pyrimidines from DNA. May also be involved in transcription-coupled repair of this kind of damage, in transcription by RNA polymerase II, and perhaps in other processes too.
Xenopus laevis (taxid: 8355)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>sp|P28715|ERCC5_HUMAN DNA repair protein complementing XP-G cells OS=Homo sapiens GN=ERCC5 PE=1 SV=3 Back     alignment and function description
>sp|P35689|ERCC5_MOUSE DNA repair protein complementing XP-G cells homolog OS=Mus musculus GN=Ercc5 PE=1 SV=4 Back     alignment and function description
>sp|P07276|RAD2_YEAST DNA repair protein RAD2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD2 PE=1 SV=2 Back     alignment and function description
>sp|Q9ATY5|UVH3_ARATH DNA repair protein UVH3 OS=Arabidopsis thaliana GN=UVH3 PE=2 SV=1 Back     alignment and function description
>sp|P28706|RAD13_SCHPO DNA repair protein rad13 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rad13 PE=2 SV=2 Back     alignment and function description
>sp|Q8W5R1|GENL2_ORYSJ Flap endonuclease GEN-like 2 OS=Oryza sativa subsp. japonica GN=SEND1 PE=2 SV=1 Back     alignment and function description
>sp|Q17RS7|GEN_HUMAN Flap endonuclease GEN homolog 1 OS=Homo sapiens GN=GEN1 PE=1 SV=2 Back     alignment and function description
>sp|Q8BMI4|GEN_MOUSE Flap endonuclease GEN homolog 1 OS=Mus musculus GN=Gen1 PE=2 SV=2 Back     alignment and function description
>sp|A0CYG2|FEN12_PARTE Flap endonuclease 1-2 OS=Paramecium tetraurelia GN=FEN1-2 PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query538
357620639 1103 hypothetical protein KGM_08405 [Danaus p 0.514 0.251 0.471 2e-64
195473066 1237 GE18773 [Drosophila yakuba] gi|194174918 0.457 0.198 0.411 5e-62
194863176 1237 GG10553 [Drosophila erecta] gi|190662180 0.410 0.178 0.491 5e-61
195454489 1247 GK18419 [Drosophila willistoni] gi|19417 0.459 0.198 0.419 1e-60
195155670 1238 GL25951 [Drosophila persimilis] gi|19411 0.451 0.196 0.409 8e-60
198476637 1236 GA25201 [Drosophila pseudoobscura pseudo 0.451 0.196 0.409 9e-60
195339243 1108 GM16947 [Drosophila sechellia] gi|194130 0.410 0.199 0.478 1e-59
195577623 1235 GD23543 [Drosophila simulans] gi|1941906 0.410 0.178 0.478 1e-59
78706850 1236 mutagen-sensitive 201, isoform C [Drosop 0.410 0.178 0.478 1e-59
5712619 1236 DNA repair endonuclease [Drosophila mela 0.410 0.178 0.478 1e-59
>gi|357620639|gb|EHJ72769.1| hypothetical protein KGM_08405 [Danaus plexippus] Back     alignment and taxonomy information
 Score =  253 bits (646), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 139/295 (47%), Positives = 186/295 (63%), Gaps = 18/295 (6%)

Query: 253 DRDQLLLERGKQTRLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGT-DKK 311
           DRDQ + E    T+ A  I E+    A+EL  +      V   E E Q    E G  D+ 
Sbjct: 649 DRDQTVSEELATTQKA-VIPERQKISAEELNTM------VTEIENEEQLLLQEKGKLDRI 701

Query: 312 RRPYVSRKMLEAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGART 371
            R    +   EAQELLQ+FG+P+IVAP EAEAQCA LE    T G ITDDSDIWLFG RT
Sbjct: 702 GRNITEQMTKEAQELLQIFGIPYIVAPMEAEAQCAVLEALKLTDGTITDDSDIWLFGGRT 761

Query: 372 VYKNFFDKKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAK 431
           VYKNFF++K HVL++    I   F L+REKL+ LALLVGSDYT G+ GVGPVTALEILA 
Sbjct: 762 VYKNFFNQKKHVLQFLRERIEKSFNLSREKLVLLALLVGSDYTVGVTGVGPVTALEILAS 821

Query: 432 FS-------PSDSPNQNY--IVESMRRFKNWLAKKNKPDT-HLTRKLRNVKLNDDFPNVS 481
           F          D+   +Y  IV  ++ FK W+    + D   L +KL+NV L+DDFP+V 
Sbjct: 822 FPFNKKKTIAEDAKFTDYQEIVAGLQDFKKWVKAGRRTDNVSLKKKLKNVSLSDDFPSVR 881

Query: 482 VIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQ 536
           V++AY +P++  + +K +WG PD+  LR +A  KFGWSQ+++D+ + P++K++ +
Sbjct: 882 VVQAYFEPNVEKSSEKFSWGDPDITELREYARAKFGWSQHKLDEIIKPVIKRMQE 936

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|195473066|ref|XP_002088817.1| GE18773 [Drosophila yakuba] gi|194174918|gb|EDW88529.1| GE18773 [Drosophila yakuba] Back     alignment and taxonomy information
>gi|194863176|ref|XP_001970313.1| GG10553 [Drosophila erecta] gi|190662180|gb|EDV59372.1| GG10553 [Drosophila erecta] Back     alignment and taxonomy information
>gi|195454489|ref|XP_002074261.1| GK18419 [Drosophila willistoni] gi|194170346|gb|EDW85247.1| GK18419 [Drosophila willistoni] Back     alignment and taxonomy information
>gi|195155670|ref|XP_002018724.1| GL25951 [Drosophila persimilis] gi|194114877|gb|EDW36920.1| GL25951 [Drosophila persimilis] Back     alignment and taxonomy information
>gi|198476637|ref|XP_002132415.1| GA25201 [Drosophila pseudoobscura pseudoobscura] gi|198137788|gb|EDY69817.1| GA25201 [Drosophila pseudoobscura pseudoobscura] Back     alignment and taxonomy information
>gi|195339243|ref|XP_002036229.1| GM16947 [Drosophila sechellia] gi|194130109|gb|EDW52152.1| GM16947 [Drosophila sechellia] Back     alignment and taxonomy information
>gi|195577623|ref|XP_002078668.1| GD23543 [Drosophila simulans] gi|194190677|gb|EDX04253.1| GD23543 [Drosophila simulans] Back     alignment and taxonomy information
>gi|78706850|ref|NP_001027230.1| mutagen-sensitive 201, isoform C [Drosophila melanogaster] gi|78706852|ref|NP_001027231.1| mutagen-sensitive 201, isoform B [Drosophila melanogaster] gi|5051952|gb|AAD38375.1|AF144092_1 nucleotide excision repair protein MUS201 [Drosophila melanogaster] gi|7297419|gb|AAF52678.1| mutagen-sensitive 201, isoform B [Drosophila melanogaster] gi|28380312|gb|AAO41169.1| mutagen-sensitive 201, isoform C [Drosophila melanogaster] Back     alignment and taxonomy information
>gi|5712619|gb|AAD47568.1|AF125578_1 DNA repair endonuclease [Drosophila melanogaster] 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 ?
Query538
ZFIN|ZDB-GENE-050327-28 1010 ercc5 "excision repair cross-c 0.390 0.207 0.464 5.6e-72
FB|FBgn0002887 1257 mus201 "mutagen-sensitive 201" 0.410 0.175 0.495 4e-65
UNIPROTKB|F1P266 1111 ERCC5 "Uncharacterized protein 0.563 0.272 0.397 5.4e-58
UNIPROTKB|E1BZY21007 ERCC5 "Uncharacterized protein 0.591 0.315 0.368 6.4e-58
UNIPROTKB|Q3B7N6 1201 ERCC5 "Uncharacterized protein 0.386 0.173 0.488 5.7e-57
UNIPROTKB|J9P9A3 1185 BIVM "Uncharacterized protein" 0.427 0.194 0.467 1.1e-56
UNIPROTKB|P28715 1186 ERCC5 "DNA repair protein comp 0.425 0.193 0.465 4.9e-56
MGI|MGI:103582 1170 Ercc5 "excision repair cross-c 0.408 0.188 0.451 4.6e-53
UNIPROTKB|E1BC95 1615 ERCC5 "Uncharacterized protein 0.386 0.128 0.488 1.7e-51
UNIPROTKB|F1P953 1600 BIVM "Uncharacterized protein" 0.427 0.143 0.467 3.3e-51
ZFIN|ZDB-GENE-050327-28 ercc5 "excision repair cross-complementing rodent repair deficiency, complementation group 5 (xeroderma pigmentosum, complementation group G (Cockayne syndrome))" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
 Score = 501 (181.4 bits), Expect = 5.6e-72, Sum P(3) = 5.6e-72
 Identities = 105/226 (46%), Positives = 151/226 (66%)

