Citrus Sinensis ID: 020008

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--
MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANTSAPIKRKEPENTPKATTNKKSKAGGGGGRKRK
ccccccccccHHHHHHHHHHHHHHHcccEEEEEEccccHHHHHHHHHHHHHcHHHHHHHHHHHHHcccHHHHHHHHHHHccccHHHHHHHHHHHHHccccEEEcccHHHHHHHHHHHcccEEEEEccccccccccccHHHHccccccccccccEEEEHHHHHHHccccHHHHHHHcHHcccccccccccccHHHHHHHHHHcccHHHHHHHHHHHcccccccccHHHHHHHHccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccc
ccEcccccEcHHHHHHHHHHHHHHHcccEEEEEEcccccccccccHHHHHccHHHccHHHHHHHHcccHHHHHHHHHccHHHHHHHHHHHHHHHHHHcccEEEccccHHHHHHHHHHHccccEEEccccHHHHccccEEEEcccccEEEEcccEEEcHHHHHHHccccHHHHHHHHHHHccccccccccccHHHHHHHHHHcccHHHHHHHcccccccccccccHHHHHHHHccccccccccccEEEcccccHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccHHHcccccccccHHHccccccccccccccccccccccccccc
MLTNEAGEVTSHLQGMFTRTIRLLEagmkpiyvfdgqppdlkKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLmgvpvveapseAEAQCAALCKSGQVYAVasedmdsltfgaprflrhlmdpssrkipvMEFEVAKILEELNLTMDQFIDLCIlsgcdycdsirgigGQTALKLIRQHGSIETILENINreryqipedwpyqearrlfkepevvtdeeqlqikwsapdeegLINFLVsengfnsdRVTKAIEKIKAAKnkssqgrlesffkpvantsapikrkepentpkattnkkskagggggrkrk
mltneagevtshlqGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAveagnkediekfskrtvkvtkqhnddckRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEqlqikwsapdeeGLINFLVSENGFNSDRVTKAIEKIKaaknkssqgrlesffkpvantsapikrkepentpkattnkkskagggggrkrk
MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTkaiekikaaknkSSQGRLESFFKPVANTSAPIKRKEPENTPKATTNkkskagggggrkrk
************LQGMFTRTIRLLEAGMKPIYVFD****************************************************DDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFN*****************************************************************
****E*GEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAV**GN*****KFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIE********************************************************
**********SHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIK********GRLESFFKPVANTSAPIKR**************************
*****AGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKN********S*FK*************************************
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MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANTSAPIKRKEPENTPKATTNKKSKAGGGGGRKRK
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 ?
Query332 2.2.26 [Sep-21-2011]
O65251383 Flap endonuclease 1 OS=Ar yes no 0.993 0.861 0.858 1e-171
C6TEX6382 Flap endonuclease 1 OS=Gl yes no 0.951 0.827 0.864 1e-165
Q9SXQ6380 Flap endonuclease 1-A OS= yes no 0.948 0.828 0.830 1e-156
B8AW67380 Flap endonuclease 1-A OS= N/A no 0.948 0.828 0.830 1e-156
C5YUK3380 Flap endonuclease 1-A OS= N/A no 0.918 0.802 0.840 1e-156
B4FHY0379 Flap endonuclease 1 OS=Ze N/A no 0.918 0.804 0.840 1e-155
A9S0B8394 Flap endonuclease 1-A OS= N/A no 0.885 0.746 0.731 1e-134
A9U328349 Flap endonuclease 1-B OS= N/A no 0.873 0.830 0.727 1e-128
Q75LI2412 Flap endonuclease 1-B OS= no no 0.924 0.745 0.673 1e-122
B8AMS4412 Flap endonuclease 1-B OS= N/A no 0.924 0.745 0.673 1e-122
>sp|O65251|FEN1_ARATH Flap endonuclease 1 OS=Arabidopsis thaliana GN=FEN1 PE=2 SV=2 Back     alignment and function desciption
 Score =  602 bits (1552), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 286/333 (85%), Positives = 311/333 (93%), Gaps = 3/333 (0%)

Query: 1   MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDL 60
           MLTNEAGEVTSHLQGMF RTIRLLEAG+KP+YVFDG+PP+LK+QELAKRYSKRADAT DL
Sbjct: 53  MLTNEAGEVTSHLQGMFNRTIRLLEAGIKPVYVFDGKPPELKRQELAKRYSKRADATADL 112

Query: 61  AEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQ 120
             A+EAGNKEDIEK+SKRTVKVTKQHNDDCKRLL+LMGVPVVEA SEAEAQCAALCKSG+
Sbjct: 113 TGAIEAGNKEDIEKYSKRTVKVTKQHNDDCKRLLRLMGVPVVEATSEAEAQCAALCKSGK 172

Query: 121 VYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSG 180
           VY VASEDMDSLTFGAP+FLRHLMDPSSRKIPVMEFEVAKILEEL LTMDQFIDLCILSG
Sbjct: 173 VYGVASEDMDSLTFGAPKFLRHLMDPSSRKIPVMEFEVAKILEELQLTMDQFIDLCILSG 232

Query: 181 CDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTD 240
           CDYCDSIRGIGGQTALKLIRQHGSIETILEN+N+ERYQIPE+WPY EAR+LFKEP+V+TD
Sbjct: 233 CDYCDSIRGIGGQTALKLIRQHGSIETILENLNKERYQIPEEWPYNEARKLFKEPDVITD 292

Query: 241 EEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANT 300
           EEQL IKW++PDEEG++ FLV+ENGFN DRVTKAIEKIK AKNKSSQGRLESFFKPVAN+
Sbjct: 293 EEQLDIKWTSPDEEGIVQFLVNENGFNIDRVTKAIEKIKTAKNKSSQGRLESFFKPVANS 352

Query: 301 SAPIKRKE-PENTPKATTNKKSKAGGGGGRKRK 332
           S P KRKE PE+T K   NKK+K  G GGRK+K
Sbjct: 353 SVPAKRKEIPESTTKGAANKKTK--GAGGRKKK 383
Structure-specific nuclease with 5'-flap endonuclease and 5'-3' exonuclease activities involved in DNA replication and repair. During DNA replication, cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. It enters the flap from the 5'-end and then tracks to cleave the flap base, leaving a nick for ligation. Also involved in the long patch base excision repair (LP-BER) pathway, by cleaving within the apurinic/apyrimidinic (AP) site-terminated flap. Acts as a genome stabilization factor that prevents flaps from equilibrating into structurs that lead to duplications and deletions. Also possesses 5'-3' exonuclease activity on nicked or gapped double-stranded DNA, and exhibits RNase H activity. Also involved in replication and repair of rDNA and in repairing mitochondrial DNA.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>sp|C6TEX6|FEN1_SOYBN Flap endonuclease 1 OS=Glycine max GN=FEN1 PE=2 SV=1 Back     alignment and function description
>sp|Q9SXQ6|FEN11_ORYSJ Flap endonuclease 1-A OS=Oryza sativa subsp. japonica GN=FEN-1a PE=2 SV=1 Back     alignment and function description
>sp|B8AW67|FEN11_ORYSI Flap endonuclease 1-A OS=Oryza sativa subsp. indica GN=FEN1a PE=3 SV=1 Back     alignment and function description
>sp|C5YUK3|FEN11_SORBI Flap endonuclease 1-A OS=Sorghum bicolor GN=FEN1-A PE=3 SV=1 Back     alignment and function description
>sp|B4FHY0|FEN1_MAIZE Flap endonuclease 1 OS=Zea mays GN=FEN1 PE=2 SV=1 Back     alignment and function description
>sp|A9S0B8|FEN11_PHYPA Flap endonuclease 1-A OS=Physcomitrella patens subsp. patens GN=FEN1-A PE=3 SV=1 Back     alignment and function description
>sp|A9U328|FEN12_PHYPA Flap endonuclease 1-B OS=Physcomitrella patens subsp. patens GN=FEN1-B PE=3 SV=1 Back     alignment and function description
>sp|Q75LI2|FEN12_ORYSJ Flap endonuclease 1-B OS=Oryza sativa subsp. japonica GN=FEN-1b PE=2 SV=1 Back     alignment and function description
>sp|B8AMS4|FEN12_ORYSI Flap endonuclease 1-B OS=Oryza sativa subsp. indica GN=FEN1b 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 ?
Query332
359487708384 PREDICTED: flap endonuclease 1-like [Vit 0.996 0.861 0.870 1e-173
238481386383 flap endonuclease-1 [Arabidopsis thalian 0.993 0.861 0.858 1e-170
388498254366 unknown [Lotus japonicus] 0.987 0.896 0.852 1e-166
296089863416 unnamed protein product [Vitis vinifera] 0.927 0.740 0.889 1e-166
449510827382 PREDICTED: LOW QUALITY PROTEIN: flap end 0.978 0.850 0.855 1e-166
356575281382 PREDICTED: flap endonuclease 1-like [Gly 0.951 0.827 0.870 1e-165
297812863 448 hypothetical protein ARALYDRAFT_489493 [ 0.924 0.685 0.882 1e-163
363806970382 flap endonuclease 1 [Glycine max] gi|317 0.951 0.827 0.864 1e-163
42570539 453 flap endonuclease-1 [Arabidopsis thalian 0.924 0.677 0.882 1e-163
449435964377 PREDICTED: flap endonuclease 1-like [Cuc 0.909 0.801 0.884 1e-161
>gi|359487708|ref|XP_002278964.2| PREDICTED: flap endonuclease 1-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  613 bits (1582), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 289/332 (87%), Positives = 315/332 (94%), Gaps = 1/332 (0%)

