Citrus Sinensis ID: 044842

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600--
MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEYCINDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKKVDHFLQENERRELKRKRTSSLRSEESNGKLESPKSKGVQLSITEFYRSAKVQSQEKSGADLAKDSNCQVDRISKENRRVSSPNLSKSARRRLLFN
cccccccHHHHcccccccccccccccEEEEEHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHccccEEEEEEcccccccHHHHHHHHHHccHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEcccHHHHHHHHHHHcccEEEEEcccccEEcccccEEcccccccccccEEEEEHHHHHHHccccHHHHHHHHHHccccccccccccccHHHHHHHHHHcccHHHHHHHHHcccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccHHHHHHHHHHcHHHHHHcccccccccccHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccEEEEEEEEEccEEEEEEEEccccccccccccccccccccHHHHcccccccccccccEEEEEcccHHHHHHHccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHHccc
cccHHHHHHHccccHHHccHHHHcccEEEEEHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccccEEEcccHHHHHHHHHHHcccEEEEEEccccHHHcccHHHHHHccccccccEEEEcHHHHHHHccccHHHHHHHHHHHcccccccccccccHHHHHHHHHHcccHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHEcccccccHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHccccccHcccccEEEEEEEEEEccccccEEEEEcccccccccEEEEEEcccccccHHHccccHHccccccEEEEEEcHHHHHHHHcHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHcc
MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAikknsvpkphlrlTFFRTINLFAkfgafpvfvvdgtpsplkSQARLARFYRStidastlpvaeegilVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVkcirpntkepfecyciSDIEAGLGLKRKHLIAMSLLIgndhdlngvqgiGLDTALQFVQNFSEDEILNILHKigngdipqywgdiksteeavshsdesmpmiksshcsfcghpgtkrahfkFSCEycindnnegclkkpdgfkcncslcnknrKEKEQKKHENWWIKVCSKIAletnfpndeIVTMYLCenngtftatdgpsiswgspmTEMLVDFLVyhqpwqpsyirqkmlPMLSTIYLRematnpvqtllcgqyefdsirRVKIRYGHQSYVVKWKKAASAIsgvkytapvdsdlhleefmeypqihvdgdcwfLLTDENMKLVHSAFPKKVDHFLQENERRELKRKRTSslrseesngklespkskgvqlSITEFYRSAKVqsqeksgadlakdsncqvdriskenrrvsspnlskSARRRLLFN
mgvggkfwdllKPYARFEGLDFLRDKRVAVDLSYWIVQHetaikknsvpkphLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEYCINDNNEGCLKKPDGFKCNCSLCNKNrkekeqkkhenwWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKkvdhflqenerrelkrkrtsslrseesngklespkskgvqlSITEFYRSAKVqsqeksgadlakdsncqvdriskenrrvsspnlsksarrrllfn
MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEYCINDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKKVDHFLQENERRELKRKRTSSLRSEESNGKLESPKSKGVQLSITEFYRSAKVQSQEKSGADLAKDSNCQVDRISKENRRVSSPNLSKSARRRLLFN
****GKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIK*******************HCSFCGHPGTKRAHFKFSCEYCINDNNEGCLKKPDGFKCNCSLCNK*********HENWWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKKVDHF*******************************************************************************************
MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKK*SVPKPHLRLTFFRTINLFAKFGAFPVFVVDGTPSPL******************************NQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHC*******************************PDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTMYLCENNG***ATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIY*************************K*RYGHQSYVVKWKKAASA*****************************DCWFLLTDENMKLVHSAFPKK****************************************************************************************RRRLLF*
MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIKST*************IKSSHCSFCGHPGTKRAHFKFSCEYCINDNNEGCLKKPDGFKCNCSLCNKN*********ENWWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKKVDHFLQENE****************************VQLSITEFYRS***************DSNCQVDRISKE********************
*GVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEYCINDNN**CLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKKVDHFLQENERR**********************************************************************************F*
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iiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEYCINDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKKVDHFLQENERRELKRKRTSSLRSEESNGKLESPKSKGVQLSITEFYRSAKVQSQEKSGADLAKDSNCQVDRISKENRRVSSPNLSKSARRRLLFN
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 ?
Query602 2.2.26 [Sep-21-2011]
Q9LPD2599 Flap endonuclease GEN-lik yes no 0.953 0.958 0.562 0.0
Q64MA3629 Flap endonuclease GEN-lik yes no 0.966 0.925 0.499 1e-170
Q8BMI4 908 Flap endonuclease GEN hom yes no 0.782 0.518 0.291 5e-48
Q17RS7 908 Flap endonuclease GEN hom yes no 0.784 0.519 0.278 3e-46
Q29FC1 754 Flap endonuclease GEN OS= yes no 0.803 0.641 0.260 9e-32
Q9VRJ0 726 Flap endonuclease GEN OS= yes no 0.770 0.639 0.252 2e-30
Q8W5R1641 Flap endonuclease GEN-lik yes no 0.397 0.372 0.345 2e-26
Q9M2Z3600 Flap endonuclease GEN-lik no no 0.392 0.393 0.351 6e-25
Q9ATY5 1479 DNA repair protein UVH3 O no no 0.539 0.219 0.276 1e-20
A6UX46326 Flap endonuclease 1 OS=Me yes no 0.345 0.638 0.305 2e-19
>sp|Q9LPD2|GENL1_ARATH Flap endonuclease GEN-like 1 OS=Arabidopsis thaliana GN=GEN1 PE=2 SV=3 Back     alignment and function desciption
 Score =  660 bits (1702), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/627 (56%), Positives = 434/627 (69%), Gaps = 53/627 (8%)

Query: 1   MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRT 60
           MGVGG FWDLL+PYA+ +G DFLR+KRVAVDLS+WIVQHETA+K   V KPHLRLTFFRT
Sbjct: 1   MGVGGNFWDLLRPYAQQQGFDFLRNKRVAVDLSFWIVQHETAVK-GFVLKPHLRLTFFRT 59

Query: 61  INLFAKFGAFPVFVVDGTPSPLKSQARLARFYRST-IDASTLPVAEEGILVERNQTFLKC 119
           INLF+KFGA+PVFVVDGTPSPLKSQAR++RF+RS+ ID   LPV ++G+ VERN+ F + 
Sbjct: 60  INLFSKFGAYPVFVVDGTPSPLKSQARISRFFRSSGIDTCNLPVIKDGVSVERNKLFSEW 119

Query: 120 VQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPN 179
           V+ECVELLEL G+PVLKA GEAEALCAQLNS+G+VDACIT DSDAFLFGA CV+K I+PN
Sbjct: 120 VRECVELLELLGIPVLKANGEAEALCAQLNSQGFVDACITPDSDAFLFGAMCVIKDIKPN 179

Query: 180 TKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEI 239
           ++EPFECY +S IE+GLGLKRKHLIA+SLL+GND+D  GV GIG+D AL+ V+ FSED++
Sbjct: 180 SREPFECYHMSHIESGLGLKRKHLIAISLLVGNDYDSGGVLGIGVDKALRIVREFSEDQV 239

Query: 240 LNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEY 299
           L  L  IGNG  P   G IKS ++      E     +S HCS CGH G+KR HFK SCE+
Sbjct: 240 LERLQDIGNGLQPAVPGGIKSGDDGEEFRSEMKK--RSPHCSRCGHLGSKRTHFKSSCEH 297

Query: 300 CINDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTM 359
           C  D+  GC+KKP GF+C CS C+K+R  +EQKK  +WWIKVC KIAL   FPN +I+ +
Sbjct: 298 CGCDS--GCIKKPLGFRCECSFCSKDRDLREQKKTNDWWIKVCDKIALAPEFPNRKIIEL 355

Query: 360 YLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMAT 419
           YL  ++G  T  DG S+SWG+P T MLVD +V+   W PSY+R+ +LPMLSTIYLRE A 
Sbjct: 356 YL--SDGLMTG-DGSSMSWGTPDTGMLVDLMVFKLHWDPSYVRKMLLPMLSTIYLREKAR 412

Query: 420 NPVQ-TLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGVKYTA------------- 465
           N     LLC QYEF SI+ +K RYGHQS+V++W+K  S  SG  ++              
Sbjct: 413 NNTGYALLCDQYEFHSIKCIKTRYGHQSFVIRWRKPKST-SGYSHSHSEPEESIVVLEEE 471