Query:   322 EAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKS 381
             E+QELL+LFGVPFIVAP EAEAQCA+L+  + T G ITDDSDIWLFG R VY+NFF++  
Sbjct:   661 ESQELLRLFGVPFIVAPMEAEAQCAALDRLDQTHGTITDDSDIWLFGGRHVYRNFFNQNK 720

Query:   382 HVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQN 441
             +V  Y   D++    L R KLI LA L+GSDYT G+ GVG VT +EIL +F     P   
Sbjct:   721 YVEHYQIVDMQNQLGLDRSKLINLAYLLGSDYTEGIPGVGYVTGMEILNEF-----PGAG 775

Query:   442 YIVESMRRFKNWL--AKKNK-----P-DTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINT 493
               +E + +   W   A++NK     P DT + +KLRN++++  FPN +V +AYL+P ++ 
Sbjct:   776 --LEPLVQLSEWWTEAQENKKLSVNPKDTKVKKKLRNLQIHPGFPNPAVAQAYLQPSVDQ 833

Query:   494 NVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKI-SQRS 538
             +    +WG P LD ++ F  ++FGWS  + ++TL P++K++ SQ++
Sbjct:   834 SDASFSWGRPHLDLIKEFCQSRFGWSSRKTEETLQPVLKQLQSQQT 879
GO:0016788 "hydrolase activity, acting on ester bonds" evidence=IEA
GO:0003697 "single-stranded DNA binding" evidence=IEA
GO:0004518 "nuclease activity" evidence=IEA
GO:0004519 "endonuclease activity" evidence=IEA
GO:0006281 "DNA repair" evidence=IEA
GO:0003677 "DNA binding" evidence=IEA
GO:0003824 "catalytic activity" evidence=IEA
GO:0005634 "nucleus" evidence=IEA
GO:0006289 "nucleotide-excision repair" evidence=IEA
FB|FBgn0002887 mus201 "mutagen-sensitive 201" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|F1P266 ERCC5 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|E1BZY2 ERCC5 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q3B7N6 ERCC5 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|J9P9A3 BIVM "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P28715 ERCC5 "DNA repair protein complementing XP-G cells" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:103582 Ercc5 "excision repair cross-complementing rodent repair deficiency, complementation group 5" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|E1BC95 ERCC5 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1P953 BIVM "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] 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 EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query538
TIGR006001034 TIGR00600, rad2, DNA excision repair protein (rad2 7e-66
cd09868249 cd09868, PIN_XPG, PIN domain of Xeroderma pigmento 3e-34
PTZ00217393 PTZ00217, PTZ00217, flap endonuclease-1; Provision 6e-26
cd0990497 cd09904, H3TH_XPG, H3TH domain of Xeroderma pigmen 1e-25
PRK03980292 PRK03980, PRK03980, flap endonuclease-1; Provision 1e-24
TIGR03674338 TIGR03674, fen_arch, flap structure-specific endon 3e-24
cd09856207 cd09856, PIN_FEN1-like, PIN domain of Flap Endonuc 7e-24
cd09869233 cd09869, PIN_GEN1, PIN domain of Gap Endonuclease 7e-21
smart0048473 smart00484, XPGI, Xeroderma pigmentosum G I-region 1e-20
pfam0086746 pfam00867, XPG_I, XPG I-region 1e-16
COG0258310 COG0258, Exo, 5'-3' exonuclease (including N-termi 9e-16
cd09870239 cd09870, PIN_YEN1, PIN domain of Yeast Endonucleas 1e-15
cd0989768 cd09897, H3TH_FEN1-XPG-like, H3TH domains of Flap 4e-14
cd0990052 cd09900, H3TH_XPG-like, H3TH domains of Flap endon 3e-13
cd09867261 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease 5e-12
cd09867261 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease 2e-10
cd09868249 cd09868, PIN_XPG, PIN domain of Xeroderma pigmento 5e-10
cd09857210 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a 3e-09
cd09868249 cd09868, PIN_XPG, PIN domain of Xeroderma pigmento 1e-08
cd09906105 cd09906, H3TH_YEN1, H3TH domain of Yeast Endonucle 2e-08
cd09852120 cd09852, PIN_SF, PIN (PilT N terminus) domain: Sup 4e-08
smart0027936 smart00279, HhH2, Helix-hairpin-helix class 2 (Pol 1e-07
cd0008071 cd00080, H3TH_StructSpec-5'-nucleases, H3TH domain 2e-07
cd09905108 cd09905, H3TH_GEN1, H3TH domain of Gap Endonucleas 3e-07
TIGR00600 1034 TIGR00600, rad2, DNA excision repair protein (rad2 3e-06
cd00128209 cd00128, PIN_FEN1_EXO1-like, PIN domains of Flap E 4e-06
cd0990173 cd09901, H3TH_FEN1-like, H3TH domains of Flap endo 4e-06
smart0048599 smart00485, XPGN, Xeroderma pigmentosum G N-region 4e-06
cd0990365 cd09903, H3TH_FEN1-Arc, H3TH domain of Flap Endonu 5e-06
smart00475259 smart00475, 53EXOc, 5'-3' exonuclease 4e-05
pfam12813223 pfam12813, XPG_I_2, XPG domain containing 5e-05
cd00128209 cd00128, PIN_FEN1_EXO1-like, PIN domains of Flap E 1e-04
TIGR00593 887 TIGR00593, pola, DNA polymerase I 2e-04
cd0990770 cd09907, H3TH_FEN1-Euk, H3TH domain of Flap Endonu 3e-04
cd0990873 cd09908, H3TH_EXO1, H3TH domain of Exonuclease-1, 3e-04
pfam01367100 pfam01367, 5_3_exonuc, 5'-3' exonuclease, C-termin 7e-04
PRK05755 880 PRK05755, PRK05755, DNA polymerase I; Provisional 0.001
cd09856207 cd09856, PIN_FEN1-like, PIN domain of Flap Endonuc 0.002
cd09853163 cd09853, PIN_StructSpec-5'-nucleases, PIN domains 0.004
>gnl|CDD|233044 TIGR00600, rad2, DNA excision repair protein (rad2) Back     alignment and domain information 
 Score =  230 bits (589), Expect = 7e-66
 Identities = 131/391 (33%), Positives = 197/391 (50%), Gaps = 53/391 (13%)

Query: 158 DNIIDAEEKDILEMIRAEEENEIEFEE------EIAGGKEEKTEKIKLTREMLAEQQKIL 211
             I +  E + +E  + E E++  F E       +      K++    + E    +   +
Sbjct: 636 LLISNPMEVEPMESEKEESESDGSFIEVDSVSSTLELQVPSKSQPTDESEENAENKVASI 695