Query: 1   MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDL 60
           MLTNEAGEVTSHLQGMF+RTIRLLEAG+KP+YVFDG+PPDLKKQELAKR+S+RADAT+DL
Sbjct: 53  MLTNEAGEVTSHLQGMFSRTIRLLEAGLKPVYVFDGKPPDLKKQELAKRFSRRADATEDL 112

Query: 61  AEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQ 120
            EA+E GNKE+IEKFSKRTVKVTKQHN+DCK+LL+LMGVPV+EAPSEAEAQCAALCKSG+
Sbjct: 113 TEALETGNKEEIEKFSKRTVKVTKQHNEDCKKLLRLMGVPVIEAPSEAEAQCAALCKSGK 172

Query: 121 VYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSG 180
           VYAVASEDMDSLTFGAP+FLRHLMDPSSRKIPVMEF++ KILEELNLTMDQFIDLCILSG
Sbjct: 173 VYAVASEDMDSLTFGAPKFLRHLMDPSSRKIPVMEFDITKILEELNLTMDQFIDLCILSG 232

Query: 181 CDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTD 240
           CDYCDSIRGIGGQTALKLIRQHGSIE ILENINRERYQIP+DWPYQEARRLFKEP+V +D
Sbjct: 233 CDYCDSIRGIGGQTALKLIRQHGSIENILENINRERYQIPDDWPYQEARRLFKEPQVFSD 292

Query: 241 EEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANT 300
           +EQL IKWSAPDEEGLI FLV+ENGFNSDRVTKAIEKIK AKNKSSQGRLESFFKPV ++
Sbjct: 293 DEQLDIKWSAPDEEGLITFLVNENGFNSDRVTKAIEKIKTAKNKSSQGRLESFFKPVVSS 352

Query: 301 SAPIKRKEPEN-TPKATTNKKSKAGGGGGRKR 331
           S PIKRKE E+   K TTNKKSKAGGG  RK+
Sbjct: 353 SIPIKRKETEDKAAKETTNKKSKAGGGSKRKK 384

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|238481386|ref|NP_001154740.1| flap endonuclease-1 [Arabidopsis thaliana] gi|317374929|sp|O65251.2|FEN1_ARATH RecName: Full=Flap endonuclease 1; Short=FEN-1; AltName: Full=Flap structure-specific endonuclease 1 gi|332006194|gb|AED93577.1| flap endonuclease-1 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|388498254|gb|AFK37193.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|296089863|emb|CBI39682.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449510827|ref|XP_004163772.1| PREDICTED: LOW QUALITY PROTEIN: flap endonuclease 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356575281|ref|XP_003555770.1| PREDICTED: flap endonuclease 1-like [Glycine max] Back     alignment and taxonomy information
>gi|297812863|ref|XP_002874315.1| hypothetical protein ARALYDRAFT_489493 [Arabidopsis lyrata subsp. lyrata] gi|297320152|gb|EFH50574.1| hypothetical protein ARALYDRAFT_489493 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|363806970|ref|NP_001242313.1| flap endonuclease 1 [Glycine max] gi|317376195|sp|C6TEX6.1|FEN1_SOYBN RecName: Full=Flap endonuclease 1; Short=FEN-1; AltName: Full=Flap structure-specific endonuclease 1 gi|255640175|gb|ACU20378.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|42570539|ref|NP_850877.2| flap endonuclease-1 [Arabidopsis thaliana] gi|332006193|gb|AED93576.1| flap endonuclease-1 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|449435964|ref|XP_004135764.1| PREDICTED: flap endonuclease 1-like [Cucumis sativus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query332
TAIR|locus:2146824453 AT5G26680 [Arabidopsis thalian 0.924 0.677 0.846 1.9e-140
ZFIN|ZDB-GENE-031112-11380 fen1 "flap structure-specific 0.939 0.821 0.568 4.3e-93
RGD|621821380 Fen1 "flap structure-specific 0.933 0.815 0.535 9.3e-91
UNIPROTKB|Q5ZLN4381 FEN1 "Flap endonuclease 1" [Ga 0.948 0.826 0.529 1.9e-90
UNIPROTKB|P39748380 FEN1 "Flap endonuclease 1" [Ho 0.942 0.823 0.536 2.5e-90
UNIPROTKB|P70054382 fen1-b "Flap endonuclease 1-B" 0.930 0.808 0.543 6.5e-90
UNIPROTKB|Q58DH8380 FEN1 "Flap endonuclease 1" [Bo 0.933 0.815 0.541 8.3e-90
UNIPROTKB|J9PB88380 FEN1 "Flap endonuclease 1" [Ca 0.939 0.821 0.534 8.3e-90
UNIPROTKB|F1RKS3380 FEN1 "Flap endonuclease 1" [Su 0.939 0.821 0.534 1.1e-89
UNIPROTKB|P70040382 fen1-a "Flap endonuclease 1-A" 0.939 0.816 0.531 5.9e-89
TAIR|locus:2146824 AT5G26680 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1374 (488.7 bits), Expect = 1.9e-140, P = 1.9e-140
 Identities = 260/307 (84%), Positives = 282/307 (91%)

Query:     1 MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDL 60
             MLTNEAGEVTSHLQGMF RTIRLLEAG+KP+YVFDG+PP+LK+QELAKRYSKRADAT DL
Sbjct:    53 MLTNEAGEVTSHLQGMFNRTIRLLEAGIKPVYVFDGKPPELKRQELAKRYSKRADATADL 112

Query:    61 AEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQ 120
               A+EAGNKEDIEK+SKRTVKVTKQHNDDCKRLL+LMGVPVVEA SEAEAQCAALCKSG+
Sbjct:   113 TGAIEAGNKEDIEKYSKRTVKVTKQHNDDCKRLLRLMGVPVVEATSEAEAQCAALCKSGK 172

Query:   121 VYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSG 180
             VY VASEDMDSLTFGAP+FLRHLMDPSSRKIPVMEFEVAKILEEL LTMDQFIDLCILSG
Sbjct:   173 VYGVASEDMDSLTFGAPKFLRHLMDPSSRKIPVMEFEVAKILEELQLTMDQFIDLCILSG 232

Query:   181 CDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTD 240
             CDYCDSIRGIGGQTALKLIRQHGSIETILEN+N+ERYQIPE+WPY EAR+LFKEP+V+TD
Sbjct:   233 CDYCDSIRGIGGQTALKLIRQHGSIETILENLNKERYQIPEEWPYNEARKLFKEPDVITD 292