Query: 466 -----PVDSDLHLEEFMEYPQIHVD-GDCWFLLTDENMKLVHSAFPKKVDHFLQENERRE 519
                P+D        +  PQ+  D GDC FLLTDE + LV SAFP + +HFL E + RE
Sbjct: 472 EESVDPLDG-------LNEPQVQNDNGDC-FLLTDECIGLVQSAFPDETEHFLHEKKLRE 523

Query: 520 LKRKRTSSLRSEESNGKLESPKSKGVQLSITEFYRSAKV----QSQEKSGADLAKDSNCQ 575
            K+K  S     E         + GVQ SIT+FYRSAK     QS E  G+  A      
Sbjct: 524 SKKKNVS-----EEETATPRATTMGVQRSITDFYRSAKKAAAGQSIETGGSSKASAEK-- 576

Query: 576 VDRISKENRRVSSPNLSKSARRRLLFN 602
                ++    SS NL+KS RRRLLF 
Sbjct: 577 ----KRQATSTSSSNLTKSVRRRLLFG 599
Endonuclease which cleaves flap structures at the junction between single-stranded DNA and double-stranded DNA.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>sp|Q64MA3|GENL1_ORYSJ Flap endonuclease GEN-like 1 OS=Oryza sativa subsp. japonica GN=RAD PE=2 SV=1 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|Q17RS7|GEN_HUMAN Flap endonuclease GEN homolog 1 OS=Homo sapiens GN=GEN1 PE=1 SV=2 Back     alignment and function description
>sp|Q29FC1|GEN_DROPS Flap endonuclease GEN OS=Drosophila pseudoobscura pseudoobscura GN=Gen PE=3 SV=1 Back     alignment and function description
>sp|Q9VRJ0|GEN_DROME Flap endonuclease GEN OS=Drosophila melanogaster GN=Gen PE=1 SV=1 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|Q9M2Z3|GENL2_ARATH Flap endonuclease GEN-like 2 OS=Arabidopsis thaliana GN=GEN2 PE=2 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|A6UX46|FEN_META3 Flap endonuclease 1 OS=Methanococcus aeolicus (strain Nankai-3 / ATCC BAA-1280) GN=fen 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 ?
Query602
255541446609 DNA binding protein, putative [Ricinus c 0.986 0.975 0.652 0.0
225453885667 PREDICTED: flap endonuclease GEN-like 1 0.995 0.898 0.610 0.0
357507117612 Flap endonuclease GEN-like protein [Medi 0.995 0.978 0.624 0.0
449454486606 PREDICTED: flap endonuclease GEN-like 1- 0.985 0.978 0.624 0.0
356532054607 PREDICTED: flap endonuclease GEN-like 1- 0.986 0.978 0.601 0.0
124360865547 Helix-hairpin-helix motif, class 2 [Medi 0.887 0.976 0.606 0.0
334182222599 5'-3' exonuclease-like protein [Arabidop 0.953 0.958 0.562 0.0
334182224598 5'-3' exonuclease-like protein [Arabidop 0.951 0.958 0.561 0.0
414590012636 TPA: hypothetical protein ZEAMMB73_81698 0.993 0.940 0.532 0.0
293334819638 uncharacterized protein LOC100383402 [Ze 0.993 0.937 0.536 1e-179
>gi|255541446|ref|XP_002511787.1| DNA binding protein, putative [Ricinus communis] gi|223548967|gb|EEF50456.1| DNA binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  815 bits (2104), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 401/615 (65%), Positives = 475/615 (77%), Gaps = 21/615 (3%)

Query: 1   MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRT 60
           MGVGGKFWD+LKPY R EG DFLR+KRVA+DLSYWIVQHETAIK +   KPHLRLTFFRT
Sbjct: 1   MGVGGKFWDILKPYTRHEGPDFLREKRVAIDLSYWIVQHETAIK-SYARKPHLRLTFFRT 59

Query: 61  INLFAKFGAFPVFVVDGTPSPLKSQARLARFYRST-IDASTLPVAEEGILVERNQTFLKC 119
           INLF+KFGAFPVFVVDGTPSPLKS+AR++RF+RS+ ID+S LP  EEG+ VERN  FLKC
Sbjct: 60  INLFSKFGAFPVFVVDGTPSPLKSRARISRFFRSSGIDSSVLPTPEEGVSVERNGAFLKC 119

Query: 120 VQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPN 179
           V+ECVELLELFGMPVLKA GEAEALCAQLNS+G VDACITADSDAFLFGAKCV+K I+PN
Sbjct: 120 VKECVELLELFGMPVLKANGEAEALCAQLNSQGLVDACITADSDAFLFGAKCVIKSIKPN 179

Query: 180 TKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQNFSEDEI 239
           +KEPFECY +SDIE+GL LKRKHLIA++LL+GNDHDLNGVQGIG+DTAL+FVQ F EDEI
Sbjct: 180 SKEPFECYQMSDIESGLALKRKHLIAIALLVGNDHDLNGVQGIGVDTALRFVQTFHEDEI 239

Query: 240 LNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEY 299
           LN L +IG G+   + G  +  E+ +    E+    K SHCSFCGHPG+KRAHFK SCEY
Sbjct: 240 LNCLREIGKGNTNIFLGVSRVVEDLMIDPHENSLKSKISHCSFCGHPGSKRAHFKSSCEY 299

Query: 300 CINDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTM 359
           C N N EGC KK   F+CNC  CNK+RK KE++K ENW IKVC K+ +E NFPND+I+ M
Sbjct: 300 CGNSNGEGCTKKSGAFRCNCGSCNKDRKAKEEQKRENWQIKVCDKMFMEPNFPNDDIIEM 359

Query: 360 YLCENNGTFTATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMAT 419
           YLC N+  FT  D   +SWGSP T+MLVDFL +H+ W PSYIRQ++LP+LSTIYLR+MA 
Sbjct: 360 YLCNNHAEFTEDDDTCLSWGSPNTDMLVDFLAFHKLWHPSYIRQRILPVLSTIYLRDMAA 419

Query: 420 NPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISG---VKYTAPVD-------- 468
            P + LL GQYEFDSI+R+K+RYGH+SYV+KWKKAA+ IS    +     +D        
Sbjct: 420 KPEKALLYGQYEFDSIQRIKVRYGHESYVIKWKKAANTISSNICINIVEELDKHQEDIVK 479

Query: 469 SDLHLEEFMEY--PQIHVDGDCWFLLTDENMKLVHSAFPKKVDHFLQENERRELKRKRTS 526
           +D  +++  EY  P+ +VD  CWFLLTDENM LV +AFP  VD FL+E E++E KR+ +S
Sbjct: 480 TDESIDQLEEYNVPKSYVDDGCWFLLTDENMDLVQNAFPDAVDKFLKEKEQKESKRRLSS 539

Query: 527 SLRSEESNGKLESPKSKGVQLSITEFYRSAKVQSQEKSGADLAKDSNCQVDRISKENRRV 586
           S        K ES KSKGVQL+ITEFYRS KVQ     G + A  S  Q D IS E R++
Sbjct: 540 STE------KSESVKSKGVQLNITEFYRSTKVQFAASGGEEQADCSENQDDVISTEKRKI 593