Query: 212 DSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGKQTRLASTI 271
           +          ++ D+   E+          +++     EKD      +  K      ++
Sbjct: 696 E-----GEHRKEIEDLLFDESEED-------NIVGMIEEEKD-----ADDFKNEWQDISL 738

Query: 272 TEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKM-LEAQELLQLF 330
            E  + EA  L +             +AQ    +    +     V+ +M LE+QELL+LF
Sbjct: 739 EELEALEANLLAEQN---------SLKAQKQQQKRIAAE-----VTGQMILESQELLRLF 784

Query: 331 GVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPD 390
           G+P+IVAP EAEAQCA L+L + T G ITDDSDIWLFGAR VYKNFF++   V  Y   D
Sbjct: 785 GIPYIVAPMEAEAQCAILDLLDQTSGTITDDSDIWLFGARHVYKNFFNQNKFVEYYQYVD 844

Query: 391 IRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRF 450
           I     L R KLI LA L+GSDYT G+  VGPV+A+EIL +F P D       +E + +F
Sbjct: 845 IHNQLGLDRNKLINLAYLLGSDYTEGIPTVGPVSAMEILNEF-PGDG------LEPLLKF 897

Query: 451 KNWLA-----KKNKPDTHLT---RKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGT 502
           K W       KK + + + T   +KLR ++L   FPN +V +AYL+P ++ +     WG 
Sbjct: 898 KEWWHEAQKDKKKRENPNDTKVKKKLRLLQLTPGFPNPAVADAYLRPVVDDSKGSFLWGK 957

Query: 503 PDLDGLRRFAANKFGWSQNRVDQTLIPIMKK 533
           PDLD +R F    FGW++ + D+ L+P++KK
Sbjct: 958 PDLDKIREFCQRYFGWNREKTDEVLLPVLKK 988

All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 1034
>gnl|CDD|189038 cd09868, PIN_XPG, PIN domain of Xeroderma pigmentosum complementation group G (XPG) nuclease, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs Back     alignment and domain information
>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional Back     alignment and domain information
>gnl|CDD|188624 cd09904, H3TH_XPG, H3TH domain of Xeroderma pigmentosum complementation group G (XPG) nuclease, a structure-specific, divalent-metal-ion dependent, 5' nuclease Back     alignment and domain information
>gnl|CDD|235185 PRK03980, PRK03980, flap endonuclease-1; Provisional Back     alignment and domain information
>gnl|CDD|234306 TIGR03674, fen_arch, flap structure-specific endonuclease Back     alignment and domain information
>gnl|CDD|189026 cd09856, PIN_FEN1-like, PIN domain of Flap Endonuclease-1 (FEN1)-like, structure-specific, divalent-metal-ion dependent, 5' nucleases Back     alignment and domain information
>gnl|CDD|189039 cd09869, PIN_GEN1, PIN domain of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs Back     alignment and domain information
>gnl|CDD|214689 smart00484, XPGI, Xeroderma pigmentosum G I-region Back     alignment and domain information
>gnl|CDD|216163 pfam00867, XPG_I, XPG I-region Back     alignment and domain information
>gnl|CDD|223336 COG0258, Exo, 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|189040 cd09870, PIN_YEN1, PIN domain of Yeast Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and fungal homologs Back     alignment and domain information
>gnl|CDD|188617 cd09897, H3TH_FEN1-XPG-like, H3TH domains of Flap endonuclease-1 (FEN1)-like structure specific 5' nucleases Back     alignment and domain information
>gnl|CDD|188620 cd09900, H3TH_XPG-like, H3TH domains of Flap endonuclease-1 (FEN1)-like structure specific 5' nucleases: FEN1 (archaeal), GEN1, YEN1, and XPG Back     alignment and domain information
>gnl|CDD|189037 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs Back     alignment and domain information
>gnl|CDD|189037 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs Back     alignment and domain information
>gnl|CDD|189038 cd09868, PIN_XPG, PIN domain of Xeroderma pigmentosum complementation group G (XPG) nuclease, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs Back     alignment and domain information
>gnl|CDD|189027 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs Back     alignment and domain information
>gnl|CDD|189038 cd09868, PIN_XPG, PIN domain of Xeroderma pigmentosum complementation group G (XPG) nuclease, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs Back     alignment and domain information
>gnl|CDD|188626 cd09906, H3TH_YEN1, H3TH domain of Yeast Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease Back     alignment and domain information
>gnl|CDD|189022 cd09852, PIN_SF, PIN (PilT N terminus) domain: Superfamily Back     alignment and domain information
>gnl|CDD|197623 smart00279, HhH2, Helix-hairpin-helix class 2 (Pol1 family) motifs Back     alignment and domain information
>gnl|CDD|188616 cd00080, H3TH_StructSpec-5'-nucleases, H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination Back     alignment and domain information
>gnl|CDD|188625 cd09905, H3TH_GEN1, H3TH domain of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease Back     alignment and domain information
>gnl|CDD|233044 TIGR00600, rad2, DNA excision repair protein (rad2) Back     alignment and domain information
>gnl|CDD|189020 cd00128, PIN_FEN1_EXO1-like, PIN domains of Flap Endonuclease-1 (FEN1)-like and Exonuclease-1 (EXO1)-like nucleases, structure-specific, divalent-metal-ion dependent, 5' nucleases Back     alignment and domain information
>gnl|CDD|188621 cd09901, H3TH_FEN1-like, H3TH domains of Flap endonuclease-1 (FEN1)-like structure specific 5' nucleases: FEN1 (eukaryotic) and EXO1 Back     alignment and domain information
>gnl|CDD|214690 smart00485, XPGN, Xeroderma pigmentosum G N-region Back     alignment and domain information
>gnl|CDD|188623 cd09903, H3TH_FEN1-Arc, H3TH domain of Flap Endonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease: Archaeal homologs Back     alignment and domain information
>gnl|CDD|214682 smart00475, 53EXOc, 5'-3' exonuclease Back     alignment and domain information
>gnl|CDD|221785 pfam12813, XPG_I_2, XPG domain containing Back     alignment and domain information
>gnl|CDD|189020 cd00128, PIN_FEN1_EXO1-like, PIN domains of Flap Endonuclease-1 (FEN1)-like and Exonuclease-1 (EXO1)-like nucleases, structure-specific, divalent-metal-ion dependent, 5' nucleases Back     alignment and domain information
>gnl|CDD|233038 TIGR00593, pola, DNA polymerase I Back     alignment and domain information
>gnl|CDD|188627 cd09907, H3TH_FEN1-Euk, H3TH domain of Flap Endonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease: Eukaryotic homologs Back     alignment and domain information
>gnl|CDD|188628 cd09908, H3TH_EXO1, H3TH domain of Exonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease Back     alignment and domain information
>gnl|CDD|216458 pfam01367, 5_3_exonuc, 5'-3' exonuclease, C-terminal SAM fold Back     alignment and domain information
>gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional Back     alignment and domain information
>gnl|CDD|189026 cd09856, PIN_FEN1-like, PIN domain of Flap Endonuclease-1 (FEN1)-like, structure-specific, divalent-metal-ion dependent, 5' nucleases Back     alignment and domain information
>gnl|CDD|189023 cd09853, PIN_StructSpec-5'-nucleases, PIN domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 538
PTZ00217393 flap endonuclease-1; Provisional 100.0
cd00128316 XPG Xeroderma pigmentosum G N- and I-regions (XPGN 100.0
TIGR03674338 fen_arch flap structure-specific endonuclease. End 100.0
KOG2519|consensus 449 100.0
PRK03980292 flap endonuclease-1; Provisional 100.0
KOG2518|consensus 556 100.0
TIGR006001034 rad2 DNA excision repair protein (rad2). All prote 100.0
KOG2520|consensus 815 100.0
PRK14976281 5'-3' exonuclease; Provisional 100.0
smart00475259 53EXOc 5'-3' exonuclease. 100.0
PRK09482256 flap endonuclease-like protein; Provisional 99.98
PRK05755 880 DNA polymerase I; Provisional 99.98
TIGR00593 887 pola DNA polymerase I. This family is based on the 99.98
cd00008240 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonucleas 99.98
COG0258310 Exo 5'-3' exonuclease (including N-terminal domain 99.97
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 99.85
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 99.81
TIGR00600 1034 rad2 DNA excision repair protein (rad2). All prote 99.8
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 99.8
PHA00439286 exonuclease 99.76
PF01367101 5_3_exonuc: 5'-3' exonuclease, C-terminal SAM fold 99.75
smart0048473 XPGI Xeroderma pigmentosum G I-region. domain in n 99.62
PHA02567304 rnh RnaseH; Provisional 99.55
cd0008075 HhH2_motif Helix-hairpin-helix class 2 (Pol1 famil 99.47
PF02739169 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolv 99.24
smart0027936 HhH2 Helix-hairpin-helix class 2 (Pol1 family) mot 99.09
PF12813246 XPG_I_2: XPG domain containing 98.35
PF04599425 Pox_G5: Poxvirus G5 protein; InterPro: IPR007678 P 98.03
PHA03065438 Hypothetical protein; Provisional 97.9
PRK03980292 flap endonuclease-1; Provisional 96.88
PF03159237 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: 96.73
smart00475259 53EXOc 5'-3' exonuclease. 96.53
cd00128316 XPG Xeroderma pigmentosum G N- and I-regions (XPGN 95.61
PF1282664 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS 92.61
smart0048473 XPGI Xeroderma pigmentosum G I-region. domain in n 92.57
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 91.61
TIGR00593 887 pola DNA polymerase I. This family is based on the 90.72
TIGR03674338 fen_arch flap structure-specific endonuclease. End 89.55
PTZ00217393 flap endonuclease-1; Provisional 89.29
COG5049 953 XRN1 5'-3' exonuclease [DNA replication, recombina 87.54
KOG2520|consensus815 86.58
PF0063330 HHH: Helix-hairpin-helix motif; InterPro: IPR00044 85.75
COG5366 531 Protein involved in propagation of M2 dsRNA satell 85.35
PRK14605194 ruvA Holliday junction DNA helicase RuvA; Provisio 82.36
PRK14602203 ruvA Holliday junction DNA helicase RuvA; Provisio 82.03
TIGR00084191 ruvA Holliday junction DNA helicase, RuvA subunit. 81.14
>PTZ00217 flap endonuclease-1; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.2e-58  Score=489.81  Aligned_cols=325  Identities=26%  Similarity=0.413  Sum_probs=261.0