Query:   241 EEQLQIKWSAPDEEGLINFLVSENGFNSDRVTXXXXXXXXXXXXSSQGRLESFFKPVANT 300
             EEQL IKW++PDEEG++ FLV+ENGFN DRVT            SSQGRLESFFKPVAN+
Sbjct:   293 EEQLDIKWTSPDEEGIVQFLVNENGFNIDRVTKAIEKIKTAKNKSSQGRLESFFKPVANS 352

Query:   301 SAPIKRK 307
             S P KRK
Sbjct:   353 SVPAKRK 359
GO:0003677 "DNA binding" evidence=IEA
GO:0003824 "catalytic activity" evidence=IEA
GO:0004518 "nuclease activity" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA;ISS
GO:0008409 "5'-3' exonuclease activity" evidence=IEA
GO:0016788 "hydrolase activity, acting on ester bonds" evidence=IEA
GO:0005829 "cytosol" evidence=IDA
GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA
ZFIN|ZDB-GENE-031112-11 fen1 "flap structure-specific endonuclease 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
RGD|621821 Fen1 "flap structure-specific endonuclease 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q5ZLN4 FEN1 "Flap endonuclease 1" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|P39748 FEN1 "Flap endonuclease 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|P70054 fen1-b "Flap endonuclease 1-B" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
UNIPROTKB|Q58DH8 FEN1 "Flap endonuclease 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|J9PB88 FEN1 "Flap endonuclease 1" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1RKS3 FEN1 "Flap endonuclease 1" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|P70040 fen1-a "Flap endonuclease 1-A" [Xenopus laevis (taxid:8355)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q5I4H3FEN1_XIPMA3, ., 1, ., -, ., -0.56920.98490.8605N/Ano
Q9N3T2FEN1_CAEEL3, ., 1, ., -, ., -0.54940.87950.7643yesno
A4S1G4FEN1_OSTLU3, ., 1, ., -, ., -0.57860.99090.8457yesno
B3RVF0FEN1_TRIAD3, ., 1, ., -, ., -0.53740.91260.8037N/Ano
Q58DH8FEN1_BOVIN3, ., 1, ., -, ., -0.54190.92770.8105yesno
P70040FEN1A_XENLA3, ., 1, ., -, ., -0.54040.92460.8036N/Ano
C3KJE6FEN1_ANOFI3, ., 1, ., -, ., -0.56020.98490.8605N/Ano
Q5XIP6FEN1_RAT3, ., 1, ., -, ., -0.51800.98490.8605yesno
A7RRJ0FEN1_NEMVE3, ., 1, ., -, ., -0.55240.96080.8461N/Ano
C3ZBT0FEN1_BRAFL3, ., 1, ., -, ., -0.56320.99090.8657yesno
A9U328FEN12_PHYPA3, ., 1, ., -, ., -0.72750.87340.8309N/Ano
B4KNM1FEN1_DROMO3, ., 1, ., -, ., -0.53410.99390.8505N/Ano
B4LM90FEN1_DROVI3, ., 1, ., -, ., -0.52080.99090.8523N/Ano
Q6TNU4FEN1A_DANRE3, ., 1, ., -, ., -0.56020.99090.8657yesno
Q4R5U5FEN1_MACFA3, ., 1, ., -, ., -0.52870.98490.8605N/Ano
D3TQJ5FEN1_GLOMM3, ., 1, ., -, ., -0.55420.98190.8534N/Ano
D3BN56FEN1_POLPA3, ., 1, ., -, ., -0.51380.95780.8195N/Ano
P39750FEN1_SCHPO3, ., 1, ., -, ., -0.51660.97890.8552yesno
A9S0B8FEN11_PHYPA3, ., 1, ., -, ., -0.73120.88550.7461N/Ano
C5YUK3FEN11_SORBI3, ., 1, ., -, ., -0.84030.91860.8026N/Ano
C1BM18FEN1_OSMMO3, ., 1, ., -, ., -0.56620.98490.8605N/Ano
P70054FEN1B_XENLA3, ., 1, ., -, ., -0.54830.92770.8062N/Ano
B9EMY6FEN1_SALSA3, ., 1, ., -, ., -0.55720.98490.8605N/Ano
Q178M1FEN1_AEDAE3, ., 1, ., -, ., -0.57090.98790.8631N/Ano
C6TEX6FEN1_SOYBN3, ., 1, ., -, ., -0.86430.95180.8272yesno
Q013G9FEN1_OSTTA3, ., 1, ., -, ., -0.56190.97590.8329yesno
B1H158FEN1_XENTR3, ., 1, ., -, ., -0.55800.92770.8062yesno
Q5ZLN4FEN1_CHICK3, ., 1, ., -, ., -0.51200.98790.8608yesno
B4FHY0FEN1_MAIZE3, ., 1, ., -, ., -0.84030.91860.8047N/Ano
Q7Q323FEN1_ANOGA3, ., 1, ., -, ., -0.56790.99090.8590yesno
C8BKD0FEN1_SHEEP3, ., 1, ., -, ., -0.52560.98490.8605N/Ano
C1E3X9FEN1_MICSR3, ., 1, ., -, ., -0.57740.92770.8020yesno
Q9SXQ6FEN11_ORYSJ3, ., 1, ., -, ., -0.83010.94870.8289yesno
Q5B9L6FEN1_EMENI3, ., 1, ., -, ., -0.52530.93070.7822yesno
O65251FEN1_ARATH3, ., 1, ., -, ., -0.85880.99390.8616yesno
P39748FEN1_HUMAN3, ., 1, ., -, ., -0.53470.98490.8605yesno
P39749FEN1_MOUSE3, ., 1, ., -, ., -0.52100.97890.8597yesno
B8AW67FEN11_ORYSI3, ., 1, ., -, ., -0.83010.94870.8289N/Ano

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

Your Input:
fgenesh2_kg.6__2627__AT5G26680.1
annotation not avaliable (448 aa)
(Arabidopsis lyrata)
Predicted Functional Partners:
fgenesh2_kg.8__2404__AT5G63960.1
annotation not avaliable (1092 aa)
   •••• 0.988
fgenesh2_kg.4__932__AT2G29570.1
annotation not avaliable (263 aa)
   •••• 0.981
scaffold_100742.1
annotation not avaliable (263 aa)
   •••• 0.981
Al_scaffold_0004_577
annotation not avaliable (296 aa)
   •• • 0.923
scaffold_100834.1
annotation not avaliable (793 aa)
   •• • 0.878
fgenesh1_pg.C_scaffold_6002311
annotation not avaliable (359 aa)
   •• • 0.874
fgenesh2_kg.3__2059__AT3G18524.1
annotation not avaliable (937 aa)
   •• • 0.873
fgenesh2_kg.2__162__AT1G63160.1
annotation not avaliable (334 aa)
   •• • 0.869
fgenesh2_kg.1__2361__AT1G21690.1
annotation not avaliable (339 aa)
   •  • 0.840
Al_scaffold_0007_3455
annotation not avaliable (402 aa)
   • •• 0.836