Query: 587 SSPNLSKSARRRLLF 601
           SS NL KS RRRLLF
Sbjct: 594 SSSNLPKSVRRRLLF 608

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225453885|ref|XP_002273159.1| PREDICTED: flap endonuclease GEN-like 1 [Vitis vinifera] gi|296089141|emb|CBI38844.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|357507117|ref|XP_003623847.1| Flap endonuclease GEN-like protein [Medicago truncatula] gi|124360235|gb|ABN08248.1| Helix-hairpin-helix motif, class 2 [Medicago truncatula] gi|355498862|gb|AES80065.1| Flap endonuclease GEN-like protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|449454486|ref|XP_004144985.1| PREDICTED: flap endonuclease GEN-like 1-like [Cucumis sativus] gi|449472478|ref|XP_004153607.1| PREDICTED: flap endonuclease GEN-like 1-like [Cucumis sativus] gi|449516535|ref|XP_004165302.1| PREDICTED: flap endonuclease GEN-like 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356532054|ref|XP_003534589.1| PREDICTED: flap endonuclease GEN-like 1-like [Glycine max] Back     alignment and taxonomy information
>gi|124360865|gb|ABN08837.1| Helix-hairpin-helix motif, class 2 [Medicago truncatula] Back     alignment and taxonomy information
>gi|334182222|ref|NP_171691.2| 5'-3' exonuclease-like protein [Arabidopsis thaliana] gi|357529503|sp|Q9LPD2.3|GENL1_ARATH RecName: Full=Flap endonuclease GEN-like 1 gi|332189224|gb|AEE27345.1| 5'-3' exonuclease-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|334182224|ref|NP_001184887.1| 5'-3' exonuclease-like protein [Arabidopsis thaliana] gi|332189225|gb|AEE27346.1| 5'-3' exonuclease-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|414590012|tpg|DAA40583.1| TPA: hypothetical protein ZEAMMB73_816984 [Zea mays] Back     alignment and taxonomy information
>gi|293334819|ref|NP_001169528.1| uncharacterized protein LOC100383402 [Zea mays] gi|224029901|gb|ACN34026.1| unknown [Zea mays] gi|414886336|tpg|DAA62350.1| TPA: hypothetical protein ZEAMMB73_316768 [Zea mays] 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 ?
Query602
UNIPROTKB|Q64MA3629 RAD "Flap endonuclease GEN-lik 0.797 0.763 0.550 5.3e-160
MGI|MGI:2443149 908 Gen1 "Gen homolog 1, endonucle 0.528 0.350 0.341 2.7e-46
UNIPROTKB|Q17RS7 908 GEN1 "Flap endonuclease GEN ho 0.516 0.342 0.330 1.8e-44
UNIPROTKB|E1B8D0 914 GEN1 "Uncharacterized protein" 0.514 0.339 0.337 2.3e-44
RGD|1559792 908 Gen1 "Gen endonuclease homolog 0.528 0.350 0.341 4.6e-44
UNIPROTKB|F1SCS5 914 GEN1 "Uncharacterized protein" 0.486 0.320 0.351 7.9e-44
UNIPROTKB|E2QU72 908 GEN1 "Uncharacterized protein" 0.528 0.350 0.335 3.3e-43
UNIPROTKB|Q29FC1 754 Gen "Flap endonuclease GEN" [D 0.485 0.387 0.299 4.5e-34
FB|FBgn0263831 726 Gen "XPG-like endonuclease" [D 0.481 0.399 0.296 2.4e-30
UNIPROTKB|E1BWF2538 Gga.42587 "Uncharacterized pro 0.373 0.418 0.322 1.2e-29
UNIPROTKB|Q64MA3 RAD "Flap endonuclease GEN-like 1" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
 Score = 1398 (497.2 bits), Expect = 5.3e-160, Sum P(2) = 5.3e-160
 Identities = 274/498 (55%), Positives = 355/498 (71%)

Query:     1 MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNS--VPKPHLRLTFF 58
             MGVGG FWDLLKPYAR EG  +LR +RVAVDLS+W+V H  AI+  S     PHLR  FF
Sbjct:     1 MGVGGSFWDLLKPYARHEGAGYLRGRRVAVDLSFWVVSHSAAIRARSPHARLPHLRTLFF 60

Query:    59 RTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYR-STIDASTLPVAE-----EGILVER 112
             RT++LF+K GAFPVFVVDG PSPLKSQ R ARF+R S +D + LP  E     + ++  R
Sbjct:    61 RTLSLFSKMGAFPVFVVDGQPSPLKSQVRAARFFRGSGMDLAALPSTEAEASADALVQPR 120

Query:   113 NQTFLKCVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCV 172
             N  F + V++CVELLE  GMPVL+AKGE EALCAQLN++G+VDACIT+DSDAFLFGAK V
Sbjct:   121 NAKFTRYVEDCVELLEYLGMPVLRAKGEGEALCAQLNNQGHVDACITSDSDAFLFGAKTV 180

Query:   173 VKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIGLDTALQFVQ 232
             +K +R N KEPFECY ++DIE+GLGLKRK ++AM+LL+G+DHDL+GV G G +TAL+FVQ
Sbjct:   181 IKVLRSNCKEPFECYNMADIESGLGLKRKQMVAMALLVGSDHDLHGVPGFGPETALRFVQ 240

Query:   233 NFSEDEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAH 292
              F ED +L  L++IG G  P       + ++  S S +S+P  +S HCS CGHPG K+ H
Sbjct:   241 LFDEDNVLAKLYEIGKGVYPFIGVSAPNIDDLPSPSTKSLPRARSPHCSHCGHPGNKKNH 300

Query:   293 FKFSCEYCINDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFP 352
              K  C +C+ D+ E C++KP GF C C  C+K R  K Q+++ENW IKVC +IA ETNFP
Sbjct:   301 IKDGCNFCLVDSLENCVEKPAGFICECPSCDKARDLKVQRRNENWQIKVCKRIAAETNFP 360

Query:   353 NDEIVTMYLCENNGTFTATDG-PSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLST 411
             N+EI+ +YL ++N      +G P ++W  P  E+LVDFL + Q W+P+YIRQ+MLPMLST
Sbjct:   361 NEEIINLYLNDDN--LDNENGVPLLTWNKPDMEILVDFLSFKQNWEPAYIRQRMLPMLST 418

Query:   412 IYLREMATNPVQT-LLCGQYEFDSIRRVKIRYGHQSYVVKWKKAA-SAISGVKYTAPVDS 469
             IYLREMA++  ++ LL  QY+F SI+R+KIRYGH  Y+VKWK+   S IS      P   
Sbjct:   419 IYLREMASSQSKSFLLYDQYKFHSIQRIKIRYGHPYYLVKWKRVTRSMISN----DPPSK 474

Query:   470 DLHLEEFMEYPQIHVDGD 487
                LE   +  ++ +DGD
Sbjct:   475 QTELEGKNDKVEV-LDGD 491
GO:0003690 "double-stranded DNA binding" evidence=IDA
GO:0003697 "single-stranded DNA binding" evidence=IDA
GO:0005634 "nucleus" evidence=IDA
GO:0009555 "pollen development" evidence=IMP
GO:0048256 "flap endonuclease activity" evidence=IDA
MGI|MGI:2443149 Gen1 "Gen homolog 1, endonuclease (Drosophila)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q17RS7 GEN1 "Flap endonuclease GEN homolog 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E1B8D0 GEN1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
RGD|1559792 Gen1 "Gen endonuclease homolog 1 (Drosophila)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1SCS5 GEN1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E2QU72 GEN1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q29FC1 Gen "Flap endonuclease GEN" [Drosophila pseudoobscura pseudoobscura (taxid:46245)] Back     alignment and assigned GO terms
FB|FBgn0263831 Gen "XPG-like endonuclease" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|E1BWF2 Gga.42587 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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) ?
Q9LPD2GENL1_ARATH3, ., 1, ., -, ., -0.56290.95340.9582yesno
Q64MA3GENL1_ORYSJ3, ., 1, ., -, ., -0.49920.96670.9252yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query602
cd09869233 cd09869, PIN_GEN1, PIN domain of Gap Endonuclease 1e-79
cd09868249 cd09868, PIN_XPG, PIN domain of Xeroderma pigmento 3e-36
cd09856207 cd09856, PIN_FEN1-like, PIN domain of Flap Endonuc 5e-32
TIGR03674338 TIGR03674, fen_arch, flap structure-specific endon 5e-25
cd09905108 cd09905, H3TH_GEN1, H3TH domain of Gap Endonucleas 6e-25
cd09870239 cd09870, PIN_YEN1, PIN domain of Yeast Endonucleas 1e-23
PRK03980292 PRK03980, PRK03980, flap endonuclease-1; Provision 5e-23
cd09867261 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease 3e-20
PTZ00217393 PTZ00217, PTZ00217, flap endonuclease-1; Provision 1e-19
cd00128209 cd00128, PIN_FEN1_EXO1-like, PIN domains of Flap E 3e-17
TIGR006001034 TIGR00600, rad2, DNA excision repair protein (rad2 1e-16
pfam0086746 pfam00867, XPG_I, XPG I-region 6e-14
smart0048473 smart00484, XPGI, Xeroderma pigmentosum G I-region 9e-14
COG0258310 COG0258, Exo, 5'-3' exonuclease (including N-termi 3e-13
smart0048599 smart00485, XPGN, Xeroderma pigmentosum G N-region 6e-13
cd09857210 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a 9e-13
TIGR00600 1034 TIGR00600, rad2, DNA excision repair protein (rad2 2e-11
cd09853163 cd09853, PIN_StructSpec-5'-nucleases, PIN domains 6e-10
pfam00752100 pfam00752, XPG_N, XPG N-terminal domain 1e-08
cd09852120 cd09852, PIN_SF, PIN (PilT N terminus) domain: Sup 3e-06
cd09869233 cd09869, PIN_GEN1, PIN domain of Gap Endonuclease 6e-06
cd0990052 cd09900, H3TH_XPG-like, H3TH domains of Flap endon 1e-05
cd0989768 cd09897, H3TH_FEN1-XPG-like, H3TH domains of Flap 1e-04
cd0990365 cd09903, H3TH_FEN1-Arc, H3TH domain of Flap Endonu 4e-04
TIGR00593 887 TIGR00593, pola, DNA polymerase I 4e-04
>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 
 Score =  250 bits (641), Expect = 1e-79
 Identities = 101/202 (50%), Positives = 127/202 (62%), Gaps = 5/202 (2%)