Q ss_pred             hchhchHHHhhhc----CcccccccccCeEEEeehhhHHHhhhhhhhhhccccccchhhHHHHHHHHhhhhhhhHHHHHH
Q psy14291        110 MGVNGLWKLLEAS----GKPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDILEMIRAEEENEIEFEEE  185 (538)
Q Consensus       110 MGi~GLw~~l~~~----~~~~~~~~l~G~~laiD~s~wl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  185 (538)
                      |||+|||++|++.    .++++++.|+|++||||+|+|+|++..+++....+.++.+.         .+..++||     
T Consensus         1 MGI~gL~~~l~~~~p~~~~~~~l~~l~gk~vaIDa~~~lyr~~~a~~~~~~~~~l~~~---------~G~~t~~l-----   66 (393)
T PTZ00217          1 MGIKGLSKFLADKAPNAIKEQELKNYFGRVIAIDASMALYQFLIAIRDDSQGGNLTNE---------AGEVTSHI-----   66 (393)
T ss_pred             CChhhHHHHHhhhccccccccCHHHhCCcEEEEeHHHHHHHHHHHcccccccccchhc---------cCCccHHH-----
Confidence            9999999999976    58999999999999999999999987776531112222221         12333566     


Q ss_pred             HhcCcchhhHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceEEEecCCccccchhhHHHHHHHHHHHHhhhh
Q psy14291        186 IAGGKEEKTEKIKLTREMLAEQQKILDSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGKQT  265 (538)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~r~~~ll~~l~~~~ikp~~~~~~~~~~~~~v~VFDG~~p~~K~~tLekRr~qLqee~~k~~  265 (538)
                                     .+||+|+++|+    ..||+|             ++||||.+|+.|..++++|+.++++-.+++.
T Consensus        67 ---------------~g~~~r~~~Ll----~~gikP-------------v~VFDG~~p~~K~~~~~~Rk~~R~~a~~~l~  114 (393)
T PTZ00217         67 ---------------SGLFNRTIRLL----EAGIKP-------------VYVFDGKPPELKSGELEKRRERREEAEEELE  114 (393)
T ss_pred             ---------------HHHHHHHHHHH----HCCCCE-------------EEEEcCCCchhhHHHHHHHHHHHHHhHHHHH
Confidence                           67999976655    456777             9999999999999999998876543322221


Q ss_pred             hhhhcccHHhHHHHHHHHHhhCCcEEeCCCchhhhhhhhhhccccCCCCcchHhH-HHHHHHHHHcCCCcccCcchHHHH
Q psy14291        266 RLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKM-LEAQELLQLFGVPFIVAPGEAEAQ  344 (538)
Q Consensus       266 R~A~~it~~m~~e~~kLL~~~g~P~iv~d~Eaeaqca~l~~~~~k~rr~~lt~q~-~~ik~lL~~~GIp~i~APgEADaq  344 (538)
                                     +..+..        ...++.       ++.++...++.++ ..++++|+.|||||++||||||||
T Consensus       115 ---------------~a~~~g--------~~~~a~-------k~~~r~~~vt~~~~~~~~~lL~~~Gip~i~AP~EAdaq  164 (393)
T PTZ00217        115 ---------------KAIEEG--------DDEEIK-------KQSKRTVRVTKEQNEDAKKLLRLMGIPVIEAPCEAEAQ  164 (393)
T ss_pred             ---------------HHHhcC--------CHHHHH-------HHHhhcccCCHHHHHHHHHHHHHcCCceEECCcCHHHH
Confidence                           111110        000110       1123445666554 689999999999999999999999


Q ss_pred             HHHHHhhcCCCceEecCCceEeecCeEEEEecCC---CCCcEEEEchhHHHHHhCCCHHHHHHHHHHcCCCCCCCCCCCC
Q psy14291        345 CASLELGNHTQGVITDDSDIWLFGARTVYKNFFD---KKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVG  421 (538)
Q Consensus       345 iA~La~~g~vd~IiS~DsDllLfG~~~Vi~~~~~---~~~~~~~~~~~~i~~~~gl~~~q~idl~~L~GsDyipGVpGIG  421 (538)
                      ||+|++.|.+++|+|+|+|+|+||+++++++++.   ....+++|+.+.+.+.+|++++||+|+|+|+||||+|||||||
T Consensus       165 ~A~L~~~g~v~~ViS~D~D~l~fg~~~vi~~l~~~~~~~~~~~~~~~~~v~~~~gl~~~q~id~~iL~G~Dy~pgi~GIG  244 (393)
T PTZ00217        165 CAELVKKGKVYAVATEDMDALTFGTPVLLRNLNFSEAKKRPIQEINLSTVLEELGLSMDQFIDLCILCGCDYCDTIKGIG  244 (393)
T ss_pred             HHHHHHCCCeEEEeCCCcCeeecCCcEEEEcccccccCCCCeEEEEHHHHHHHhCCCHHHHHHHHHHhCCCCCCCCCCcc
Confidence            9999999999999999999999999999998753   2235788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHhhcCCCChhhhHhhhhccCCCCCCCHHHHHhhcCCCCCCCc-ccccC
Q psy14291        422 PVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNV-QKLAW  500 (538)
Q Consensus       422 ~KtA~kLL~~ygsl~~~~~e~Il~~L~~~k~~~~~~~~~~~~lr~kL~~~~i~~~fps~~lv~ly~dp~v~~s~-~~~~w  500 (538)
                      +|||++||++||++     ++|+++++..+                   ..++.+|+..++..+|++|.|..+. .++.|
T Consensus       245 ~ktA~~Li~~~gsl-----e~il~~~~~~k-------------------~~~p~~~~~~~~~~~f~~p~V~~~~~~~l~w  300 (393)
T PTZ00217        245 PKTAYKLIKKYKSI-----EEILEHLDKTK-------------------YPVPENFDYKEARELFLNPEVTPAEEIDLKW  300 (393)
T ss_pred             HHHHHHHHHHcCCH-----HHHHHHHHhcC-------------------CCCCCCCChHHHHHHhcCCCcCCCCCCCCCC
Confidence            99999999999999     99988876431                   2358899999999999999998642 27999