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 ?
Query332
PTZ00217393 PTZ00217, PTZ00217, flap endonuclease-1; Provision 1e-169
PRK03980292 PRK03980, PRK03980, flap endonuclease-1; Provision 1e-114
TIGR03674338 TIGR03674, fen_arch, flap structure-specific endon 1e-108
cd09867261 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease 1e-100
COG0258310 COG0258, Exo, 5'-3' exonuclease (including N-termi 4e-59
cd00128209 cd00128, PIN_FEN1_EXO1-like, PIN domains of Flap E 7e-56
cd0990770 cd09907, H3TH_FEN1-Euk, H3TH domain of Flap Endonu 2e-43
cd09868249 cd09868, PIN_XPG, PIN domain of Xeroderma pigmento 5e-35
cd0990173 cd09901, H3TH_FEN1-like, H3TH domains of Flap endo 9e-34
cd09853163 cd09853, PIN_StructSpec-5'-nucleases, PIN domains 2e-33
smart0048473 smart00484, XPGI, Xeroderma pigmentosum G I-region 1e-31
cd09856207 cd09856, PIN_FEN1-like, PIN domain of Flap Endonuc 2e-28
cd0989768 cd09897, H3TH_FEN1-XPG-like, H3TH domains of Flap 6e-27
cd09869233 cd09869, PIN_GEN1, PIN domain of Gap Endonuclease 7e-25
cd09857210 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a 3e-22
cd09867261 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease 1e-21
pfam0086746 pfam00867, XPG_I, XPG I-region 1e-21
smart0048599 smart00485, XPGN, Xeroderma pigmentosum G N-region 3e-18
cd09870239 cd09870, PIN_YEN1, PIN domain of Yeast Endonucleas 5e-17
cd0008071 cd00080, H3TH_StructSpec-5'-nucleases, H3TH domain 1e-15
TIGR006001034 TIGR00600, rad2, DNA excision repair protein (rad2 2e-15
pfam00752100 pfam00752, XPG_N, XPG N-terminal domain 3e-15
cd0990873 cd09908, H3TH_EXO1, H3TH domain of Exonuclease-1, 9e-14
cd0990365 cd09903, H3TH_FEN1-Arc, H3TH domain of Flap Endonu 2e-13
cd09852120 cd09852, PIN_SF, PIN (PilT N terminus) domain: Sup 3e-11
smart00475259 smart00475, 53EXOc, 5'-3' exonuclease 5e-11
TIGR00593 887 TIGR00593, pola, DNA polymerase I 7e-11
cd09858215 cd09858, PIN_MKT1, PIN domain of Mkt1: A global re 1e-10
cd0990052 cd09900, H3TH_XPG-like, H3TH domains of Flap endon 2e-09
PRK05755 880 PRK05755, PRK05755, DNA polymerase I; Provisional 2e-08
smart0027936 smart00279, HhH2, Helix-hairpin-helix class 2 (Pol 6e-08
TIGR00600 1034 TIGR00600, rad2, DNA excision repair protein (rad2 8e-08
cd0989873 cd09898, H3TH_53EXO, H3TH domain of the 5'-3' exon 5e-07
pfam01367100 pfam01367, 5_3_exonuc, 5'-3' exonuclease, C-termin 6e-07
PRK14976281 PRK14976, PRK14976, 5'-3' exonuclease; Provisional 2e-05
cd0990497 cd09904, H3TH_XPG, H3TH domain of Xeroderma pigmen 9e-05
cd0990281 cd09902, H3TH_MKT1, H3TH domain of Mkt1: A global 1e-04
cd09905108 cd09905, H3TH_GEN1, H3TH domain of Gap Endonucleas 0.001
>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional Back     alignment and domain information 
 Score =  474 bits (1223), Expect = e-169
 Identities = 184/339 (54%), Positives = 250/339 (73%), Gaps = 9/339 (2%)

Query: 2   LTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLA 61
           LTNEAGEVTSH+ G+F RTIRLLEAG+KP+YVFDG+PP+LK  EL KR  +R +A ++L 
Sbjct: 55  LTNEAGEVTSHISGLFNRTIRLLEAGIKPVYVFDGKPPELKSGELEKRRERREEAEEELE 114

Query: 62  EAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQV 121
           +A+E G+ E+I+K SKRTV+VTK+ N+D K+LL+LMG+PV+EAP EAEAQCA L K G+V
Sbjct: 115 KAIEEGDDEEIKKQSKRTVRVTKEQNEDAKKLLRLMGIPVIEAPCEAEAQCAELVKKGKV 174

Query: 122 YAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGC 181
           YAVA+EDMD+LTFG P  LR+L    ++K P+ E  ++ +LEEL L+MDQFIDLCIL GC
Sbjct: 175 YAVATEDMDALTFGTPVLLRNLNFSEAKKRPIQEINLSTVLEELGLSMDQFIDLCILCGC 234

Query: 182 DYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDE 241
           DYCD+I+GIG +TA KLI+++ SIE ILE++++ +Y +PE++ Y+EAR LF  PE VT  
Sbjct: 235 DYCDTIKGIGPKTAYKLIKKYKSIEEILEHLDKTKYPVPENFDYKEARELFLNPE-VTPA 293

Query: 242 EQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPV---- 297
           E++ +KW+ PDEEGL  FLV E  FN +RV K IE++K AK K +Q RL+SFF       
Sbjct: 294 EEIDLKWNEPDEEGLKKFLVKEKNFNEERVEKYIERLKKAKTKKTQTRLDSFFTATKKPI 353

Query: 298 --ANTSAPIK--RKEPENTPKATTNKKSKAGGGGGRKRK 332
             +N+ A +K  +K+   +    +    +A   G +K K
Sbjct: 354 KKSNSKAKLKKKKKKAGASAVPKSETSQEAKSSGKKKVK 392