Query: 1   MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKKNSVPKPHLRLTFFRT 60
           MGV G  WD+L+P  + + LD L+ KRVAVDLS W+V+ +T +K   VPKPHLR  FFRT
Sbjct: 1   MGVKG-LWDILEPVKKRKPLDHLQGKRVAVDLSCWVVESQTVVKYFVVPKPHLRNLFFRT 59

Query: 61  INLFAKFGAFPVFVVDGTPSPLKSQARLARFY-RSTI-DASTLPVAEEGILVERNQTFLK 118
             L A  G  PVFVVDG   PLK    + R   +S I      P  + G    R   F  
Sbjct: 60  RYLIAL-GVLPVFVVDGAAPPLKLPVIIKRNQLQSGIAKPGDNPTPKNGSKRNRRSRFSH 118

Query: 119 CVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRP 178
            ++ECVELLEL G+P L+A GEAEALCA+LNSEG VD CIT DSDAFL+GA+ V +  + 
Sbjct: 119 VLKECVELLELLGIPCLQAAGEAEALCAELNSEGLVDGCITQDSDAFLYGARTVYRNFQM 178

Query: 179 NTK-EPFECYCISDIEAGLGLK 199
           + K    +CY +SDI++ L L 
Sbjct: 179 SEKGGYVDCYDMSDIKSKLDLS 200

Gap Endonuclease 1 (GEN1) is a Holliday junction resolvase reported to symmetrically cleave Holliday junctions and allow religation without additional processing. GEN1 is a member of the structure-specific, 5' nuclease family that catalyzes hydrolysis of DNA duplex-containing nucleic acid structures during DNA replication, repair, and recombination. These nucleases contain a PIN (PilT N terminus) domain with a helical arch/clamp region (I domain) of variable length (approximately 30 - 50 residues in GEN1 PIN domains) and a H3TH (helix-3-turn-helix) domain, an atypical helix-hairpin-helix-2-like region. Both the H3TH domain (not included here) and the helical arch/clamp region are involved in DNA binding. Nucleases within this group also have a carboxylate-rich active site that is involved in binding essential divalent metal ion cofactors (Mg2+/Mn2+). Length = 233
>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|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|234306 TIGR03674, fen_arch, flap structure-specific endonuclease 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|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|235185 PRK03980, PRK03980, flap endonuclease-1; Provisional 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|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional 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|233044 TIGR00600, rad2, DNA excision repair protein (rad2) Back     alignment and domain information
>gnl|CDD|216163 pfam00867, XPG_I, XPG I-region Back     alignment and domain information
>gnl|CDD|214689 smart00484, XPGI, Xeroderma pigmentosum G 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|214690 smart00485, XPGN, Xeroderma pigmentosum G N-region 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|233044 TIGR00600, rad2, DNA excision repair protein (rad2) 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|216098 pfam00752, XPG_N, XPG N-terminal domain Back     alignment and domain information
>gnl|CDD|189022 cd09852, PIN_SF, PIN (PilT N terminus) domain: Superfamily 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|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|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|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|233038 TIGR00593, pola, DNA polymerase I Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 602
KOG2519449 consensus 5'-3' exonuclease [Replication, recombin 100.0
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
PRK03980292 flap endonuclease-1; Provisional 100.0
KOG2518556 consensus 5'-3' exonuclease [Replication, recombin 100.0
KOG2520815 consensus 5'-3' exonuclease [Replication, recombin 100.0
TIGR006001034 rad2 DNA excision repair protein (rad2). All prote 100.0
smart00475259 53EXOc 5'-3' exonuclease. 100.0
cd00008240 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonucleas 99.97
PRK14976281 5'-3' exonuclease; Provisional 99.97
COG0258310 Exo 5'-3' exonuclease (including N-terminal domain 99.96
TIGR00593 887 pola DNA polymerase I. This family is based on the 99.94
PRK09482256 flap endonuclease-like protein; Provisional 99.94
PRK05755 880 DNA polymerase I; Provisional 99.94
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 99.9
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 99.84
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 99.83
PHA00439286 exonuclease 99.76
smart0048473 XPGI Xeroderma pigmentosum G I-region. domain in n 99.75
TIGR00600 1034 rad2 DNA excision repair protein (rad2). All prote 99.73
PHA02567304 rnh RnaseH; Provisional 99.47
PF02739169 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolv 99.46
cd0008075 HhH2_motif Helix-hairpin-helix class 2 (Pol1 famil 99.16
smart0027936 HhH2 Helix-hairpin-helix class 2 (Pol1 family) mot 98.76
PF12813246 XPG_I_2: XPG domain containing 98.73
PF01367101 5_3_exonuc: 5'-3' exonuclease, C-terminal SAM fold 98.49
PF04599425 Pox_G5: Poxvirus G5 protein; InterPro: IPR007678 P 98.03
PHA03065438 Hypothetical protein; Provisional 97.82
PF03159237 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: 97.74
COG5049 953 XRN1 5'-3' exonuclease [DNA replication, recombina 96.22
KOG2045 1493 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involve 95.79
COG5366531 Protein involved in propagation of M2 dsRNA satell 94.53
COG0353198 RecR Recombinational DNA repair protein (RecF path 88.65
KOG2044 931 consensus 5'-3' exonuclease HKE1/RAT1 [Replication 86.32
PF1282664 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS 86.01
PF0038555 Chromo: Chromo (CHRromatin Organisation MOdifier) 85.23
PRK14602203 ruvA Holliday junction DNA helicase RuvA; Provisio 85.07
TIGR00615195 recR recombination protein RecR. This family is ba 84.95
PRK00116192 ruvA Holliday junction DNA helicase RuvA; Reviewed 84.54
PRK14605194 ruvA Holliday junction DNA helicase RuvA; Provisio 83.74
TIGR00084191 ruvA Holliday junction DNA helicase, RuvA subunit. 82.84
PRK00076196 recR recombination protein RecR; Reviewed 81.67
PRK14600186 ruvA Holliday junction DNA helicase RuvA; Provisio 81.31
PRK13844200 recombination protein RecR; Provisional 80.65
>KOG2519 consensus 5'-3' exonuclease [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=8.8e-64  Score=529.84  Aligned_cols=429  Identities=31%  Similarity=0.425  Sum_probs=334.9

Q ss_pred             CCCCCcCh----hhhcccccccCccccCCCEEEEeHHHHHHHHhccccC----CCCCChHHHHHHHHHHHHHHhCCCeEE
Q 044842            1 MGVGGKFW----DLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKK----NSVPKPHLRLTFFRTINLFAKFGAFPV   72 (602)
Q Consensus         1 MGV~G~Lw----~~Lkp~~~~~~Ls~L~gk~IAIDas~wL~r~~~a~~~----~g~~~~~Lr~~f~r~l~lL~~~gI~PV   72 (602)
                      |||+| |.    ....+..+..++..|+|++||||||+||||++.+++.    .|++++||+++|+|+++++ .+||+||
T Consensus         1 MGIkg-L~~v~~d~a~~~ir~~~~~~f~~kkVAID~s~~lyqfl~~v~~~~~~~~~~~~HL~g~f~Rt~~l~-~~gi~Pv   78 (449)
T KOG2519|consen    1 MGIKG-LSKVIADVAPPCIRKNPIKFFFGKKVAIDASMWLYQFLIVVRSCRNEAGEPTSHLMGMFYRTIRLI-ENGIKPV   78 (449)
T ss_pred             CCchh-HHHHHHHhchHHhhhccHHHhcCceEEEecceeHhhHhhhhccccccCCCchHHHHHHHHHHHHHH-HcCCcEE
Confidence            99999 93    5555566778999999999999999999999999874    6789999999999999988 7999999