Q ss_pred             CCCCHHHHHHHHHHhcCCChHhhhhhhHHHHHHh
Q psy14291        501 GTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKI  534 (538)
Q Consensus       501 ~~PD~~~L~~fl~~~~ew~~~kvd~~l~Pll~~~  534 (538)
                      ..||.++|++||.++++|+.++|++.|.++.+..
T Consensus       301 ~~pD~~~l~~fl~~e~~f~~~rv~~~i~rl~~~~  334 (393)
T PTZ00217        301 NEPDEEGLKKFLVKEKNFNEERVEKYIERLKKAK  334 (393)
T ss_pred             CCCCHHHHHHHHHhccCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999998877654

>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases Back     alignment and domain information
>TIGR03674 fen_arch flap structure-specific endonuclease Back     alignment and domain information
>KOG2519|consensus Back     alignment and domain information
>PRK03980 flap endonuclease-1; Provisional Back     alignment and domain information
>KOG2518|consensus Back     alignment and domain information
>TIGR00600 rad2 DNA excision repair protein (rad2) Back     alignment and domain information
>KOG2520|consensus Back     alignment and domain information
>PRK14976 5'-3' exonuclease; Provisional Back     alignment and domain information
>smart00475 53EXOc 5'-3' exonuclease Back     alignment and domain information
>PRK09482 flap endonuclease-like protein; Provisional Back     alignment and domain information
>PRK05755 DNA polymerase I; Provisional Back     alignment and domain information
>TIGR00593 pola DNA polymerase I Back     alignment and domain information
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes Back     alignment and domain information
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair] Back     alignment and domain information
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment Back     alignment and domain information
>smart00485 XPGN Xeroderma pigmentosum G N-region Back     alignment and domain information
>TIGR00600 rad2 DNA excision repair protein (rad2) Back     alignment and domain information
>PF00752 XPG_N: XPG N-terminal domain; InterPro: IPR006085 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer Back     alignment and domain information
>PHA00439 exonuclease Back     alignment and domain information
>PF01367 5_3_exonuc: 5'-3' exonuclease, C-terminal SAM fold; InterPro: IPR020045 This entry represents the C-terminal domain of 5' to 3' exonucleases Back     alignment and domain information
>smart00484 XPGI Xeroderma pigmentosum G I-region Back     alignment and domain information
>PHA02567 rnh RnaseH; Provisional Back     alignment and domain information
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif Back     alignment and domain information
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities Back     alignment and domain information
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs Back     alignment and domain information
>PF12813 XPG_I_2: XPG domain containing Back     alignment and domain information
>PF04599 Pox_G5: Poxvirus G5 protein; InterPro: IPR007678 Protein G5 is found in a number of Poxviruses Back     alignment and domain information
>PHA03065 Hypothetical protein; Provisional Back     alignment and domain information
>PRK03980 flap endonuclease-1; Provisional Back     alignment and domain information
>PF03159 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: IPR004859 Signatures of this entry align residues towards the N terminus of several proteins with multiple functions Back     alignment and domain information
>smart00475 53EXOc 5'-3' exonuclease Back     alignment and domain information
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases Back     alignment and domain information
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B Back     alignment and domain information
>smart00484 XPGI Xeroderma pigmentosum G I-region Back     alignment and domain information
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment Back     alignment and domain information
>TIGR00593 pola DNA polymerase I Back     alignment and domain information
>TIGR03674 fen_arch flap structure-specific endonuclease Back     alignment and domain information
>PTZ00217 flap endonuclease-1; Provisional Back     alignment and domain information
>COG5049 XRN1 5'-3' exonuclease [DNA replication, recombination, and repair / Cell division and chromosome partitioning / Translation] Back     alignment and domain information
>KOG2520|consensus Back     alignment and domain information
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ] Back     alignment and domain information
>COG5366 Protein involved in propagation of M2 dsRNA satellite of L-A virus [General function prediction only] Back     alignment and domain information
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query538
1mc8_A343 Crystal Structure Of Flap Endonuclease-1 R42e Mutan 6e-17
1b43_A340 Fen-1 From P. Furiosus Length = 340 1e-16
3q8k_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 5e-14
1ul1_X379 Crystal Structure Of The Human Fen1-Pcna Complex Le 5e-14
3q8m_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 4e-13
2izo_A346 Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex L 8e-12
3ory_A363 Crystal Structure Of Flap Endonuclease 1 From Hyper 2e-11
1rxv_A336 Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna 3e-11
1a76_A326 Flap Endonuclease-1 From Methanococcus Jannaschii L 8e-11
3qea_Z352 Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) 2e-07
3qe9_Y352 Crystal Structure Of Human Exonuclease 1 Exo1 (D173 2e-06
>pdb|1MC8|A Chain A, Crystal Structure Of Flap Endonuclease-1 R42e Mutant From Pyrococcus Horikoshii Length = 343 Back     alignment and structure 
Iteration: 1

 Score = 85.5 bits (210), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 73/256 (28%), Positives = 113/256 (44%), Gaps = 61/256 (23%)
Query: 303 SLELGTDKKRRPYVSR-----KML--EAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQ 355
           +L  G  ++ R Y  R     +ML  +A++LLQL G+P I AP E EAQ A +       
Sbjct: 108 ALAKGNLEEARKYAQRATKVNEMLIEDAKKLLQLMGIPIIQAPSEGEAQAAYMASKGDVY 167
Query: 356 GVITDDSDIWLFGARTVYKNFFDKKSHVLRYTAPDIRYYFEL----------------TR 399
              + D D  LFGA  + +N     +   +   P    Y E+                TR
Sbjct: 168 ASASQDYDSLLFGAPRLIRNL----TITGKRKMPGKDVYVEIKPELVVLDEVLKELKITR 223
Query: 400 EKLIQLALLVGSDYTPG-LQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKN 458
           EKLI+LA+LVG+DY PG ++G+GP  ALEI+            Y  + + +F+       
Sbjct: 224 EKLIELAILVGTDYNPGGVKGIGPKKALEIV-----------RYSRDPLAKFQR------ 266
Query: 459 KPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKFGW 518
                            D    ++ E +L P + TN   L+W  PD +G+ +F  ++  +
Sbjct: 267 ---------------QSDVDLYAIKEFFLNPPV-TNEYSLSWKEPDEEGILKFLCDEHNF 310
Query: 519 SQNRVDQTLIPIMKKI 534
           S+ RV   +  + K I
Sbjct: 311 SEERVKNGIERLKKAI 326
>pdb|1B43|A Chain A, Fen-1 From P. Furiosus Length = 340 Back     alignment and structure
>pdb|3Q8K|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (Wt) In Complex With Product 5'-Flap Dna, Sm3+, And K+ Length = 341 Back     alignment and structure
>pdb|1UL1|X Chain X, Crystal Structure Of The Human Fen1-Pcna Complex Length = 379 Back     alignment and structure
>pdb|3Q8M|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (D181a) In Complex With Substrate 5'-Flap Dna And K+ Length = 341 Back     alignment and structure
>pdb|2IZO|A Chain A, Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex Length = 346 Back     alignment and structure
>pdb|3ORY|A Chain A, Crystal Structure Of Flap Endonuclease 1 From Hyperthermophilic Archaeon Desulfurococcus Amylolyticus Length = 363 Back     alignment and structure
>pdb|1RXV|A Chain A, Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna Length = 336 Back     alignment and structure
>pdb|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii Length = 326 Back     alignment and structure
>pdb|3QEA|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In Complex With Dna (Complex Ii) Length = 352 Back     alignment and structure
>pdb|3QE9|Y Chain Y, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In Complex With Dna (Complex I) Length = 352 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query538
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 1e-57
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 2e-55
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 5e-54
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 1e-53
1rxw_A336 Flap structure-specific endonuclease; helical clam 9e-53
1b43_A340 Protein (FEN-1); nuclease, DNA repair, DNA replica 4e-51
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 6e-51
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 2e-34
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-16
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase-DNA complex, DNA repair, replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A* 3q8m_A* Length = 341 Back     alignment and structure
 Score =  194 bits (494), Expect = 1e-57
 Identities = 52/234 (22%), Positives = 103/234 (44%), Gaps = 29/234 (12%)