Length = 393
>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|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|223336 COG0258, Exo, 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair] 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|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|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|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|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
>gnl|CDD|214689 smart00484, XPGI, Xeroderma pigmentosum G I-region 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|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|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|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|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|216163 pfam00867, XPG_I, XPG I-region Back     alignment and domain information
>gnl|CDD|214690 smart00485, XPGN, Xeroderma pigmentosum G N-region 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|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|233044 TIGR00600, rad2, DNA excision repair protein (rad2) Back     alignment and domain information
>gnl|CDD|216098 pfam00752, XPG_N, XPG N-terminal domain 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|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|189022 cd09852, PIN_SF, PIN (PilT N terminus) domain: Superfamily Back     alignment and domain information
>gnl|CDD|214682 smart00475, 53EXOc, 5'-3' exonuclease Back     alignment and domain information
>gnl|CDD|233038 TIGR00593, pola, DNA polymerase I Back     alignment and domain information
>gnl|CDD|189028 cd09858, PIN_MKT1, PIN domain of Mkt1: A global regulator of mRNAs encoding mitochondrial proteins and eukaryotic homologs 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|235591 PRK05755, PRK05755, DNA polymerase I; Provisional 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|233044 TIGR00600, rad2, DNA excision repair protein (rad2) Back     alignment and domain information
>gnl|CDD|188618 cd09898, H3TH_53EXO, H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs 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|237877 PRK14976, PRK14976, 5'-3' exonuclease; 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|188622 cd09902, H3TH_MKT1, H3TH domain of Mkt1: A global regulator of mRNAs encoding mitochondrial proteins and eukaryotic homologs 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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 332
PTZ00217393 flap endonuclease-1; Provisional 100.0
PRK03980292 flap endonuclease-1; Provisional 100.0
TIGR03674338 fen_arch flap structure-specific endonuclease. End 100.0
KOG2519449 consensus 5'-3' exonuclease [Replication, recombin 100.0
cd00128316 XPG Xeroderma pigmentosum G N- and I-regions (XPGN 100.0
TIGR006001034 rad2 DNA excision repair protein (rad2). All prote 100.0
PRK14976281 5'-3' exonuclease; Provisional 100.0
smart00475259 53EXOc 5'-3' exonuclease. 100.0
KOG2518 556 consensus 5'-3' exonuclease [Replication, recombin 100.0
TIGR00593 887 pola DNA polymerase I. This family is based on the 100.0
cd00008240 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonucleas 100.0
COG0258310 Exo 5'-3' exonuclease (including N-terminal domain 100.0
PRK05755 880 DNA polymerase I; Provisional 100.0
PRK09482256 flap endonuclease-like protein; Provisional 100.0
KOG2520815 consensus 5'-3' exonuclease [Replication, recombin 100.0
PHA00439286 exonuclease 99.94
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 99.93
PHA02567304 rnh RnaseH; Provisional 99.9
PF02739169 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolv 99.88
smart0048473 XPGI Xeroderma pigmentosum G I-region. domain in n 99.83
cd0008075 HhH2_motif Helix-hairpin-helix class 2 (Pol1 famil 99.59
PF01367101 5_3_exonuc: 5'-3' exonuclease, C-terminal SAM fold 99.41
smart0027936 HhH2 Helix-hairpin-helix class 2 (Pol1 family) mot 99.24
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 98.91
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 98.88
PF12813246 XPG_I_2: XPG domain containing 98.85
TIGR00600 1034 rad2 DNA excision repair protein (rad2). All prote 98.67
COG5366 531 Protein involved in propagation of M2 dsRNA satell 97.05
PF03159237 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: 96.66
COG5049 953 XRN1 5'-3' exonuclease [DNA replication, recombina 95.84
KOG2045 1493 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involve 95.83
TIGR00084191 ruvA Holliday junction DNA helicase, RuvA subunit. 95.79
PF1282664 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS 95.67
PF04599425 Pox_G5: Poxvirus G5 protein; InterPro: IPR007678 P 95.63
KOG2044 931 consensus 5'-3' exonuclease HKE1/RAT1 [Replication 94.68
PHA03065438 Hypothetical protein; Provisional 94.61
PRK00116192 ruvA Holliday junction DNA helicase RuvA; Reviewed 94.47
PRK14671621 uvrC excinuclease ABC subunit C; Provisional 93.11
PRK14605194 ruvA Holliday junction DNA helicase RuvA; Provisio 92.97
COG0632201 RuvA Holliday junction resolvasome, DNA-binding su 91.27
PRK14600186 ruvA Holliday junction DNA helicase RuvA; Provisio 91.19
PF1452060 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU 91.04
PRK14667567 uvrC excinuclease ABC subunit C; Provisional 91.03
TIGR00194574 uvrC excinuclease ABC, C subunit. This family cons 90.95
PRK13901196 ruvA Holliday junction DNA helicase RuvA; Provisio 90.83
PF1039152 DNA_pol_lambd_f: Fingers domain of DNA polymerase 90.81
PRK14669624 uvrC excinuclease ABC subunit C; Provisional 90.69
PRK14670574 uvrC excinuclease ABC subunit C; Provisional 90.62
PRK14604195 ruvA Holliday junction DNA helicase RuvA; Provisio 90.41
PF0063330 HHH: Helix-hairpin-helix motif; InterPro: IPR00044 90.36
PRK14601183 ruvA Holliday junction DNA helicase RuvA; Provisio 89.66
PRK14603197 ruvA Holliday junction DNA helicase RuvA; Provisio 89.32
COG0322581 UvrC Nuclease subunit of the excinuclease complex 89.13
PRK14602203 ruvA Holliday junction DNA helicase RuvA; Provisio 88.48
PRK14672691 uvrC excinuclease ABC subunit C; Provisional 88.24
PRK14606188 ruvA Holliday junction DNA helicase RuvA; Provisio 86.32
PF0237187 Transposase_20: Transposase IS116/IS110/IS902 fami 85.07
PRK00558598 uvrC excinuclease ABC subunit C; Validated 84.94
PRK14668577 uvrC excinuclease ABC subunit C; Provisional 84.57
PRK12766232 50S ribosomal protein L32e; Provisional 84.1
PRK14666694 uvrC excinuclease ABC subunit C; Provisional 83.87
smart0027826 HhH1 Helix-hairpin-helix DNA-binding motif class 1 83.63
PRK13766773 Hef nuclease; Provisional 83.36
PF05991166 NYN_YacP: YacP-like NYN domain; InterPro: IPR01029 80.9
COG1948254 MUS81 ERCC4-type nuclease [DNA replication, recomb 80.53
>PTZ00217 flap endonuclease-1; Provisional Back     alignment and domain information 
Probab=100.00  E-value=2.5e-77  Score=582.72  Aligned_cols=297  Identities=59%  Similarity=1.017  Sum_probs=284.6

Q ss_pred             CcCCCCCchhHHHHHHHHHHHHHHcCCCcEEEEeCCCCchhhhhHHHHhhchhhchHHHHHHHHcCCHHHHHHHhhhhhc
Q 020008            2 LTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVK   81 (332)
Q Consensus         2 l~~~~G~~t~~l~g~~~r~~~ll~~gi~Pv~VFDG~~~~~K~~~~~~rk~~R~~~~~~l~~~~~~g~~~~~~k~~~r~~~   81 (332)
                      |+|++|++|+||+||++|+++|+++||+|||||||.+|++|++++++|+++|+++++.+.++.+.|+.+++.++++|+++
T Consensus        55 l~~~~G~~t~~l~g~~~r~~~Ll~~gikPv~VFDG~~p~~K~~~~~~Rk~~R~~a~~~l~~a~~~g~~~~a~k~~~r~~~  134 (393)
T PTZ00217         55 LTNEAGEVTSHISGLFNRTIRLLEAGIKPVYVFDGKPPELKSGELEKRRERREEAEEELEKAIEEGDDEEIKKQSKRTVR  134 (393)
T ss_pred             chhccCCccHHHHHHHHHHHHHHHCCCCEEEEEcCCCchhhHHHHHHHHHHHHHhHHHHHHHHhcCCHHHHHHHHhhccc
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCHHHHHHHHHHHHHcCCCEEecccchHHHHHHHHHcCCeEEEecCCCccccccCCceEEEeecCCCCCCccEEEeHHHH
Q 020008           82 VTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKI  161 (332)
Q Consensus        82 vt~~~~~~~~~lL~~~Gi~~i~ap~EADaq~A~L~~~g~v~~V~S~DsD~l~fg~~~vi~~l~~~~~~~~~~~~~~~~~v  161 (332)
                      ||++|++.++++|+.||||||+||||||||||+|++.|+||+|+|+|+|+|+||++.++++++..+..+.++.+|+.+.+
T Consensus       135 vt~~~~~~~~~lL~~~Gip~i~AP~EAdaq~A~L~~~g~v~~ViS~D~D~l~fg~~~vi~~l~~~~~~~~~~~~~~~~~v  214 (393)
T PTZ00217        135 VTKEQNEDAKKLLRLMGIPVIEAPCEAEAQCAELVKKGKVYAVATEDMDALTFGTPVLLRNLNFSEAKKRPIQEINLSTV  214 (393)
T ss_pred             CCHHHHHHHHHHHHHcCCceEECCcCHHHHHHHHHHCCCeEEEeCCCcCeeecCCcEEEEcccccccCCCCeEEEEHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998764444556789999999


Q ss_pred             HHHcCCCHHHHHHHHHHhCCCCCCCCCCccHHHHHHHHHHcCCHHHHHHHHHhhcCCCCCCCchHHHHHHhCCCCcCCcc
Q 020008          162 LEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDE  241 (332)
Q Consensus       162 ~~~~gl~~~q~id~~~L~G~Dy~~~ipgiG~ktA~~li~~~~sle~il~~~~~~~~~~~~~~~~~~~~~~f~~p~V~~~~  241 (332)
                      ++.+|++++||+|+|+|+||||++||||||||||++||++||++|+|+++++..++.+|++|++.+++.+|++|.|+.+.
T Consensus       215 ~~~~gl~~~q~id~~iL~G~Dy~pgi~GIG~ktA~~Li~~~gsle~il~~~~~~k~~~p~~~~~~~~~~~f~~p~V~~~~  294 (393)
T PTZ00217        215 LEELGLSMDQFIDLCILCGCDYCDTIKGIGPKTAYKLIKKYKSIEEILEHLDKTKYPVPENFDYKEARELFLNPEVTPAE  294 (393)
T ss_pred             HHHhCCCHHHHHHHHHHhCCCCCCCCCCccHHHHHHHHHHcCCHHHHHHHHHhcCCCCCCCCChHHHHHHhcCCCcCCCC
Confidence            99999999999999999999999999999999999999999999999999999889999999999999999999999766