Q ss_pred             EEEcCCCCcchhHHHHHhhhcc-ccccccchHHHhccchhhhHHHHH-------hHHHHHHHHHHcCCCEEeccCcHHHH
Q 044842           73 FVVDGTPSPLKSQARLARFYRS-TIDASTLPVAEEGILVERNQTFLK-------CVQECVELLELFGMPVLKAKGEAEAL  144 (602)
Q Consensus        73 fVFDG~~p~~K~~t~~kR~~R~-~~~~~~~~~~k~g~~~e~~~~f~~-------~i~~~~~lL~~~GI~~i~AP~EADAq  144 (602)
                      |||||.+|.+|.++.++|..|+ +......+....|........+.+       +..+|+.||.+|||||+.||+|||||
T Consensus        79 ~VfDG~pP~lKs~e~~kR~~rr~~a~~~~~~~~e~~~~~~~~k~~~r~vkvtk~~~dEak~LL~lmGIp~i~ap~EAEAq  158 (449)
T KOG2519|consen   79 YVFDGKPPDLKSQELAKRSERRSEADKELKPAKEAGAKENMEKFFSRLVKVTKQHNDEAKRLLSLMGIPVLDAPGEAEAQ  158 (449)
T ss_pred             EEECCCCCCcchHHHHHHHHHhhhhhhhhhhHHHhhhHHHHHHHHHHHhhhcchhhHHHHHHHHHcCCeeecCCchHHHH
Confidence            9999999999999999998876 333233333333333333333333       34599999999999999999999999


Q ss_pred             HHHHHHcCCeeEEEcCCCCeEeeCCeEEEEecC--CCCCCCeEEEeHHHHHHHhCCCHHHHHHHHHHcCCCCCCCCCCcc
Q 044842          145 CAQLNSEGYVDACITADSDAFLFGAKCVVKCIR--PNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGI  222 (602)
Q Consensus       145 cA~L~~~g~vd~ViT~DSD~llfG~~~Vi~~~~--~~~k~~~~~y~~~~i~~~lgL~~~qli~laiL~G~DY~~~GipGI  222 (602)
                      ||+|++.|.|++++|+|||+|.||++.+++++.  ...+.|+.+|+++.|.+.|+|++++||+||+|+||||| ++|.||
T Consensus       159 CA~Lnk~g~V~~~at~DsD~l~fg~~~~lr~l~~s~~~~~pv~e~~~~~il~~l~l~~~~fidL~lLlGCDYc-~~I~Gi  237 (449)
T KOG2519|consen  159 CAALNKAGKVYAVATEDSDALTFGAPVKLRHLIHSLASGLPVSEYDMSRILEGLGLSRESFIDLCLLLGCDYC-PTIRGI  237 (449)
T ss_pred             HHHHhhcCceeeeeccccchhhccCHHHHHHhccchhcCCCeEEeeHHHHHHHhcccHHHHHHHHHHhcCccc-cccccc
Confidence            999999999999999999999999999999875  34567999999999999999999999999999999998 899999


Q ss_pred             cHHHHHHHHHhcCh-HHHHHHHHhhCCCCCCCCcCCccchhhhhcCCCCCCccccCCCCccCCCCCCccccccccccccc
Q 044842          223 GLDTALQFVQNFSE-DEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGTKRAHFKFSCEYCI  301 (602)
Q Consensus       223 G~ktA~~Li~~~~~-e~iL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~Cs~C~h~gs~k~h~k~gc~~C~  301 (602)
                      |+++|++||++|++ ++||+-...                                                        
T Consensus       238 g~~~al~lir~~~~i~~ile~~~~--------------------------------------------------------  261 (449)
T KOG2519|consen  238 GPKKALKLIRQHGDIENILEINSD--------------------------------------------------------  261 (449)
T ss_pred             ChHHHHHHHHHhcCHHHHhhhccc--------------------------------------------------------
Confidence            99999999999994 666652000                                                        


Q ss_pred             cCCCCCCCCCCCCCccccccchhhhhHHHHhhhhhhhHhhhcccccCCCCCCHHHHHHHhccCCCCCCCCCCCCcccCCC
Q 044842          302 NDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTMYLCENNGTFTATDGPSISWGSP  381 (602)
Q Consensus       302 ~~~~~gc~~~~~~~~c~c~~~~~~r~~k~~~~~~~~~~~~~~k~~~~~~FP~~~Vi~~yl~p~v~~~~~~~~~~~~W~~P  381 (602)
                                                +++.+..++|+.+.++++++.|.||+++++                ..+.|..|
T Consensus       262 --------------------------~~~~~ip~~w~~~~~r~~f~~p~~~~~~~~----------------~~i~w~~p  299 (449)
T KOG2519|consen  262 --------------------------LKEYPIPEDWSYKLARKLFLEPEFPNPESI----------------LDLKWKTP  299 (449)
T ss_pred             --------------------------hhhcCCCCCccHHHHHHHhcCcccCCccce----------------eecccCCC
Confidence                                      011112234555555555555555544222                47999999


Q ss_pred             CHHHHHHHHhhhCCCChhHHhhhHhhHHHhHHHhhhcCCCccccccCcccceeEEEeeecCceeeEEEEEeecccccccc
Q 044842          382 MTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIYLREMATNPVQTLLCGQYEFDSIRRVKIRYGHQSYVVKWKKAASAISGV  461 (602)
Q Consensus       382 dl~~L~~f~~~~~~W~~~~~~e~llPll~~~~l~~~~~~~~~~~~~~~~~~~~i~k~r~~~g~~~~ei~W~~~~~~~~~~  461 (602)
                      |.++|++|+....+|+.+|++..+.++++++++...+.             ..+-..++..|.|.-.-+|-++-..... 
T Consensus       300 d~~~li~fl~~~~~f~~~rv~~~~~kl~~~~~~~~qgr-------------l~~f~~~~~~~~~~~~~~~~~~~~~~~e-  365 (449)
T KOG2519|consen  300 DTEGLIQFLVGEKQFNEERVRKGIRKLKSSLKLGTQGR-------------LDSFFKRIPKGSPVRKLKLIDAKGKAEE-  365 (449)
T ss_pred             ChHHHHHHHHhhhccCHHHHhhhhHHHhhhhccccccc-------------hhhhhcccCCCCCcchhHHHHHHhhhhh-
Confidence            99999999999999999999999999999997644222             1223347777777777777777544443 


Q ss_pred             ccCCCCCcchhhhhcccCCccccCCCcceeeehhhhhHHHhhchHHHHHHHHhhhhhHHhhhccCcccccccCCcccCCC
Q 044842          462 KYTAPVDSDLHLEEFMEYPQIHVDGDCWFLLTDENMKLVHSAFPKKVDHFLQENERRELKRKRTSSLRSEESNGKLESPK  541 (602)
Q Consensus       462 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~e~~~l~~~ayp~~v~~f~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~  541 (602)
                        .++..      +..+.|++..+.++.|++|+|+..++..|||.++.+|+..|+....|.+.-+. ..    .++|...
T Consensus       366 --~~~~~------~~~~~~~~~~~~~~r~~~t~~~l~~l~~~~p~~~~~~l~~k~~~~~~~~~~~~-le----~~~~~~~  432 (449)
T KOG2519|consen  366 --VIKAL------NKKEKPKGQTGKIKRFKTTDKPLTMLPSATPLFTFIFLIPKEYPHLKTKRYLD-LE----KEVPRIF  432 (449)
T ss_pred             --ccCcc------hhhhhhccCCCccccceeecchHhhcccCCccHHHHHhhhhhcccccccchhh-hh----hccchhh
Confidence              22322      23455788889999999999999999999999999999999886554444332 11    2334666


Q ss_pred             CccccchhHHHHhhhh
Q 044842          542 SKGVQLSITEFYRSAK  557 (602)
Q Consensus       542 ~~~~~~~~~~~~~~~~  557 (602)
                      +.+.|.+++.++.|.+
T Consensus       433 ~~~~~~~~~~~~~~~~  448 (449)
T KOG2519|consen  433 NVQIEKLDAKTPWSKK  448 (449)
T ss_pred             cccccccccccccccc
Confidence            6677888887777654

>PTZ00217 flap endonuclease-1; Provisional 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
>TIGR03674 fen_arch flap structure-specific endonuclease Back     alignment and domain information
>PRK03980 flap endonuclease-1; Provisional Back     alignment and domain information
>KOG2518 consensus 5'-3' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>KOG2520 consensus 5'-3' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>TIGR00600 rad2 DNA excision repair protein (rad2) Back     alignment and domain information
>smart00475 53EXOc 5'-3' exonuclease 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
>PRK14976 5'-3' exonuclease; Provisional 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
>TIGR00593 pola DNA polymerase I 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
>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
>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
>smart00484 XPGI Xeroderma pigmentosum G I-region Back     alignment and domain information
>TIGR00600 rad2 DNA excision repair protein (rad2) 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
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif 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
>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
>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
>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
>COG5366 Protein involved in propagation of M2 dsRNA satellite of L-A virus [General function prediction only] Back     alignment and domain information
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair] 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
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B Back     alignment and domain information
>PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation Back     alignment and domain information
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>TIGR00615 recR recombination protein RecR Back     alignment and domain information
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed Back     alignment and domain information
>PRK14605 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
>PRK00076 recR recombination protein RecR; Reviewed Back     alignment and domain information
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK13844 recombination protein RecR; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query602
2izo_A346 Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex L 3e-20
1b43_A340 Fen-1 From P. Furiosus Length = 340 6e-19
1mc8_A343 Crystal Structure Of Flap Endonuclease-1 R42e Mutan 4e-17
1ul1_X379 Crystal Structure Of The Human Fen1-Pcna Complex Le 6e-17
3q8k_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 9e-17
1a76_A326 Flap Endonuclease-1 From Methanococcus Jannaschii L 1e-16
3q8m_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 8e-16
3ory_A363 Crystal Structure Of Flap Endonuclease 1 From Hyper 3e-15
1rxv_A336 Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna 1e-11
3qea_Z352 Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) 1e-06
3qe9_Y352 Crystal Structure Of Human Exonuclease 1 Exo1 (D173 8e-06
>pdb|2IZO|A Chain A, Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex Length = 346 Back     alignment and structure 
Iteration: 1

 Score = 97.1 bits (240), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 80/259 (30%), Positives = 127/259 (49%), Gaps = 31/259 (11%)
Query: 9   DLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIKK-NSVP--------KPHLRLTFFR 59
           DL+K   R      L+ KRV++D    + Q   AI++ +  P          HL   F+R
Sbjct: 2   DLVKDVKRELSFSELKGKRVSIDGYNALYQFLAAIRQPDGTPLMDSQGRVTSHLSGLFYR 61
Query: 60  TINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDAS-TLPVAE-EGILVE---RNQ 114
           TIN+  + G  P++V DG P   KS+  L R  ++  +A   L  A+ EG + E    +Q
Sbjct: 62  TINILEE-GVIPIYVFDGKPPEQKSE-ELERRRKAKEEAERKLERAKSEGKIEELRKYSQ 119
Query: 115 TFLKC----VQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLFGAK 170
             L+     V+E  +LL   G+P+++A  E EA  A LN  G   A  + D DA LFGAK
Sbjct: 120 AILRLSNIMVEESKKLLRAMGIPIVQAPSEGEAEAAYLNKLGLSWAAASQDYDAILFGAK 179
Query: 171 CVVKCIRPNTKEPF-----------ECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGV 219
            +V+ +    K              E      +   LG+ R+ LI + +LIG D++ +G+
Sbjct: 180 RLVRNLTITGKRKLPNKDVYVEIKPELIETEILLKKLGITREQLIDIGILIGTDYNPDGI 239
Query: 220 QGIGLDTALQFVQNFSEDE 238
           +GIG + AL+ ++ + + E
Sbjct: 240 RGIGPERALKIIKKYGKIE 258
>pdb|1B43|A Chain A, Fen-1 From P. Furiosus Length = 340 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|1UL1|X Chain X, Crystal Structure Of The Human Fen1-Pcna Complex Length = 379 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|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii Length = 326 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|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|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 ?
Query602
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 4e-57
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 6e-56
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 1e-54
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 2e-54
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 1e-53
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 6e-53
1b43_A340 Protein (FEN-1); nuclease, DNA repair, DNA replica 7e-53
1rxw_A336 Flap structure-specific endonuclease; helical clam 9e-52
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-07
>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
 Score =  194 bits (494), Expect = 4e-57
 Identities = 63/257 (24%), Positives = 116/257 (45%), Gaps = 23/257 (8%)

Query: 1   MGVGGKFWDLLKPYARFEGLDFLRDKRVAVDLSYWIVQHETAIK---------KNSVPKP 51
           MGV  +F D +         + L+ K+VA+D    + Q  T+I+         +      
Sbjct: 1   MGV--QFGDFIPK--NIISFEDLKGKKVAIDGMNALYQFLTSIRLRDGSPLRNRKGEITS 56

Query: 52  HLRLTFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFY-RSTIDASTLPVAEEGILV 110
                F++TI+L  +    P++V DG P  LK + R  R   +   +       ++    
Sbjct: 57  AYNGVFYKTIHLL-ENDITPIWVFDGEPPKLKEKTRKVRREMKEKAELKMKEAIKKEDFE 115

Query: 111 ERNQTFLKCV-------QECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSD 163
           E  +   +         + C  LL L G+P ++A  E EA  + +  +G V A ++ D D
Sbjct: 116 EAAKYAKRVSYLTPKMVENCKYLLSLMGIPYVEAPSEGEAQASYMAKKGDVWAVVSQDYD 175

Query: 164 AFLFGAKCVVKCIRPNTKEPFECYCISDIEAGLGLKRKHLIAMSLLIGNDHDLNGVQGIG 223
           A L+GA  VV+ +    + P E   ++++   L +    LI +++ +G D++  GV+GIG
Sbjct: 176 ALLYGAPRVVRNLTTTKEMP-ELIELNEVLEDLRISLDDLIDIAIFMGTDYNPGGVKGIG 234

Query: 224 LDTALQFVQNFSEDEIL 240
              A + V++    ++L
Sbjct: 235 FKRAYELVRSGVAKDVL 251
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus} Length = 363 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
>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
>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
>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
>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
>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
>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 ?
Query602
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
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 100.0
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 100.0
1rxw_A336 Flap structure-specific endonuclease; helical clam 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 99.98
3h7i_A305 Ribonuclease H, RNAse H; BPT4 RNAse H, 5'-3' exonu 99.73
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 98.39
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 98.21
3fqd_A 899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 97.9
3mts_A64 Histone-lysine N-methyltransferase SUV39H1; histon 93.23
1ap0_A73 Modifier protein 1; chromatin-binding, protein int 88.65
3lwe_A62 M-phase phosphoprotein 8; MPP8, structural genomic 88.24
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 86.44
1ixr_A191 Holliday junction DNA helicase RUVA; heterooligome 85.82
3f2u_A55 Chromobox protein homolog 1; human chromobox homol 85.53
1x2i_A75 HEF helicase/nuclease; alpha helix, helix-hairpin- 85.0
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 84.15
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 84.02
1q3l_A69 Heterochromatin protein 1; chromodomain, HP1, chro 83.28
1cuk_A203 RUVA protein; DNA repair, SOS response, DNA-bindin 82.92
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 81.91
1pfb_A55 Polycomb protein; chromatin, histone methylation, 81.11
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 80.39
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus} Back     alignment and structure
Probab=100.00  E-value=1.4e-58  Score=491.87  Aligned_cols=303  Identities=25%  Similarity=0.354  Sum_probs=251.4