Query: 310 KKRRPYVSRKML-EAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFG 368
            KR   V+++   E + LL L G+P++ AP EAEA CA+L          T+D D   FG
Sbjct: 126 TKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFG 185

Query: 369 ARTVYKNFFD---KKSHVLRYTAPDIRYYFELTREKLIQLALLVGSDYTPGLQGVGPVTA 425
           +  + ++      KK  +  +    I     L +E+ + L +L+GSDY   ++G+GP  A
Sbjct: 186 SPVLMRHLTASEAKKLPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRA 245

Query: 426 LEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEA 485
           ++++ K             +S+      L     P            + +++ +    + 
Sbjct: 246 VDLIQKH------------KSIEEIVRRLDPNKYP------------VPENWLHKEAHQL 281

Query: 486 YLKPD-INTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQRS 538
           +L+P+ ++    +L W  P+ + L +F   +  +S+ R+   +  + K     +
Sbjct: 282 FLEPEVLDPESVELKWSEPNEEELIKFMCGEKQFSEERIRSGVKRLSKSRQGST 335
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2 Length = 379 Back     alignment and structure
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A Length = 326 Back     alignment and structure
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus} Length = 363 Back     alignment and structure
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' FLA site, hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A Length = 336 Back     alignment and structure
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A Length = 340 Back     alignment and structure
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-BIND excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} Length = 346 Back     alignment and structure
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z* Length = 352 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query538
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 100.0
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 100.0
1b43_A340 Protein (FEN-1); nuclease, DNA repair, DNA replica 100.0
1rxw_A336 Flap structure-specific endonuclease; helical clam 100.0
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 100.0
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 100.0
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 100.0
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 100.0
1bgx_T 832 TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi 100.0
1exn_A290 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Ent 100.0
3h7i_A305 Ribonuclease H, RNAse H; BPT4 RNAse H, 5'-3' exonu 99.79
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 97.7
3fqd_A 899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 97.45
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 96.24
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 95.89
1b43_A340 Protein (FEN-1); nuclease, DNA repair, DNA replica 94.73
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 94.66
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 93.41
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 91.63
1x2i_A75 HEF helicase/nuclease; alpha helix, helix-hairpin- 91.23
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 90.64
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 90.52
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 89.09
2nrt_A220 Uvrabc system protein C; UVRC, endonuclease, RNAse 85.4
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 80.88
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 80.25
3c65_A226 Uvrabc system protein C; UVRC, endonuclease, nucle 80.02
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus} Back     alignment and structure
Probab=100.00  E-value=5e-56  Score=464.84  Aligned_cols=324  Identities=21%  Similarity=0.333  Sum_probs=257.0

Q ss_pred             hhhhhchhchHHHhh-hcCccc-ccccccCeEEEeehhhHHHhhhhhhhhhccccccchhhHHHHHHHHhhhhhhhHHHH
Q psy14291        106 NIYIMGVNGLWKLLE-ASGKPV-PVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDILEMIRAEEENEIEFE  183 (538)
Q Consensus       106 ~~~~MGi~GLw~~l~-~~~~~~-~~~~l~G~~laiD~s~wl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  183 (538)
                      +-..||| |||++|+ ++.+++ ++++|+|+++|||+|+|+|++..++.. ..+..+.++        . +..++|+   
T Consensus         7 ~~~~MGv-~L~~ll~~~~~~~~~~l~~l~gk~l~IDg~~~l~r~~~~~~~-~~g~~l~~~--------~-G~~T~al---   72 (363)
T 3ory_A            7 NGVDMGV-DLKDIIPGEAKTVIEDLRILHGKIIVIDGYNALYQFLAAIRQ-PDGTPLMDN--------N-GRITSHL---   72 (363)
T ss_dssp             -CCCCSC-CCGGGCCGGGEEECSSGGGGTTCEEEEEHHHHHHHHHHHCBC-TTSCBCBCT--------T-SCBCHHH---
T ss_pred             CCcccCc-CHHHHhhHhcccccCCHHHhCCCEEEEehHHHHHHHHHhhhc-cCCCccCCC--------C-CCCccHH---
Confidence            3467999 9999999 788999 999999999999999999986544432 123344443        1 2233455   


Q ss_pred             HHHhcCcchhhHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceEEEecCCccccchhhHHHHHHHHHHHHhh
Q psy14291        184 EEIAGGKEEKTEKIKLTREMLAEQQKILDSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGK  263 (538)
Q Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~r~~~ll~~l~~~~ikp~~~~~~~~~~~~~v~VFDG~~p~~K~~tLekRr~qLqee~~k  263 (538)
                                       .+||.|+.+++    ..+|+|             ++||||..|..|..+..+|+.++.+--+.
T Consensus        73 -----------------~gf~~r~~~ll----~~~i~P-------------v~VFDg~~p~~K~~~~~~yK~~R~~~~e~  118 (363)
T 3ory_A           73 -----------------SGLFYRTINIV----EAGIKP-------------VYVFDGKPPELKAREIERRKAVKEEAAKK  118 (363)
T ss_dssp             -----------------HHHHHHHHHHH----HTTCEE-------------EEEECSSCGGGCHHHHHHHHHHHHHHHHH
T ss_pred             -----------------HHHHHHHHHHH----HcCCCc-------------EEEEcCCCccchHHHHHHHHHhhhhchHH
Confidence                             67888866654    456777             99999999999999998887665433222


Q ss_pred             hhhhhhcccHHhHHHHHHHHHhhCCcEEeCCCchhhhhhhhhhccccCCCCcchHh-HHHHHHHHHHcCCCcccCcchHH
Q psy14291        264 QTRLASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRK-MLEAQELLQLFGVPFIVAPGEAE  342 (538)
Q Consensus       264 ~~R~A~~it~~m~~e~~kLL~~~g~P~iv~d~Eaeaqca~l~~~~~k~rr~~lt~q-~~~ik~lL~~~GIp~i~APgEAD  342 (538)
                      +.               +.+..+.        ..++       ..+.++...++++ ++.++++|++|||||+++|||||
T Consensus       119 l~---------------~~~~~g~--------~~~a-------~~~~~~~~~vt~~~~~~i~~lL~~~GIp~i~apgEAD  168 (363)
T 3ory_A          119 YE---------------EAVQSGD--------LELA-------RRYAMMSAKLTEEMVRDAKSLLDAMGIPWVQAPAEGE  168 (363)
T ss_dssp             HH---------------HHHHHTC--------HHHH-------HHHTCCCCCCCHHHHHHHHHHHHHHTCCEEECSSCHH
T ss_pred             HH---------------HHHHcCC--------HHHH-------HHHHhccccCCHHHHHHHHHHHHHCCCCEEEeCccHH
Confidence            21               1111110        0011       1122345667664 57999999999999999999999