Q ss_pred             chhccccCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccCCCCccccccCcccC
Q 020008          242 EQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVAN  299 (332)
Q Consensus       242 ~~~~l~~~~pd~~~l~~fl~~~~~f~~~rv~~~~~~l~~~~~~~~Q~~l~~ff~~~~~  299 (332)
                      ++ +|.|+.||.++|++||+++++|+++||++.|+||.++....+|+|||+||++.++
T Consensus       295 ~~-~l~w~~pD~~~l~~fl~~e~~f~~~rv~~~i~rl~~~~~~~~Q~~l~~ff~~~~~  351 (393)
T PTZ00217        295 EI-DLKWNEPDEEGLKKFLVKEKNFNEERVEKYIERLKKAKTKKTQTRLDSFFTATKK  351 (393)
T ss_pred             CC-CCCCCCCCHHHHHHHHHhccCCCHHHHHHHHHHHHHHhccCccCCHHHhcCCCCC
Confidence            66 7999999999999999999999999999999999998888899999999997654

>PRK03980 flap endonuclease-1; Provisional Back     alignment and domain information
>TIGR03674 fen_arch flap structure-specific endonuclease Back     alignment and domain information
>KOG2519 consensus 5'-3' exonuclease [Replication, recombination and repair] 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
>TIGR00600 rad2 DNA excision repair protein (rad2) 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
>KOG2518 consensus 5'-3' exonuclease [Replication, recombination and repair] 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
>PRK05755 DNA polymerase I; Provisional Back     alignment and domain information
>PRK09482 flap endonuclease-like protein; Provisional Back     alignment and domain information
>KOG2520 consensus 5'-3' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>PHA00439 exonuclease 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
>PHA02567 rnh RnaseH; Provisional 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
>smart00484 XPGI Xeroderma pigmentosum G I-region Back     alignment and domain information
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif 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
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs 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
>smart00485 XPGN Xeroderma pigmentosum G N-region Back     alignment and domain information
>PF12813 XPG_I_2: XPG domain containing Back     alignment and domain information
>TIGR00600 rad2 DNA excision repair protein (rad2) 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
>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
>COG5049 XRN1 5'-3' exonuclease [DNA replication, recombination, and repair / Cell division and chromosome partitioning / Translation] Back     alignment and domain information
>KOG2045 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involved in DNA strand exchange and mRNA turnover [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit Back     alignment and domain information
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B 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
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification] Back     alignment and domain information
>PHA03065 Hypothetical protein; Provisional Back     alignment and domain information
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed Back     alignment and domain information
>PRK14671 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A Back     alignment and domain information
>PRK14667 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>TIGR00194 uvrC excinuclease ABC, C subunit Back     alignment and domain information
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains Back     alignment and domain information
>PRK14669 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14670 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional 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
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK14672 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PF02371 Transposase_20: Transposase IS116/IS110/IS902 family; InterPro: IPR003346 Transposases are needed for efficient transposition of the insertion sequence or transposon DNA Back     alignment and domain information
>PRK00558 uvrC excinuclease ABC subunit C; Validated Back     alignment and domain information
>PRK14668 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK12766 50S ribosomal protein L32e; Provisional Back     alignment and domain information
>PRK14666 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1 Back     alignment and domain information
>PRK13766 Hef nuclease; Provisional Back     alignment and domain information
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana Back     alignment and domain information
>COG1948 MUS81 ERCC4-type nuclease [DNA replication, recombination, and repair] 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 ?
Query332
1ul1_X379 Crystal Structure Of The Human Fen1-Pcna Complex Le 3e-95
3q8k_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 5e-88
3q8m_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 3e-87
1mc8_A343 Crystal Structure Of Flap Endonuclease-1 R42e Mutan 9e-56
1b43_A340 Fen-1 From P. Furiosus Length = 340 3e-54
2izo_A346 Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex L 3e-52
3ory_A363 Crystal Structure Of Flap Endonuclease 1 From Hyper 6e-52
1a76_A326 Flap Endonuclease-1 From Methanococcus Jannaschii L 8e-52
1rxv_A336 Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna 4e-45
3qea_Z352 Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) 1e-15
3qe9_Y352 Crystal Structure Of Human Exonuclease 1 Exo1 (D173 9e-15
1bgx_T 832 Taq Polymerase In Complex With Tp7, An Inhibitory F 8e-08
1taq_A 832 Structure Of Taq Dna Polymerase Length = 832 9e-08
>pdb|1UL1|X Chain X, Crystal Structure Of The Human Fen1-Pcna Complex Length = 379 Back     alignment and structure 
Iteration: 1

 Score =  344 bits (883), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 170/318 (53%), Positives = 231/318 (72%), Gaps = 4/318 (1%)
Query: 1   MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDL 60
           +L NE GE TSHL GMF RTIR++E G+KP+YVFDG+PP LK  ELAKR  +RA+A   L
Sbjct: 51  VLQNEEGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQL 110
Query: 61  AEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQ 120
            +A  AG ++++EKF+KR VKVTKQHND+CK LL LMG+P ++APSEAEA CAAL K+G+
Sbjct: 111 QQAQAAGAEQEVEKFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGK 170
Query: 121 VYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSG 180
           VYA A+EDMD LTFG+P  +RHL    ++K+P+ EF +++IL+EL L  +QF+DLCIL G
Sbjct: 171 VYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRILQELGLNQEQFVDLCILLG 230
Query: 181 CDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTD 240
            DYC+SIRGIG + A+ LI++H SIE I+  ++  +Y +PE+W ++EA +LF EPEV+ D
Sbjct: 231 SDYCESIRGIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWLHKEAHQLFLEPEVL-D 289
Query: 241 EEQLQIKWSAPDEEGLINFLVSENGFNSDRVTXXXXXXXXXXXXSSQGRLESFFKPVANT 300
            E +++KWS P+EE LI F+  E  F+ +R+             S+QGRL+ FFK V  +
Sbjct: 290 PESVELKWSEPNEEELIKFMCGEKQFSEERIRSGVKRLSKSRQGSTQGRLDDFFK-VTGS 348
Query: 301 SAPIKRKEPENTPKATTN 318
            +  KRKEPE  PK +T 
Sbjct: 349 LSSAKRKEPE--PKGSTK 364
>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|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|1MC8|A Chain A, Crystal Structure Of Flap Endonuclease-1 R42e Mutant From Pyrococcus Horikoshii Length = 343 Back     alignment and structure
>pdb|1B43|A Chain A, Fen-1 From P. Furiosus Length = 340 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|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii Length = 326 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|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
>pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab Length = 832 Back     alignment and structure
>pdb|1TAQ|A Chain A, Structure Of Taq Dna Polymerase Length = 832 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 ?
Query332
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 1e-139
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 1e-132
1rxw_A336 Flap structure-specific endonuclease; helical clam 1e-121
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 1e-121
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 1e-120
1b43_A340 Protein (FEN-1); nuclease, DNA repair, DNA replica 1e-118
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 1e-117
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 8e-89
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 9e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-04
1exn_A290 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Ent 3e-07
1bgx_T 832 TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi 8e-07
>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
 Score =  398 bits (1024), Expect = e-139
 Identities = 177/332 (53%), Positives = 243/332 (73%), Gaps = 4/332 (1%)

Query: 1   MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDL 60
           +L NE GE TSHL GMF RTIR++E G+KP+YVFDG+PP LK  ELAKR  +RA+A   L
Sbjct: 51  VLQNEEGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQL 110

Query: 61  AEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQ 120
            +A  AG ++++EKF+KR VKVTKQHND+CK LL LMG+P ++APSEAEA CAAL K+G+
Sbjct: 111 QQAQAAGAEQEVEKFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGK 170

Query: 121 VYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSG 180
           VYA A+EDMD LTFG+P  +RHL    ++K+P+ EF +++IL+EL L  +QF+DLCIL G
Sbjct: 171 VYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRILQELGLNQEQFVDLCILLG 230

Query: 181 CDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTD 240
            DYC+SIRGIG + A+ LI++H SIE I+  ++  +Y +PE+W ++EA +LF EPE V D
Sbjct: 231 SDYCESIRGIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWLHKEAHQLFLEPE-VLD 289

Query: 241 EEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANT 300
            E +++KWS P+EE LI F+  E  F+ +R+   ++++  ++  S+QGRL+ FFK   + 
Sbjct: 290 PESVELKWSEPNEEELIKFMCGEKQFSEERIRSGVKRLSKSRQGSTQGRLDDFFKVTGSL 349

Query: 301 SAPIKRKEPENTPKATTNKKSKAGGGGGRKRK 332
           S   KRKEPE  PK +T KK+K G  G  KR 
Sbjct: 350 S-SAKRKEPE--PKGSTKKKAKTGAAGKFKRG 378
>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
>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
>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
>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
>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
>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 Length = 290 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* Length = 832 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query332
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 100.0
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 100.0
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 100.0
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 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
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 100.0
1exn_A290 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Ent 100.0
1bgx_T 832 TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi 100.0
3h7i_A305 Ribonuclease H, RNAse H; BPT4 RNAse H, 5'-3' exonu 99.95
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 97.93
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 97.81
3fqd_A 899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 97.62
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 96.65
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 96.24
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 94.92
1x2i_A75 HEF helicase/nuclease; alpha helix, helix-hairpin- 94.86
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 94.86
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 94.41
2nrt_A220 Uvrabc system protein C; UVRC, endonuclease, RNAse 93.99
3c65_A226 Uvrabc system protein C; UVRC, endonuclease, nucle 90.98
2bgw_A219 XPF endonuclease; hydrolase, structure specific en 88.73
1ixr_A191 Holliday junction DNA helicase RUVA; heterooligome 87.65
4gfj_A685 Topoisomerase V; helix-hairpin-helix, DNA repair e 85.86
1cuk_A203 RUVA protein; DNA repair, SOS response, DNA-bindin 84.64
2ztd_A212 Holliday junction ATP-dependent DNA helicase RUVA; 82.01
>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
Probab=100.00  E-value=3.2e-74  Score=560.34  Aligned_cols=326  Identities=53%  Similarity=0.949  Sum_probs=249.9

Q ss_pred             CcCCCCCchhHHHHHHHHHHHHHHcCCCcEEEEeCCCCchhhhhHHHHhhchhhchHHHHHHHHcCCHHHHHHHhhhhhc
Q 020008            2 LTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVK   81 (332)
Q Consensus         2 l~~~~G~~t~~l~g~~~r~~~ll~~gi~Pv~VFDG~~~~~K~~~~~~rk~~R~~~~~~l~~~~~~g~~~~~~k~~~r~~~   81 (332)
                      |+|++|++|+|++||++++++|+++||+|+|||||.+|++|++++++||++|.++++.++.+++.|+.+++.+|++++++
T Consensus        52 l~~~~G~~t~~l~g~~~~~~~ll~~~i~P~~VFDG~~~~~K~~~~~~yk~~R~~~~~~~~~~~~~g~~~~~~~~~~~~~~  131 (379)
T 1ul1_X           52 LQNEEGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVK  131 (379)
T ss_dssp             -------CCHHHHHHHHHHHHHHHTTCCEEEEECCSCCSCCCCCCCCC-----------------------------CCC
T ss_pred             cCcCCCCCchHHHHHHHHHHHHHHCCCCeEEEEeCCCcccccchHHHHHhhhhHHHHHHHHHHHcCCHHHHHHHHhhccC
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCHHHHHHHHHHHHHcCCCEEecccchHHHHHHHHHcCCeEEEecCCCccccccCCceEEEeecCCCCCCccEEEeHHHH
Q 020008           82 VTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKI  161 (332)
Q Consensus        82 vt~~~~~~~~~lL~~~Gi~~i~ap~EADaq~A~L~~~g~v~~V~S~DsD~l~fg~~~vi~~l~~~~~~~~~~~~~~~~~v  161 (332)
                      ||..|++.++++|++|||||++||||||||||+|++.|.+++|+|+|+|+||||+++|++++...+.++.++.+|+.+.+
T Consensus       132 vt~~~~~~~~~lL~~~Gi~~i~apgEADd~iA~La~~g~~~~iiS~D~Dll~~g~~~v~~~~~~~~~~k~~~~~~~~~~v  211 (379)
T 1ul1_X          132 VTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRI  211 (379)
T ss_dssp             CCCSCHHHHHHHHHHHTCCEEECSSCHHHHHHHHHHHTSSSEEECSCTHHHHTTCSEEEECSSCCC-CCCCEEEEEHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCeecCCCcHHHHHHHHHhcCCeEEEEecCcCccccccceEEEEecccccCcCCeEEEeHHHH
Confidence            99999999999999999999999999999999999999999999999999999999998877543333456889999999


Q ss_pred             HHHcCCCHHHHHHHHHHhCCCCCCCCCCccHHHHHHHHHHcCCHHHHHHHHHhhcCCCCCCCchHHHHHHhCCCCcCCcc
Q 020008          162 LEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDE  241 (332)
Q Consensus       162 ~~~~gl~~~q~id~~~L~G~Dy~~~ipgiG~ktA~~li~~~~sle~il~~~~~~~~~~~~~~~~~~~~~~f~~p~V~~~~  241 (332)
                      ++.+|++++||+|+|+|+||||+|||||||+|||++||++||++|+|+++++..+..+|++|++.+++.+|++|+|+++.
T Consensus       212 ~~~~gl~~~q~id~~~L~G~D~~d~IpGIG~KtA~kLl~~~gsle~i~~~~~~~k~~~~~~~~~~~ar~l~l~~~v~~~~  291 (379)
T 1ul1_X          212 LQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWLHKEAHQLFLEPEVLDPE  291 (379)
T ss_dssp             HHHHTCCHHHHHHHHHHHHCSSSCCCTTCCHHHHHHHHHHSSSHHHHHTTCCCTTSCCCSSCCHHHHHHHHHSCCCCCGG
T ss_pred             HHHhCCCHHHHHHHHHHhCCCcCCCCCCcCHHHHHHHHHHcCCHHHHHHHHHhhcccCCCcCCHHHHHHHhcCCeeCCCC
Confidence            99999999999999999999999999999999999999999999999999998888999999999999999999999877


Q ss_pred             chhccccCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHHhhccCCCCccccccCcccCCCCccccCCCCCCccccccccc
Q 020008          242 EQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANTSAPIKRKEPENTPKATTNKKS  321 (332)
Q Consensus       242 ~~~~l~~~~pd~~~l~~fl~~~~~f~~~rv~~~~~~l~~~~~~~~Q~~l~~ff~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (332)
                      ++ ++.|..||.++|++||+++++|+++||++.++||.++....+|+|||+||++.++.. +.+++....  +...++++
T Consensus       292 ~~-~l~~~~pd~~~l~~fl~~~~~f~~~rv~~~~~rl~~~~~~~~q~~l~~ff~~~~~~~-~~~~~~~~~--~~~~~~~~  367 (379)
T 1ul1_X          292 SV-ELKWSEPNEEELIKFMCGEKQFSEERIRSGVKRLSKSRQGSTQGRLDDFFKVTGSLS-SAKRKEPEP--KGSTKKKA  367 (379)
T ss_dssp             GC-CCCCCCCCHHHHHHHTTTTSCCCHHHHHHHHHHHHHHHSCCSBCCHHHHSEEEEEEE-CCCCCC-------------
T ss_pred             Cc-cCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCCcHHhhcCCCCCCc-ccccccccc--cccccccc
Confidence            77 899999999999999889999999999999999998888889999999998755322 234443222  22333444