Q ss_pred             CCCCCcChhhhc-cccccc-CccccCCCEEEEeHHHHHHHHhccccC---------CCCCChHHHHHHHHHHHHHHhCCC
Q 044842            1 MGVGGKFWDLLK-PYARFE-GLDFLRDKRVAVDLSYWIVQHETAIKK---------NSVPKPHLRLTFFRTINLFAKFGA   69 (602)
Q Consensus         1 MGV~G~Lw~~Lk-p~~~~~-~Ls~L~gk~IAIDas~wL~r~~~a~~~---------~g~~~~~Lr~~f~r~l~lL~~~gI   69 (602)
                      ||| | ||++|+ ++.+.+ +|++|+|++|||||++||||++++++.         .|.++++|+++|.|+++++ .+||
T Consensus        11 MGv-~-L~~ll~~~~~~~~~~l~~l~gk~l~IDg~~~l~r~~~~~~~~~g~~l~~~~G~~T~al~gf~~r~~~ll-~~~i   87 (363)
T 3ory_A           11 MGV-D-LKDIIPGEAKTVIEDLRILHGKIIVIDGYNALYQFLAAIRQPDGTPLMDNNGRITSHLSGLFYRTINIV-EAGI   87 (363)
T ss_dssp             CSC-C-CGGGCCGGGEEECSSGGGGTTCEEEEEHHHHHHHHHHHCBCTTSCBCBCTTSCBCHHHHHHHHHHHHHH-HTTC
T ss_pred             cCc-C-HHHHhhHhcccccCCHHHhCCCEEEEehHHHHHHHHHhhhccCCCccCCCCCCCccHHHHHHHHHHHHH-HcCC
Confidence            999 8 999999 455777 999999999999999999998887641         6888999999999999987 5899


Q ss_pred             eEEEEEcCCCCcchhHHHHHhhhccccc-cccchHHHhccchhhhHHH-------HHhHHHHHHHHHHcCCCEEeccCcH
Q 044842           70 FPVFVVDGTPSPLKSQARLARFYRSTID-ASTLPVAEEGILVERNQTF-------LKCVQECVELLELFGMPVLKAKGEA  141 (602)
Q Consensus        70 ~PVfVFDG~~p~~K~~t~~kR~~R~~~~-~~~~~~~k~g~~~e~~~~f-------~~~i~~~~~lL~~~GI~~i~AP~EA  141 (602)
                      +|+|||||.+|++|+++..+|..++... .......+.|...++...|       ..++..++++|++|||||++|||||
T Consensus        88 ~Pv~VFDg~~p~~K~~~~~~yK~~R~~~~e~l~~~~~~g~~~~a~~~~~~~~~vt~~~~~~i~~lL~~~GIp~i~apgEA  167 (363)
T 3ory_A           88 KPVYVFDGKPPELKAREIERRKAVKEEAAKKYEEAVQSGDLELARRYAMMSAKLTEEMVRDAKSLLDAMGIPWVQAPAEG  167 (363)
T ss_dssp             EEEEEECSSCGGGCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHTCCCCCCCHHHHHHHHHHHHHHTCCEEECSSCH
T ss_pred             CcEEEEcCCCccchHHHHHHHHHhhhhchHHHHHHHHcCCHHHHHHHHhccccCCHHHHHHHHHHHHHCCCCEEEeCccH
Confidence            9999999999999999888776544211 1111122334333333333       2468999999999999999999999


Q ss_pred             HHHHHHHHHcCCeeEEEcCCCCeEeeCCeEEEEecCCCCC------C-----CeEEEeHHHHHHHhCCCHHHHHHHHHHc
Q 044842          142 EALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNTK------E-----PFECYCISDIEAGLGLKRKHLIAMSLLI  210 (602)
Q Consensus       142 DAqcA~L~~~g~vd~ViT~DSD~llfG~~~Vi~~~~~~~k------~-----~~~~y~~~~i~~~lgL~~~qli~laiL~  210 (602)
                      |||||+|++.|++++|+|+|+|+|+||+++|+++++..++      +     .+++|+.+.+.+.+|++++||+++|+|+
T Consensus       168 DaqiA~La~~g~~~~I~S~D~D~l~fg~~~v~~~l~~~~~~~~p~~~~~v~~~~~~~~~~~v~~~~gl~~~q~id~~~L~  247 (363)
T 3ory_A          168 EAQAAYIVKKGDAYASASQDYDSLLFGSPKLVRNLTISGRRKLPRKNEYVEVKPELIELDKLLVQLGITLENLIDIGILL  247 (363)
T ss_dssp             HHHHHHHHHTTSCSEEECSSSHHHHTTCSEEEESTTTCEEEECSSTTCEEEECCEEEEHHHHHHHHTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCeEEEECCCcCccccCCCeEEEEeeccccccCCccccccccceEEEcHHHHHHHhCcCHHHHHHHHHHh
Confidence            9999999999999999999999999999999999875421      1     1378999999999999999999999999


Q ss_pred             CCCCCCC-CCCcccHHHHHHHHHhcCh-HHHHHHHHhhCCCCCCCCcCCccchhhhhcCCCCCCccccCCCCccCCCCCC
Q 044842          211 GNDHDLN-GVQGIGLDTALQFVQNFSE-DEILNILHKIGNGDIPQYWGDIKSTEEAVSHSDESMPMIKSSHCSFCGHPGT  288 (602)
Q Consensus       211 G~DY~~~-GipGIG~ktA~~Li~~~~~-e~iL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~Cs~C~h~gs  288 (602)
                      ||||+ | ||||||+|||++||++||+ ++|++++.                                            
T Consensus       248 GsDy~-p~GVpGIG~KtA~kLl~~~gsle~il~~~~--------------------------------------------  282 (363)
T 3ory_A          248 GTDYN-PDGFEGIGPKKALQLVKAYGGIEKIPKPIL--------------------------------------------  282 (363)
T ss_dssp             CBTTB-TTCSTTCCHHHHHHHHHHHTSSTTSCGGGC--------------------------------------------
T ss_pred             CCCCC-CCCCCCcCHHHHHHHHHHcCCHHHHHHhcc--------------------------------------------
Confidence            99997 8 9999999999999999995 33321100                                            


Q ss_pred             ccccccccccccccCCCCCCCCCCCCCccccccchhhhhHHHHhhhhhhhHhhhcccccCCCCCCHHHHHHHhccCCCCC
Q 044842          289 KRAHFKFSCEYCINDNNEGCLKKPDGFKCNCSLCNKNRKEKEQKKHENWWIKVCSKIALETNFPNDEIVTMYLCENNGTF  368 (602)
Q Consensus       289 ~k~h~k~gc~~C~~~~~~gc~~~~~~~~c~c~~~~~~r~~k~~~~~~~~~~~~~~k~~~~~~FP~~~Vi~~yl~p~v~~~  368 (602)
                                                                             +.  .-+||..+|+++|++|.|.  
T Consensus       283 -------------------------------------------------------~~--~~~~~~~~~~~~f~~p~v~--  303 (363)
T 3ory_A          283 -------------------------------------------------------KS--PIEVDVIAIKKYFLQPQVT--  303 (363)
T ss_dssp             -------------------------------------------------------CC--SSCCCHHHHHHHHHSCCCC--
T ss_pred             -------------------------------------------------------cc--cCCCCHHHHHHHhcCCCCC--
Confidence                                                                   00  0137889999999999982  


Q ss_pred             CCCCCCCcccCCCCHHHHHHHHhhhCCCChhHHhhhHhhHHHhHH
Q 044842          369 TATDGPSISWGSPMTEMLVDFLVYHQPWQPSYIRQKMLPMLSTIY  413 (602)
Q Consensus       369 ~~~~~~~~~W~~Pdl~~L~~f~~~~~~W~~~~~~e~llPll~~~~  413 (602)
                         +...|+|+.||+++|++||+++++|+++++++.|.||.+.++
T Consensus       304 ---~~~~~~w~~pd~~~l~~fl~~~~~f~~~rv~~~~~~l~~~~~  345 (363)
T 3ory_A          304 ---DNYRIEWHTPDPDAVKRILVDEHDFSIDRVSTALERYVKAFK  345 (363)
T ss_dssp             ---SCCCCCCCCCCHHHHHHHHTTTTCCCHHHHHHHHHHHHHHHH
T ss_pred             ---CCCCCCCCCCCHHHHHHHHHhccCCCHHHHHHHHHHHHHHhc
Confidence               234699999999999999999999999999999999998765
>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
>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
>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
>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
>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
>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
>3mts_A Histone-lysine N-methyltransferase SUV39H1; histone methyltransferase, histone-lysine N-methyltransferas SUV39H1, histone H3, TRI-methylation; 2.20A {Homo sapiens} Back     alignment and structure
>1ap0_A Modifier protein 1; chromatin-binding, protein interaction motif, alpha+beta; NMR {Mus musculus} SCOP: b.34.13.2 PDB: 1guw_A* Back     alignment and structure
>3lwe_A M-phase phosphoprotein 8; MPP8, structural genomics, structural genomics consortium, S repeat, nucleus, cell cycle; 2.05A {Homo sapiens} SCOP: b.34.13.0 PDB: 3r93_A* 3svm_A* 3qo2_A* 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
>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
>3f2u_A Chromobox protein homolog 1; human chromobox homolog 1, CBX1, structural genomics, struct genomics consortium, SGC, centromere, nucleus; 1.80A {Homo sapiens} PDB: 3tzd_A* 2l11_A* 3dm1_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
>1q3l_A Heterochromatin protein 1; chromodomain, HP1, chromatin, methyllysine, monomethyllysine, structural protein; HET: MLZ; 1.64A {Drosophila melanogaster} SCOP: b.34.13.2 PDB: 1kne_A* 1kna_A* 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
>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
>1pfb_A Polycomb protein; chromatin, histone methylation, polycomb, chromodomain, peptide binding protein; HET: M3L; 1.40A {Drosophila melanogaster} SCOP: b.34.13.2 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

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 602
d1ul1x2216 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuc 6e-30
d1a77a2207 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuc 1e-29
d1rxwa2217 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuc 2e-28
d1b43a2219 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuc 1e-24
>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 =  115 bits (288), Expect = 6e-30
 Identities = 62/212 (29%), Positives = 87/212 (41%), Gaps = 23/212 (10%)

Query: 8   WDLLKPYA----RFEGLDFLRDKRVAVDLSYWIVQHETAIK--------KNSVPKPHLRL 55
             L+   A    R   +     ++VA+D S  I Q   A++        +      HL  
Sbjct: 6   AKLIADVAPSAIRENDIKSYFGRKVAIDASMSIYQFLIAVRQGGDVLQNEEGETTSHLMG 65

Query: 56  TFFRTINLFAKFGAFPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAEEGILVERNQT 115
            F+RTI +  + G  PV+V DG P  LKS     R  R       L  A+     +  + 
Sbjct: 66  MFYRTIRMM-ENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEK 124

Query: 116 FLK--------CVQECVELLELFGMPVLKAKGEAEALCAQLNSEGYVDACITADSDAFLF 167
           F K           EC  LL L G+P L A  EAEA CA L   G V A  T D D   F
Sbjct: 125 FTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTF 184

Query: 168 GAKCVVKCIRPNT--KEPFECYCISDIEAGLG 197
           G+  +++ +  +   K P + + +S I   LG
Sbjct: 185 GSPVLMRHLTASEAKKLPIQEFHLSRILQELG 216
>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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query602
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
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 100.0
d1b43a1120 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 99.86
d1a77a1108 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 99.8
d1rxwa1105 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 99.74
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 99.67
d1cmwa2164 5' to 3' exonuclease domain of DNA polymerase Taq 99.39
d1tfra2169 T4 RNase H {Bacteriophage T4 [TaxId: 10665]} 98.88
d1xo1a2167 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 98.84
d1xo1a1105 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 98.78
d1cmwa1116 5' to 3' exonuclease domain of DNA polymerase Taq 98.46
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 92.81
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 91.92
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 91.78
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 91.53
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 91.18
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 90.27
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 87.61
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 84.72
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 80.94
>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=9.7e-40  Score=320.87  Aligned_cols=194  Identities=33%  Similarity=0.471  Sum_probs=147.3

Q ss_pred             CCCCcChhhhcccc----cccCccccCCCEEEEeHHHHHHHHhccccC--------CCCCChHHHHHHHHHHHHHHhCCC
Q 044842            2 GVGGKFWDLLKPYA----RFEGLDFLRDKRVAVDLSYWIVQHETAIKK--------NSVPKPHLRLTFFRTINLFAKFGA   69 (602)
Q Consensus         2 GV~G~Lw~~Lkp~~----~~~~Ls~L~gk~IAIDas~wL~r~~~a~~~--------~g~~~~~Lr~~f~r~l~lL~~~gI   69 (602)
                      ||+| ||+||++.+    +..+|++++|++||||||+|||+++++++.        .|..+.++.++|++...++ ++||
T Consensus         1 GIkg-L~~~l~~~~~~~i~~~~l~~l~gk~vaIDas~~l~~~l~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~l~-~~~I   78 (216)
T d1ul1x2           1 GIQG-LAKLIADVAPSAIRENDIKSYFGRKVAIDASMSIYQFLIAVRQGGDVLQNEEGETTSHLMGMFYRTIRMM-ENGI   78 (216)
T ss_dssp             CCTT-HHHHHHTTCTTSCCEECGGGGTTCCEEEEHHHHHHHHHSCC-------------CCHHHHHHHHHHHHHH-HTTC
T ss_pred             Ccch-HHHHHHHhCcCceEEecHHHcCCCEEEEEeHHHHHHHHHHhccccchhhccCCCCcHHHHHHHHHHHHHH-HcCC
Confidence            9998 999999864    678999999999999999999999887653        3567889999888876654 6999


Q ss_pred             eEEEEEcCCCCcchhHHHHHhhhccccccccchHHH-hccchhhhHHH-------HHhHHHHHHHHHHcCCCEEeccCcH
Q 044842           70 FPVFVVDGTPSPLKSQARLARFYRSTIDASTLPVAE-EGILVERNQTF-------LKCVQECVELLELFGMPVLKAKGEA  141 (602)
Q Consensus        70 ~PVfVFDG~~p~~K~~t~~kR~~R~~~~~~~~~~~k-~g~~~e~~~~f-------~~~i~~~~~lL~~~GI~~i~AP~EA  141 (602)
                      +|||||||.+|+.|..+..+|..++......+.... .+...+....+       ..++..++++|+.+||||++|||||
T Consensus        79 ~pifVFDG~~~~~K~~~~~~R~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ll~~~gv~~i~Ap~EA  158 (216)
T d1ul1x2          79 KPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEA  158 (216)
T ss_dssp             CEEEEECCSCCSCCCCCCCCC-----------------------------CCCCCCSCHHHHHHHHHHHTCCEEECSSCH
T ss_pred             eEEEEEcCCCCccccchhhhhhhhHHHhhhhHHhhhhcchHHHHHHhhccCeeccHHHHHHHHHHHHhcCeeeEeccchH
Confidence            999999999999999887777654422211111111 11111111111       2357889999999999999999999


Q ss_pred             HHHHHHHHHcCCeeEEEcCCCCeEeeCCeEEEEecCCCC--CCCeEEEeHHHHHHHhC
Q 044842          142 EALCAQLNSEGYVDACITADSDAFLFGAKCVVKCIRPNT--KEPFECYCISDIEAGLG  197 (602)
Q Consensus       142 DAqcA~L~~~g~vd~ViT~DSD~llfG~~~Vi~~~~~~~--k~~~~~y~~~~i~~~lg  197 (602)
                      |||||+|++.|+||+|+|+|||+|+||++.||++++..+  +.++++|++++|++.||
T Consensus       159 daq~A~L~~~g~vd~v~S~DsD~l~fG~~~vi~~~~~~~~~~~~~~~~~~~~il~~LG  216 (216)
T d1ul1x2         159 EASCAALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRILQELG  216 (216)
T ss_dssp             HHHHHHHHHHTSSSEEECSCTHHHHTTCSEEEECSSCCC-CCCCEEEEEHHHHHHHHT
T ss_pred             HHHHHHHHhcCceEEEEccccceeccCCcEEEEecccccCCCCcEEEEEHHHHHHhcC
Confidence            999999999999999999999999999999999997543  34689999999999887
>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
>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
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} 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
>d1tfra2 c.120.1.2 (A:12-180) T4 RNase H {Bacteriophage T4 [TaxId: 10665]} 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
>d1xo1a1 a.60.7.1 (A:186-290) 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
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]} 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
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} 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
>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