Q ss_pred             HHHHHHHhhcCCCceEecCCceEeecCeEEEEecCCCCC------------cEEEEchhHHHHHhCCCHHHHHHHHHHcC
Q psy14291        343 AQCASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKKS------------HVLRYTAPDIRYYFELTREKLIQLALLVG  410 (538)
Q Consensus       343 aqiA~La~~g~vd~IiS~DsDllLfG~~~Vi~~~~~~~~------------~~~~~~~~~i~~~~gl~~~q~idl~~L~G  410 (538)
                      ||||+|++.|.+++|+|+|+|+++||+.+++++++..+.            ..++|+.+.+.+++|++|+||+|+|+|+|
T Consensus       169 aqiA~La~~g~~~~I~S~D~D~l~fg~~~v~~~l~~~~~~~~p~~~~~v~~~~~~~~~~~v~~~~gl~~~q~id~~~L~G  248 (363)
T 3ory_A          169 AQAAYIVKKGDAYASASQDYDSLLFGSPKLVRNLTISGRRKLPRKNEYVEVKPELIELDKLLVQLGITLENLIDIGILLG  248 (363)
T ss_dssp             HHHHHHHHTTSCSEEECSSSHHHHTTCSEEEESTTTCEEEECSSTTCEEEECCEEEEHHHHHHHHTCCHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCeEEEECCCcCccccCCCeEEEEeeccccccCCccccccccceEEEcHHHHHHHhCcCHHHHHHHHHHhC
Confidence            999999999999999999999999999999998753321            23789999999999999999999999999


Q ss_pred             CCCCC-CCCCCCHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHhhcCCCChhhhHhhhhccCCCCCCCHHHHHhhcCC
Q psy14291        411 SDYTP-GLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKP  489 (538)
Q Consensus       411 sDyip-GVpGIG~KtA~kLL~~ygsl~~~~~e~Il~~L~~~k~~~~~~~~~~~~lr~kL~~~~i~~~fps~~lv~ly~dp  489 (538)
                      |||+| ||||||+|||++||++|||+     ++|++++++                     ..+  .|+...+.++|++|
T Consensus       249 sDy~p~GVpGIG~KtA~kLl~~~gsl-----e~il~~~~~---------------------~~~--~~~~~~~~~~f~~p  300 (363)
T 3ory_A          249 TDYNPDGFEGIGPKKALQLVKAYGGI-----EKIPKPILK---------------------SPI--EVDVIAIKKYFLQP  300 (363)
T ss_dssp             BTTBTTCSTTCCHHHHHHHHHHHTSS-----TTSCGGGCC---------------------CSS--CCCHHHHHHHHHSC
T ss_pred             CCCCCCCCCCcCHHHHHHHHHHcCCH-----HHHHHhccc---------------------ccC--CCCHHHHHHHhcCC
Confidence            99999 99999999999999999999     888765421                     112  36778999999999


Q ss_pred             CCCCCcccccCCCCCHHHHHHHHHHhcCCChHhhhhhhHHHHHHhhh
Q psy14291        490 DINTNVQKLAWGTPDLDGLRRFAANKFGWSQNRVDQTLIPIMKKISQ  536 (538)
Q Consensus       490 ~v~~s~~~~~w~~PD~~~L~~fl~~~~ew~~~kvd~~l~Pll~~~~~  536 (538)
                      +|..+. +|+|..||.++|++|+.++++|+.++|++.+.|+.+.+++
T Consensus       301 ~v~~~~-~~~w~~pd~~~l~~fl~~~~~f~~~rv~~~~~~l~~~~~~  346 (363)
T 3ory_A          301 QVTDNY-RIEWHTPDPDAVKRILVDEHDFSIDRVSTALERYVKAFKE  346 (363)
T ss_dssp             CCCSCC-CCCCCCCCHHHHHHHHTTTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCC-CCCCCCCCHHHHHHHHHhccCCCHHHHHHHHHHHHHHhcc
Confidence            998765 5999999999999999999999999999999999998874
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase-DNA complex, DNA repair, replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A* 3q8m_A* Back     alignment and structure
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A Back     alignment and structure
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' FLA site, hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A Back     alignment and structure
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A Back     alignment and structure
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2 Back     alignment and structure
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-BIND excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} Back     alignment and structure
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z* Back     alignment and structure
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A* Back     alignment and structure
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A Back     alignment and structure
>3h7i_A Ribonuclease H, RNAse H; BPT4 RNAse H, 5'-3' exonuclease, hydrolase, endonuclease; 1.50A {Enterobacteria phage T4} PDB: 2ihn_A 3h8w_A 3h8j_A 1tfr_A 3h8s_A Back     alignment and structure
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster} Back     alignment and structure
>3fqd_A Protein DHP1, 5'-3' exoribonuclease 2; protein-protein complex, exonuclease, hydrolase, mRNA proces nuclease, nucleus, rRNA processing, transcription; 2.20A {Schizosaccharomyces pombe} Back     alignment and structure
>3pie_A 5'->3' exoribonuclease (XRN1); beta berrel, tudor domain, chromo domain, mRNA turnover, RRN processing, RNA binding, DNA binding; 2.90A {Kluyveromyces lactis} PDB: 3pif_A Back     alignment and structure
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus} Back     alignment and structure
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A Back     alignment and structure
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z* Back     alignment and structure
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A* Back     alignment and structure
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A* Back     alignment and structure
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5 Back     alignment and structure
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3 Back     alignment and structure
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 Back     alignment and structure
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 Back     alignment and structure
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A Back     alignment and structure
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-BIND excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} Back     alignment and structure
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2 Back     alignment and structure
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 538
d1b43a1120 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nu 1e-18
d1rxwa2217 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuc 7e-18
d1ul1x1140 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nu 2e-15
d1b43a2219 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuc 9e-15
d1a77a2207 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuc 2e-14
d1rxwa1105 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nu 7e-14
d1ul1x2216 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuc 6e-13
d1a77a1108 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nu 2e-12
>d1b43a1 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 120 Back     information, alignment and structure

class: All alpha proteins
fold: SAM domain-like
superfamily: 5' to 3' exonuclease, C-terminal subdomain
family: 5' to 3' exonuclease, C-terminal subdomain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 79.9 bits (197), Expect = 1e-18
 Identities = 44/143 (30%), Positives = 65/143 (45%), Gaps = 34/143 (23%)

Query: 397 LTREKLIQLALLVGSDYTP-GLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLA 455
           LTREKLI+LA+LVG+DY P G++G+G   ALEI                  +R  K+ LA
Sbjct: 1   LTREKLIELAILVGTDYNPGGIKGIGLKKALEI------------------VRHSKDPLA 42

Query: 456 KKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANK 515
           K               +   D    ++ E +L P +  N   L W  PD +G+ +F  ++
Sbjct: 43  K--------------FQKQSDVDLYAIKEFFLNPPVTDNY-NLVWRDPDEEGILKFLCDE 87