Q ss_pred             cCCC-CCCCCC
Q 020008          322 KAGG-GGGRKR  331 (332)
Q Consensus       322 ~~~~-~~~~~~  331 (332)
                      +.++ ++++++
T Consensus       368 ~~~~~~~~~~~  378 (379)
T 1ul1_X          368 KTGAAGKFKRG  378 (379)
T ss_dssp             -----------
T ss_pred             ccCCcccccCC
Confidence            4444 444444
>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
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus} 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
>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
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z* 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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A Back     alignment and structure
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2 Back     alignment and structure
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19} Back     alignment and structure
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A Back     alignment and structure
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA BIND oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A 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 332
d1ul1x2216 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuc 2e-47
d1ul1x1140 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nu 6e-47
d1a77a2207 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuc 2e-44
d1rxwa2217 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuc 5e-44
d1b43a1120 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nu 2e-43
d1b43a2219 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuc 8e-43
d1a77a1108 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nu 9e-35
d1rxwa1105 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nu 6e-33
d1cmwa1116 a.60.7.1 (A:174-289) 5' to 3' exonuclease domain o 4e-06
d1xo1a1105 a.60.7.1 (A:186-290) T5 5'-exonuclease {Bacterioph 2e-05
d1kfta_56 a.60.2.3 (A:) Excinuclease UvrC C-terminal domain 0.003
d1x2ia168 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF201 0.003
>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

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]

 Score =  157 bits (398), Expect = 2e-47
 Identities = 100/165 (60%), Positives = 131/165 (79%)

Query: 1   MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDL 60
           +L NE GE TSHL GMF RTIR++E G+KP+YVFDG+PP LK  ELAKR  +RA+A   L
Sbjct: 51  VLQNEEGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQL 110

Query: 61  AEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQ 120
            +A  AG ++++EKF+KR VKVTKQHND+CK LL LMG+P ++APSEAEA CAAL K+G+
Sbjct: 111 QQAQAAGAEQEVEKFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGK 170

Query: 121 VYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEEL 165
           VYA A+EDMD LTFG+P  +RHL    ++K+P+ EF +++IL+EL
Sbjct: 171 VYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRILQEL 215
>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
>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
>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
>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
>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
>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
>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
>d1cmwa1 a.60.7.1 (A:174-289) 5' to 3' exonuclease domain of DNA polymerase Taq {Thermus aquaticus [TaxId: 271]} Length = 116 Back     information, alignment and structure
>d1xo1a1 a.60.7.1 (A:186-290) T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726]} Length = 105 Back     information, alignment and structure
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]} Length = 56 Back     information, alignment and structure
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Length = 68 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 ?
Query332
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 100.0
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 100.0
d1b43a1120 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 100.0
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 99.97
d1a77a1108 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 99.95
d1rxwa1105 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 99.95
d1cmwa2164 5' to 3' exonuclease domain of DNA polymerase Taq 99.8
d1xo1a2167 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 99.58
d1cmwa1116 5' to 3' exonuclease domain of DNA polymerase Taq 99.57
d1tfra2169 T4 RNase H {Bacteriophage T4 [TaxId: 10665]} 99.55
d1xo1a1105 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 99.3
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 96.82
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 96.61
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 96.36
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 96.19
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 95.32
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 95.02
d1pzna161 DNA repair protein Rad51, N-terminal domain {Archa 94.14
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 93.16
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 93.0
d2bcqa257 DNA polymerase lambda {Human (Homo sapiens) [TaxId 92.83
d1jmsa360 Terminal deoxynucleotidyl transferase {Mouse (Mus 92.19
d2fmpa257 DNA polymerase beta {Human (Homo sapiens) [TaxId: 91.37
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 90.34
d1dgsa1181 NAD+-dependent DNA ligase, domain 3 {Thermus filif 87.38
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 86.04
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 85.18
d2csba355 Topoisomerase V {Methanopyrus kandleri [TaxId: 232 84.87
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 81.05
>d1b43a2 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} 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: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=100.00  E-value=3.3e-35  Score=263.54  Aligned_cols=164  Identities=48%  Similarity=0.815  Sum_probs=148.7

Q ss_pred             CcCCCCCchhHHHHHHHHHHHHHHcCCCcEEEEeCCCCchhhhhHHHHhhchhhchHHHHHHHHcCCHHHHHHHhhhhhc
Q 020008            2 LTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVK   81 (332)
Q Consensus         2 l~~~~G~~t~~l~g~~~r~~~ll~~gi~Pv~VFDG~~~~~K~~~~~~rk~~R~~~~~~l~~~~~~g~~~~~~k~~~r~~~   81 (332)
                      |.+.+|.+++|+.++|+|+..|+++||+|||||||.+|+.|..+..+|+..|.++.+.+..+.++++.+++.++.++++.
T Consensus        46 l~~~~~~~~~~l~~~~~r~~~Ll~~~I~pVFVFDG~~~~~K~~~~~~R~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  125 (219)
T d1b43a2          46 LMDSKGRITSHLSGLFYRTINLMEAGIKPVYVFDGEPPEFKKKELEKRREAREEAEEKWREALEKGEIEEARKYAQRATR  125 (219)
T ss_dssp             CBCTTSCBCHHHHHHHHHHHHHHHTTCEEEEEECCSCCCCSSCSSTTCCCCTTHHHHHHHHHHHHSCHHHHHHHHHTSGG
T ss_pred             hhhccCCCchHHHHHHHHHHHHHHcCCeEEEEeCCCCCHHHhhhHHhhhhhHHHHHHHhhhhhhccchhhhhhhhccccc
Confidence            56788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCHHHHHHHHHHHHHcCCCEEecccchHHHHHHHHHcCCeEEEecCCCccccccCCceEEEeecCCCCCC---------c
Q 020008           82 VTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKI---------P  152 (332)
Q Consensus        82 vt~~~~~~~~~lL~~~Gi~~i~ap~EADaq~A~L~~~g~v~~V~S~DsD~l~fg~~~vi~~l~~~~~~~~---------~  152 (332)
                      +|+.++..++++|+.+|||||+||||||||||+|+++|.||+|+|+|||+|+||++.|++++..++.++.         .
T Consensus       126 ~t~~~~~~~~~lL~~~gv~~i~Ap~EAdaqcA~L~~~g~vd~v~SeDsD~L~fG~~~vl~~l~~~~~~~~~~~~~~~~~~  205 (219)
T d1b43a2         126 VNEMLIEDAKKLLELMGIPIVQAPSEGEAQAAYMAAKGSVYASASQDYDSLLFGAPRLVRNLTITGKRKLPGKNVYVEIK  205 (219)
T ss_dssp             GTHHHHHHHHHHHHHHTCCEEECSSCHHHHHHHHHHHTSSSEEECSSSHHHHTTCSEEEESTTTCEEEECTTSSCEEEEC
T ss_pred             CCHHHHHHHHHHHHHcCCceeeCchHHHHHHHHHHhcCCeEEEEecccceeeeCCCEEEEecccccCccccceeeeeehh
Confidence            9999999999999999999999999999999999999999999999999999999999999875443221         1


Q ss_pred             cEEEeHHHHHHHc
Q 020008          153 VMEFEVAKILEEL  165 (332)
Q Consensus       153 ~~~~~~~~v~~~~  165 (332)
                      .+.+.+++++..|
T Consensus       206 ~~~~~~~~~l~~l  218 (219)
T d1b43a2         206 PELIILEEVLKEL  218 (219)
T ss_dssp             CEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            2446666666554
>d1ul1x2 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} 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
>d1b43a1 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} 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
>d1a77a1 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} 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
>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
>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
>d1tfra2 c.120.1.2 (A:12-180) T4 RNase H {Bacteriophage T4 [TaxId: 10665]} 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
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]} 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
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human (Homo sapiens) [TaxId: 9606]} 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
>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
>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
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2bcqa2 a.60.12.1 (A:329-385) DNA polymerase lambda {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jmsa3 a.60.12.1 (A:243-302) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2fmpa2 a.60.12.1 (A:92-148) DNA polymerase beta {Human (Homo sapiens) [TaxId: 9606]} 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
>d1dgsa1 a.60.2.2 (A:401-581) NAD+-dependent DNA ligase, domain 3 {Thermus filiformis [TaxId: 276]} 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
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2csba3 a.60.2.4 (A:410-464) Topoisomerase V {Methanopyrus kandleri [TaxId: 2320]} 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