Query: 516 FGWSQNRVDQTLIPIMKKISQRS 538
             +S+ RV   L  + K I    
Sbjct: 88  HDFSEERVKNGLERLKKAIKSGK 110
>d1rxwa2 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 217 Back     information, alignment and structure
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Length = 140 Back     information, alignment and structure
>d1b43a2 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 219 Back     information, alignment and structure
>d1a77a2 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 207 Back     information, alignment and structure
>d1rxwa1 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 105 Back     information, alignment and structure
>d1ul1x2 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Length = 216 Back     information, alignment and structure
>d1a77a1 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 108 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query538
d1ul1x2216 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 100.0
d1rxwa2217 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 100.0
d1a77a2207 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 99.97
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 99.97
d1b43a1120 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 99.84
d1rxwa1105 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 99.84
d1a77a1108 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 99.82
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 99.8
d1cmwa1116 5' to 3' exonuclease domain of DNA polymerase Taq 99.73
d1xo1a1105 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 99.36
d1cmwa2164 5' to 3' exonuclease domain of DNA polymerase Taq 99.04
d1xo1a2167 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 98.72
d1tfra2169 T4 RNase H {Bacteriophage T4 [TaxId: 10665]} 98.5
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 96.7
d1rxwa2217 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 96.55
d1a77a2207 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 96.43
d1ul1x2216 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 96.11
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 94.38
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 94.08
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 93.8
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 93.43
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 90.38
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 87.88
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 87.73
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 86.74
d1pzna161 DNA repair protein Rad51, N-terminal domain {Archa 84.38
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 82.6
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 81.8
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 81.37
>d1ul1x2 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: PIN domain-like
superfamily: PIN domain-like
family: 5' to 3' exonuclease catalytic domain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.3e-35  Score=286.00  Aligned_cols=208  Identities=21%  Similarity=0.284  Sum_probs=140.6

Q ss_pred             chhchHHHhhhcC----cccccccccCeEEEeehhhHHHhhhhhhhhhccccccchhhHHHHHHHHhhhhhhhHHHHHHH
Q psy14291        111 GVNGLWKLLEASG----KPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDILEMIRAEEENEIEFEEEI  186 (538)
Q Consensus       111 Gi~GLw~~l~~~~----~~~~~~~l~G~~laiD~s~wl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  186 (538)
                      ||+|||++|++.+    +++++++|+|++||||+|+|||+...++....  +         .+....+....|+      
T Consensus         1 GIkgL~~~l~~~~~~~i~~~~l~~l~gk~vaIDas~~l~~~l~~~~~~~--~---------~l~~~~~~~~~~l------   63 (216)
T d1ul1x2           1 GIQGLAKLIADVAPSAIRENDIKSYFGRKVAIDASMSIYQFLIAVRQGG--D---------VLQNEEGETTSHL------   63 (216)
T ss_dssp             CCTTHHHHHHTTCTTSCCEECGGGGTTCCEEEEHHHHHHHHHSCC------------------------CCHHH------
T ss_pred             CcchHHHHHHHhCcCceEEecHHHcCCCEEEEEeHHHHHHHHHHhcccc--c---------hhhccCCCCcHHH------
Confidence            9999999999864    78999999999999999999998664433211  1         1111111222233      


Q ss_pred             hcCcchhhHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceEEEecCCccccchhhHHHHHHHHHHHHhhhhh
Q psy14291        187 AGGKEEKTEKIKLTREMLAEQQKILDSLVKKKAKSDDVIDVDLTETSTSGFFDYGCDVIKSSTLEKDRDQLLLERGKQTR  266 (538)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~r~~~ll~~l~~~~ikp~~~~~~~~~~~~~v~VFDG~~p~~K~~tLekRr~qLqee~~k~~R  266 (538)
                                    ..+|.|+.    .|++++|+|             ||||||.+|+.|..+..+|++++.+...++..
T Consensus        64 --------------~~~~~~~~----~l~~~~I~p-------------ifVFDG~~~~~K~~~~~~R~~~r~~~~~~~~~  112 (216)
T d1ul1x2          64 --------------MGMFYRTI----RMMENGIKP-------------VYVFDGKPPQLKSGELAKRSERRAEAEKQLQQ  112 (216)
T ss_dssp             --------------HHHHHHHH----HHHHTTCCE-------------EEEECCSCCSCCCCCCCCC-------------
T ss_pred             --------------HHHHHHHH----HHHHcCCeE-------------EEEEcCCCCccccchhhhhhhhHHHhhhhHHh
Confidence                          56677744    455667777             99999999999999998887664332222211


Q ss_pred             hhhcccHHhHHHHHHHHHhhCCcEEeCCCchhhhhhhhhhccccCCCCcchHhH-HHHHHHHHHcCCCcccCcchHHHHH
Q psy14291        267 LASTITEQMSREAQELLQLFGVPFIVAPGEAEAQCASLELGTDKKRRPYVSRKM-LEAQELLQLFGVPFIVAPGEAEAQC  345 (538)
Q Consensus       267 ~A~~it~~m~~e~~kLL~~~g~P~iv~d~Eaeaqca~l~~~~~k~rr~~lt~q~-~~ik~lL~~~GIp~i~APgEADaqi  345 (538)
                      ...   ..                    .+.+       .....++...+++.+ ..++++|+.+||||++||||||+||
T Consensus       113 ~~~---~~--------------------~~~~-------~~~~~~~~~~i~~~~~~~~~~ll~~~gv~~i~Ap~EAdaq~  162 (216)
T d1ul1x2         113 AQA---AG--------------------AEQE-------VEKFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASC  162 (216)
T ss_dssp             ----------------------------------------------CCCCCCSCHHHHHHHHHHHTCCEEECSSCHHHHH
T ss_pred             hhh---cc--------------------hHHH-------HHHhhccCeeccHHHHHHHHHHHHhcCeeeEeccchHHHHH
Confidence            000   00                    0000       001112333455444 5899999999999999999999999


Q ss_pred             HHHHhhcCCCceEecCCceEeecCeEEEEecCCCC---CcEEEEchhHHHHHhC
Q psy14291        346 ASLELGNHTQGVITDDSDIWLFGARTVYKNFFDKK---SHVLRYTAPDIRYYFE  396 (538)
Q Consensus       346 A~La~~g~vd~IiS~DsDllLfG~~~Vi~~~~~~~---~~~~~~~~~~i~~~~g  396 (538)
                      |+|++.|.+|+|+|+|||+|+||+++|++++....   ..+++|+.++|.+.+|
T Consensus       163 A~L~~~g~vd~v~S~DsD~l~fG~~~vi~~~~~~~~~~~~~~~~~~~~il~~LG  216 (216)
T d1ul1x2         163 AALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRILQELG  216 (216)
T ss_dssp             HHHHHHTSSSEEECSCTHHHHTTCSEEEECSSCCC-CCCCEEEEEHHHHHHHHT
T ss_pred             HHHHhcCceEEEEccccceeccCCcEEEEecccccCCCCcEEEEEHHHHHHhcC
Confidence            99999999999999999999999999999985432   2589999999999887
>d1rxwa2 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1a77a2 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1b43a2 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1b43a1 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1rxwa1 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1a77a1 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1cmwa1 a.60.7.1 (A:174-289) 5' to 3' exonuclease domain of DNA polymerase Taq {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1xo1a1 a.60.7.1 (A:186-290) T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726]} Back     information, alignment and structure
>d1cmwa2 c.120.1.2 (A:10-173) 5' to 3' exonuclease domain of DNA polymerase Taq {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1xo1a2 c.120.1.2 (A:19-185) T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726]} Back     information, alignment and structure
>d1tfra2 c.120.1.2 (A:12-180) T4 RNase H {Bacteriophage T4 [TaxId: 10665]} Back     information, alignment and structure
>d1b43a2 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1rxwa2 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1a77a2 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1ul1x2 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i1qa1 a.60.4.1 (A:5-64) DNA repair protein Rad51, N-terminal domain {Archaeon Methanococcus voltae [TaxId: 2188]} Back     information, alignment and structure
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1pzna1 a.60.4.1 (A:35-95) DNA repair protein Rad51, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1bvsa2 a.60.2.1 (A:64-134) DNA helicase RuvA subunit, middle domain {Mycobacterium leprae [TaxId: 1769]} Back     information, alignment and structure
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure