Citrus Sinensis ID: 017876

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----
MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANTSAPIKRKGSKCVLQSPKQEIKPRIFSLQACYSSGPKLNGGLCLLTLDLGSKHSSLLGRGVCFSA
ccccccccccHHHHHHHHHHHHHHHcccEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccEEEcccHHHHHHHHHHHcccEEEEEccccccccccccHHHHccccccccccccEEEEHHHHHHHccccHHHHHHHHHHcccccccccccccHHHHHHHHHHcccHHHHHHHHHHccccccccccHHHHHHHcccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccEcccccEcHHHHHHHHHHHHHHHcccEEEEEEcccccccccccHHHHHccHHHccHHHHHHHHcccHHHHHHHHHccHHHHHHHHHHHHHHHHHHcccEEEccccHHHHHHHHHHHccccEEEccccHHHHccccEEEEcccccEEEEcccEEEcHHHHHHHccccHHHHHHHHHHHccccccccccccHHHHHHHHHHcccHHHHHHHcccccccccccccHHHHHHHHccccccccccccEEEcccccHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccHHHcEccccccHHHHcccccccccccccccccccccccccccccccccccEEEEEEccccccccHccccEEEcc
MLTNEAGEVTSHLQGMFTRTIRLLEagmkpiyvfdgqppdlkKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLmgvpvveapseAEAQCAALCKSGQVYAVasedmdsltfgaprflrhlmdpssrkipvMEFEVAKILEELNLTMDQFIDLCIlsgcdycdsirgigGQTALKLIRQHGSIETILENINreryqipedwpyqearrlfkepevvtdeeqlqikwsapdeegLINFLVsengfnsdRVTKAIEKIKAAKnkssqgrlesffkpvantsapikrkgskcvlqspkqeikprIFSLQacyssgpklngglcLLTLDlgskhssllgrgvcfsa
mltneagevtshlqGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAveagnkediekfskrtvkvtkqhnddckRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEqlqikwsapdeeGLINFLVSENGFNSDRVTKAIEKIKaaknkssqgrlesffkpvantsapikrkgskcvlqspkqEIKPRIFSLQACYSSGPKLNGGLCLLTLDLgskhssllgrgvcfsa
MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTkaiekikaaknkSSQGRLESFFKPVANTSAPIKRKGSKCVLQSPKQEIKPRIFSLQACYSSGPKlngglclltldlgSKHSSLLGRGVCFSA
************LQGMFTRTIRLLEAGMKPIYVFD****************************************************DDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFN****************************************************IKPRIFSLQACYSSGPKLNGGLCLLTLDLGSKHSSLLGRGVC***
****E*GEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDD**********************VTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAI**********************************************************************************RGVCF**
**********SHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIK********GRLESFFKPVANTSAPIKRKGSKCVLQSPKQEIKPRIFSLQACYSSGPKLNGGLCLLTLDLGSKHSSLLGRGVCFSA
*****AGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKN****GRLESFFKPVA*************************************KLNGGLCLLTLDLGSKHSSLLGRGVCFSA
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MLTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVKVTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKILEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANTSAPIKRKGSKCVLQSPKQEIKPRIFSLQACYSSGPKLNGGLCLLTLDLGSKHSSLLGRGVCFSA
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 ?
Query364 2.2.26 [Sep-21-2011]
O65251383 Flap endonuclease 1 OS=Ar no no 0.843 0.801 0.882 1e-165
C6TEX6382 Flap endonuclease 1 OS=Gl yes no 0.843 0.803 0.876 1e-163
C5YUK3380 Flap endonuclease 1-A OS= N/A no 0.835 0.8 0.839 1e-154
B8AW67380 Flap endonuclease 1-A OS= N/A no 0.840 0.805 0.844 1e-154
B4FHY0379 Flap endonuclease 1 OS=Ze N/A no 0.835 0.802 0.839 1e-154
Q9SXQ6380 Flap endonuclease 1-A OS= yes no 0.840 0.805 0.844 1e-154
A9S0B8394 Flap endonuclease 1-A OS= N/A no 0.807 0.746 0.731 1e-134
A9U328349 Flap endonuclease 1-B OS= N/A no 0.796 0.830 0.727 1e-127
Q75LI2412 Flap endonuclease 1-B OS= no no 0.903 0.798 0.653 1e-126
B8AMS4412 Flap endonuclease 1-B OS= N/A no 0.903 0.798 0.653 1e-126
>sp|O65251|FEN1_ARATH Flap endonuclease 1 OS=Arabidopsis thaliana GN=FEN1 PE=2 SV=2 Back     alignment and function desciption
 Score =  580 bits (1495), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 271/307 (88%), Positives = 293/307 (95%)

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 SAPIKRK 307
           S P KRK
Sbjct: 353 SVPAKRK 359
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|C5YUK3|FEN11_SORBI Flap endonuclease 1-A OS=Sorghum bicolor GN=FEN1-A PE=3 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|B4FHY0|FEN1_MAIZE Flap endonuclease 1 OS=Zea mays 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|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 ?
Query364
296089863416 unnamed protein product [Vitis vinifera] 1.0 0.875 0.832 1e-180
359487708384 PREDICTED: flap endonuclease 1-like [Vit 0.843 0.799 0.889 1e-165
297812863448 hypothetical protein ARALYDRAFT_489493 [ 0.958 0.779 0.771 1e-165
42570539453 flap endonuclease-1 [Arabidopsis thalian 0.972 0.781 0.789 1e-163
356575281382 PREDICTED: flap endonuclease 1-like [Gly 0.843 0.803 0.882 1e-163
238481386383 flap endonuclease-1 [Arabidopsis thalian 0.843 0.801 0.882 1e-163
449510827382 PREDICTED: LOW QUALITY PROTEIN: flap end 0.843 0.803 0.879 1e-162
363806970382 flap endonuclease 1 [Glycine max] gi|317 0.843 0.803 0.876 1e-161
388498254366 unknown [Lotus japonicus] 0.840 0.836 0.875 1e-160
449435964377 PREDICTED: flap endonuclease 1-like [Cuc 0.829 0.801 0.884 1e-160
>gi|296089863|emb|CBI39682.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  637 bits (1643), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 303/364 (83%), Positives = 333/364 (91%)

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 SAPIKRKGSKCVLQSPKQEIKPRIFSLQACYSSGPKLNGGLCLLTLDLGSKHSSLLGRGV 360
           S PIKRK SKC+L SPK  IK +IF+ Q C  S   + G   + TL LGSKHS+ L RGV
Sbjct: 353 SIPIKRKESKCMLGSPKPIIKHKIFTQQVCIQSRRYIIGSSSMPTLGLGSKHSTPLFRGV 412

Query: 361 CFSA 364
           CF A
Sbjct: 413 CFGA 416

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359487708|ref|XP_002278964.2| PREDICTED: flap endonuclease 1-like [Vitis vinifera] 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|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|356575281|ref|XP_003555770.1| PREDICTED: flap endonuclease 1-like [Glycine max] Back     alignment and taxonomy information
>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|449510827|ref|XP_004163772.1| PREDICTED: LOW QUALITY PROTEIN: flap endonuclease 1-like [Cucumis sativus] 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|388498254|gb|AFK37193.1| unknown [Lotus japonicus] 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 ?
Query364
TAIR|locus:2146824453 AT5G26680 [Arabidopsis thalian 0.881 0.708 0.818 7.8e-142
ZFIN|ZDB-GENE-031112-11380 fen1 "flap structure-specific 0.835 0.8 0.570 3.5e-91
UNIPROTKB|P70054382 fen1-b "Flap endonuclease 1-B" 0.837 0.798 0.543 5.9e-89
RGD|621821380 Fen1 "flap structure-specific 0.837 0.802 0.530 7.5e-89
UNIPROTKB|Q5ZLN4381 FEN1 "Flap endonuclease 1" [Ga 0.835 0.797 0.532 2e-88
POMBASE|SPAC3G6.06c380 rad2 "FEN-1 endonuclease Rad2" 0.843 0.807 0.533 2.5e-88
UNIPROTKB|A4QS18394 FEN1 "Flap endonuclease 1" [Ma 0.884 0.817 0.513 5.3e-88
UNIPROTKB|Q58DH8380 FEN1 "Flap endonuclease 1" [Bo 0.837 0.802 0.537 6.7e-88
UNIPROTKB|J9PB88380 FEN1 "Flap endonuclease 1" [Ca 0.837 0.802 0.534 8.6e-88
UNIPROTKB|P39748380 FEN1 "Flap endonuclease 1" [Ho 0.837 0.802 0.534 8.6e-88
TAIR|locus:2146824 AT5G26680 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1387 (493.3 bits), Expect = 7.8e-142, P = 7.8e-142
 Identities = 266/325 (81%), Positives = 292/325 (89%)

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 SAPIKRKGSK-CVLQSPKQEIKPRI 324
             S P KRKG+  C++ S   E+ P I
Sbjct:   353 SVPAKRKGNLICLVAS---EVIPNI 374
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
UNIPROTKB|P70054 fen1-b "Flap endonuclease 1-B" [Xenopus laevis (taxid:8355)] 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
POMBASE|SPAC3G6.06c rad2 "FEN-1 endonuclease Rad2" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
UNIPROTKB|A4QS18 FEN1 "Flap endonuclease 1" [Magnaporthe oryzae 70-15 (taxid:242507)] 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|P39748 FEN1 "Flap endonuclease 1" [Homo sapiens (taxid:9606)] 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) ?
Q9N3T2FEN1_CAEEL3, ., 1, ., -, ., -0.54940.80210.7643yesno
A4S1G4FEN1_OSTLU3, ., 1, ., -, ., -0.60710.83790.7840yesno
B3RVF0FEN1_TRIAD3, ., 1, ., -, ., -0.53740.83240.8037N/Ano
Q5XIP6FEN1_RAT3, ., 1, ., -, ., -0.53090.83790.8026yesno
C3ZBT0FEN1_BRAFL3, ., 1, ., -, ., -0.57650.83510.8yesno
A9U328FEN12_PHYPA3, ., 1, ., -, ., -0.72750.79670.8309N/Ano
Q6TNU4FEN1A_DANRE3, ., 1, ., -, ., -0.57650.83510.8yesno
D3TQJ5FEN1_GLOMM3, ., 1, ., -, ., -0.55930.87080.8298N/Ano
A9S0B8FEN11_PHYPA3, ., 1, ., -, ., -0.73120.80760.7461N/Ano
C5YUK3FEN11_SORBI3, ., 1, ., -, ., -0.83980.83510.8N/Ano
P39750FEN1_SCHPO3, ., 1, ., -, ., -0.54010.84340.8078yesno
C6TEX6FEN1_SOYBN3, ., 1, ., -, ., -0.87620.84340.8036yesno
Q013G9FEN1_OSTTA3, ., 1, ., -, ., -0.58110.83790.7840yesno
B1H158FEN1_XENTR3, ., 1, ., -, ., -0.55700.83790.7984yesno
Q5ZLN4FEN1_CHICK3, ., 1, ., -, ., -0.52760.83790.8005yesno
B4FHY0FEN1_MAIZE3, ., 1, ., -, ., -0.83980.83510.8021N/Ano
Q7Q323FEN1_ANOGA3, ., 1, ., -, ., -0.58490.83510.7937yesno
C8BKD0FEN1_SHEEP3, ., 1, ., -, ., -0.53090.83790.8026N/Ano
C1E3X9FEN1_MICSR3, ., 1, ., -, ., -0.57320.83790.7942yesno
Q9SXQ6FEN11_ORYSJ3, ., 1, ., -, ., -0.84410.84060.8052yesno
Q5B9L6FEN1_EMENI3, ., 1, ., -, ., -0.52710.84060.7746yesno
O65251FEN1_ARATH3, ., 1, ., -, ., -0.88270.84340.8015nono
P39748FEN1_HUMAN3, ., 1, ., -, ., -0.53420.83790.8026yesno
P39749FEN1_MOUSE3, ., 1, ., -, ., -0.53420.83240.8015yesno
B8AW67FEN11_ORYSI3, ., 1, ., -, ., -0.84410.84060.8052N/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

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 ?
Query364
PTZ00217393 PTZ00217, PTZ00217, flap endonuclease-1; Provision 1e-170
PRK03980292 PRK03980, PRK03980, flap endonuclease-1; Provision 1e-116
TIGR03674338 TIGR03674, fen_arch, flap structure-specific endon 1e-109
cd09867261 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease 1e-102
COG0258310 COG0258, Exo, 5'-3' exonuclease (including N-termi 6e-60
cd00128209 cd00128, PIN_FEN1_EXO1-like, PIN domains of Flap E 4e-56
cd0990770 cd09907, H3TH_FEN1-Euk, H3TH domain of Flap Endonu 8e-43
cd09868249 cd09868, PIN_XPG, PIN domain of Xeroderma pigmento 1e-34
cd09853163 cd09853, PIN_StructSpec-5'-nucleases, PIN domains 3e-34
cd0990173 cd09901, H3TH_FEN1-like, H3TH domains of Flap endo 5e-33
smart0048473 smart00484, XPGI, Xeroderma pigmentosum G I-region 5e-31
cd09856207 cd09856, PIN_FEN1-like, PIN domain of Flap Endonuc 3e-28
cd0989768 cd09897, H3TH_FEN1-XPG-like, H3TH domains of Flap 4e-26
cd09869233 cd09869, PIN_GEN1, PIN domain of Gap Endonuclease 3e-24
cd09857210 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a 5e-22
cd09867261 cd09867, PIN_FEN1, PIN domain of Flap Endonuclease 8e-22
pfam0086746 pfam00867, XPG_I, XPG I-region 4e-21
smart0048599 smart00485, XPGN, Xeroderma pigmentosum G N-region 3e-18
cd09870239 cd09870, PIN_YEN1, PIN domain of Yeast Endonucleas 5e-17
TIGR006001034 TIGR00600, rad2, DNA excision repair protein (rad2 7e-16
cd0008071 cd00080, H3TH_StructSpec-5'-nucleases, H3TH domain 1e-15
pfam00752100 pfam00752, XPG_N, XPG N-terminal domain 4e-15
cd0990365 cd09903, H3TH_FEN1-Arc, H3TH domain of Flap Endonu 8e-14
cd0990873 cd09908, H3TH_EXO1, H3TH domain of Exonuclease-1, 2e-13
smart00475259 smart00475, 53EXOc, 5'-3' exonuclease 3e-11
TIGR00593 887 TIGR00593, pola, DNA polymerase I 3e-11
cd09852120 cd09852, PIN_SF, PIN (PilT N terminus) domain: Sup 4e-11
cd09858215 cd09858, PIN_MKT1, PIN domain of Mkt1: A global re 3e-10
cd0990052 cd09900, H3TH_XPG-like, H3TH domains of Flap endon 3e-09
PRK05755 880 PRK05755, PRK05755, DNA polymerase I; Provisional 1e-08
TIGR00600 1034 TIGR00600, rad2, DNA excision repair protein (rad2 4e-08
smart0027936 smart00279, HhH2, Helix-hairpin-helix class 2 (Pol 7e-08
cd0989873 cd09898, H3TH_53EXO, H3TH domain of the 5'-3' exon 4e-07
pfam01367100 pfam01367, 5_3_exonuc, 5'-3' exonuclease, C-termin 5e-07
PRK14976281 PRK14976, PRK14976, 5'-3' exonuclease; Provisional 1e-05
cd0990497 cd09904, H3TH_XPG, H3TH domain of Xeroderma pigmen 8e-05
cd0990281 cd09902, H3TH_MKT1, H3TH domain of Mkt1: A global 4e-04
cd09905108 cd09905, H3TH_GEN1, H3TH domain of Gap Endonucleas 0.003
>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional Back     alignment and domain information 
 Score =  480 bits (1237), Expect = e-170
 Identities = 183/336 (54%), Positives = 244/336 (72%), Gaps = 2/336 (0%)

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 EQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANTS 301
           E++ +KW+ PDEEGL  FLV E  FN +RV K IE++K AK K +Q RL+SFF       
Sbjct: 294 EEIDLKWNEPDEEGLKKFLVKEKNFNEERVEKYIERLKKAKTKKTQTRLDSFFTATKKPI 353

Query: 302 API-KRKGSKCVLQSPKQEIKPRIFSLQACYSSGPK 336
                +   K   +       P+  + Q   SSG K
Sbjct: 354 KKSNSKAKLKKKKKKAGASAVPKSETSQEAKSSGKK 389

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|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|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|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|233044 TIGR00600, rad2, DNA excision repair protein (rad2) 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|216098 pfam00752, XPG_N, XPG N-terminal domain 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|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|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|189022 cd09852, PIN_SF, PIN (PilT N terminus) domain: Superfamily 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|233044 TIGR00600, rad2, DNA excision repair protein (rad2) 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|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 364
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
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
KOG2518 556 consensus 5'-3' exonuclease [Replication, recombin 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 99.95
PHA02567304 rnh RnaseH; Provisional 99.92
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 99.91
PF02739169 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolv 99.91
smart0048473 XPGI Xeroderma pigmentosum G I-region. domain in n 99.79
cd0008075 HhH2_motif Helix-hairpin-helix class 2 (Pol1 famil 99.58
PF01367101 5_3_exonuc: 5'-3' exonuclease, C-terminal SAM fold 99.53
smart0027936 HhH2 Helix-hairpin-helix class 2 (Pol1 family) mot 99.21
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 98.78
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 98.75
PF12813246 XPG_I_2: XPG domain containing 98.74
TIGR00600 1034 rad2 DNA excision repair protein (rad2). All prote 98.54
COG5366 531 Protein involved in propagation of M2 dsRNA satell 96.26
TIGR00084191 ruvA Holliday junction DNA helicase, RuvA subunit. 95.8
PF1282664 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS 95.68
KOG2045 1493 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involve 95.57
PRK00116192 ruvA Holliday junction DNA helicase RuvA; Reviewed 95.26
PF03159237 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: 95.12
COG5049 953 XRN1 5'-3' exonuclease [DNA replication, recombina 94.35
PRK14671621 uvrC excinuclease ABC subunit C; Provisional 92.89
PRK14600186 ruvA Holliday junction DNA helicase RuvA; Provisio 92.82
PRK14605194 ruvA Holliday junction DNA helicase RuvA; Provisio 92.45
TIGR00194574 uvrC excinuclease ABC, C subunit. This family cons 91.55
PRK14667567 uvrC excinuclease ABC subunit C; Provisional 91.5
PF1452060 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU 91.25
PRK14670574 uvrC excinuclease ABC subunit C; Provisional 91.14
PRK14669624 uvrC excinuclease ABC subunit C; Provisional 91.08
KOG2044 931 consensus 5'-3' exonuclease HKE1/RAT1 [Replication 91.02
COG0632201 RuvA Holliday junction resolvasome, DNA-binding su 90.93
PRK14606188 ruvA Holliday junction DNA helicase RuvA; Provisio 90.79
PRK14604195 ruvA Holliday junction DNA helicase RuvA; Provisio 90.23
PRK13901196 ruvA Holliday junction DNA helicase RuvA; Provisio 90.11
PRK14601183 ruvA Holliday junction DNA helicase RuvA; Provisio 90.04
PRK14603197 ruvA Holliday junction DNA helicase RuvA; Provisio 89.98
PF0063330 HHH: Helix-hairpin-helix motif; InterPro: IPR00044 89.84
PF1039152 DNA_pol_lambd_f: Fingers domain of DNA polymerase 89.32
PRK14672691 uvrC excinuclease ABC subunit C; Provisional 88.96
PRK14602203 ruvA Holliday junction DNA helicase RuvA; Provisio 87.36
PF04599425 Pox_G5: Poxvirus G5 protein; InterPro: IPR007678 P 86.22
PRK00558598 uvrC excinuclease ABC subunit C; Validated 85.32
PRK14668577 uvrC excinuclease ABC subunit C; Provisional 85.21
PRK14666694 uvrC excinuclease ABC subunit C; Provisional 84.65
PRK12766232 50S ribosomal protein L32e; Provisional 84.44
PF0237187 Transposase_20: Transposase IS116/IS110/IS902 fami 83.83
smart0027826 HhH1 Helix-hairpin-helix DNA-binding motif class 1 83.22
TIGR01448 720 recD_rel helicase, putative, RecD/TraA family. Thi 82.84
COG0322581 UvrC Nuclease subunit of the excinuclease complex 81.8
PHA03065438 Hypothetical protein; Provisional 81.06
>PTZ00217 flap endonuclease-1; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1e-75  Score=585.36  Aligned_cols=299  Identities=59%  Similarity=1.008  Sum_probs=286.3

Q ss_pred             CcCCCCCchhHHHHHHHHHHHHHHcCCCcEEEEeCCCCchhhHHHHHHHhhhhhchHHHHHHHHcCCHHHHHHHhccccc
Q 017876            2 LTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVK   81 (364)
Q Consensus         2 L~~~~G~~Tsal~G~~~r~~~ll~~gi~Pv~VFDG~~p~~K~~~~~~rk~~R~~~~~~l~~a~~~g~~~~~~k~~~r~~~   81 (364)
                      |+|++|++|+||+||++|+++|+++||+|+|||||.+|++|++++++|+++|+++++.+.++.+.|+.+++.++++|+++
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             cchhhHHHHHHHHHhcCCCEEeccCcHHHHHHHHHHcCCeEEEecCCCcccccccCeeEEEeecCCCCCCccEEEeHHHH
Q 017876           82 VTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKI  161 (364)
Q Consensus        82 vt~~~~~~ik~lL~~~GIp~i~APgEADaq~A~L~~~g~v~~ViS~DsD~l~fg~~~vi~~l~~~~~~~~~v~~~~~~~v  161 (364)
                      ||++|++.++++|+.||||||+||||||||||+|++.|++++|+|+|+|+|+||++.++++++..+..+.++++|+.+.+
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            99999999999999999999999999999999999999999999999999999999999988754444556889999999


Q ss_pred             HHHcCCCHHHHHHHHHHhCCCCCCCCCCccHHHHHHHHHHcCCHHHHHHHHHhccCCCCCCcchHHHHHHhCCCCcCCcc
Q 017876          162 LEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDE  241 (364)
Q Consensus       162 ~e~lgl~~~qfidl~iL~G~Dy~d~IpGIG~ktA~kLik~~gsle~il~~l~~~k~~i~e~~~~~~~~~lf~~p~V~~~~  241 (364)
                      ++.+|++++||+|+|+|+||||++||||||||||++||++||++|+|+++++..++.+|++|++.+++.+|++|.|+.+.
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            99999999999999999999999999999999999999999999999999999899999999999999999999999766


Q ss_pred             ccccCCCCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHhhhccCCCCCcccccCcccCCC
Q 017876          242 EQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFKPVANTS  301 (364)
Q Consensus       242 ~~~~l~~~~pd~e~L~~fl~~e~~f~~~rv~~~l~~l~~~~~~~~Q~rld~ff~~~~~~~  301 (364)
                      ++ +|+|++||.++|++||+++++|+++||++.++||.++..+.+|+|||+||++.+++.
T Consensus       295 ~~-~l~w~~pD~~~l~~fl~~e~~f~~~rv~~~i~rl~~~~~~~~Q~~l~~ff~~~~~~~  353 (393)
T PTZ00217        295 EI-DLKWNEPDEEGLKKFLVKEKNFNEERVEKYIERLKKAKTKKTQTRLDSFFTATKKPI  353 (393)
T ss_pred             CC-CCCCCCCCHHHHHHHHHhccCCCHHHHHHHHHHHHHHhccCccCCHHHhcCCCCCcc
Confidence            66 799999999999999999999999999999999999988889999999999987753

>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
>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
>KOG2518 consensus 5'-3' exonuclease [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
>PHA02567 rnh RnaseH; 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
>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
>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
>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
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed 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
>PRK14671 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>TIGR00194 uvrC excinuclease ABC, C subunit Back     alignment and domain information
>PRK14667 uvrC excinuclease ABC subunit C; 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
>PRK14670 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14669 uvrC excinuclease ABC subunit C; Provisional 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
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional 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
>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
>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
>PRK14672 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional 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
>PRK00558 uvrC excinuclease ABC subunit C; Validated Back     alignment and domain information
>PRK14668 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK14666 uvrC excinuclease ABC subunit C; Provisional Back     alignment and domain information
>PRK12766 50S ribosomal protein L32e; 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
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1 Back     alignment and domain information
>TIGR01448 recD_rel helicase, putative, RecD/TraA family Back     alignment and domain information
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair] Back     alignment and domain information
>PHA03065 Hypothetical protein; 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 ?
Query364
1ul1_X379 Crystal Structure Of The Human Fen1-Pcna Complex Le 2e-92
3q8k_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 8e-88
3q8m_A341 Crystal Structure Of Human Flap Endonuclease Fen1 ( 5e-87
1mc8_A343 Crystal Structure Of Flap Endonuclease-1 R42e Mutan 1e-55
1b43_A340 Fen-1 From P. Furiosus Length = 340 3e-54
2izo_A346 Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex L 3e-52
1a76_A326 Flap Endonuclease-1 From Methanococcus Jannaschii L 6e-52
3ory_A363 Crystal Structure Of Flap Endonuclease 1 From Hyper 6e-52
1rxv_A336 Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna 3e-45
3qea_Z352 Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) 2e-15
3qe9_Y352 Crystal Structure Of Human Exonuclease 1 Exo1 (D173 2e-14
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 =  335 bits (860), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 164/307 (53%), Positives = 224/307 (72%), Gaps = 2/307 (0%)
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 SAPIKRK 307
            +  KRK
Sbjct: 349 LSSAKRK 355
>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|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii Length = 326 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
>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 ?
Query364
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 1e-133
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 1e-131
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-119
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 1e-117
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 9e-90
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-04
1exn_A290 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Ent 1e-07
1bgx_T 832 TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi 4e-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 =  385 bits (991), Expect = e-133
 Identities = 162/318 (50%), Positives = 230/318 (72%), Gaps = 1/318 (0%)

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 SAPIKRKGSKCVLQSPKQ 318
           S+  +++         K 
Sbjct: 350 SSAKRKEPEPKGSTKKKA 367
>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 ?
Query364
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 100.0
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 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 99.96
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 97.62
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 97.47
3fqd_A 899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 96.95
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 96.71
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 96.27
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 94.97
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 94.94
1x2i_A75 HEF helicase/nuclease; alpha helix, helix-hairpin- 94.93
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 94.49
2nrt_A220 Uvrabc system protein C; UVRC, endonuclease, RNAse 94.16
3c65_A226 Uvrabc system protein C; UVRC, endonuclease, nucle 91.27
2bgw_A219 XPF endonuclease; hydrolase, structure specific en 88.61
2ztd_A212 Holliday junction ATP-dependent DNA helicase RUVA; 87.79
1ixr_A191 Holliday junction DNA helicase RUVA; heterooligome 86.98
4gfj_A685 Topoisomerase V; helix-hairpin-helix, DNA repair e 86.24
1cuk_A203 RUVA protein; DNA repair, SOS response, DNA-bindin 83.75
>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
Probab=100.00  E-value=5.2e-72  Score=549.59  Aligned_cols=290  Identities=53%  Similarity=0.977  Sum_probs=276.4

Q ss_pred             CcCCCCCchhHHHHHHHHHHHHHHcCCCcEEEEeCCCCchhhHHHHHHHhhhhhchHHHHHHHHcCCHHHHHHHhccccc
Q 017876            2 LTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVK   81 (364)
Q Consensus         2 L~~~~G~~Tsal~G~~~r~~~ll~~gi~Pv~VFDG~~p~~K~~~~~~rk~~R~~~~~~l~~a~~~g~~~~~~k~~~r~~~   81 (364)
                      |+|++|++|+|++||++|+++|++++++|+|||||.+|++|++++++||++|+++.+.+.+|++.|+++++.+|++|+++
T Consensus        52 l~~~~G~~T~al~g~~~~~~~ll~~~i~P~~VFDg~~~~~r~~~~~~yk~~R~~~~~~~~~a~r~~~pe~l~~~~~~~~~  131 (341)
T 3q8k_A           52 LQNEEGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVK  131 (341)
T ss_dssp             CBCTTSCBCHHHHHHHHHHHHHHTTTCEEEEEECCCCCGGGHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHTCC
T ss_pred             CCCCCCCCchHHHHHHHHHHHHHHCCCCceEEEeCCCcccchhhhHHHHHHHhHhHHHHHHHHhcCCHHHHHHHHhhccc
Confidence            78999999999999999999999989999999999999999999999999999999999999999999999999999999


Q ss_pred             cchhhHHHHHHHHHhcCCCEEeccCcHHHHHHHHHHcCCeEEEecCCCcccccccCeeEEEeecCCCCCCccEEEeHHHH
Q 017876           82 VTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKI  161 (364)
Q Consensus        82 vt~~~~~~ik~lL~~~GIp~i~APgEADaq~A~L~~~g~v~~ViS~DsD~l~fg~~~vi~~l~~~~~~~~~v~~~~~~~v  161 (364)
                      ||++|++.++++|++|||||++||||||||||+|++.|.+++|+|+|+|+|||++++|++++..+..++.++..|+.+.+
T Consensus       132 vt~~q~~~~~~lL~~~gip~i~ap~EADd~ia~La~~g~v~~i~s~D~D~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~v  211 (341)
T 3q8k_A          132 VTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRI  211 (341)
T ss_dssp             CCHHHHHHHHHHHHHHTCCEEECSSCHHHHHHHHHHTTSSSEEECSCTHHHHTTCSEEEESCCCCSSCCCEEEEEEHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCEEECCccHHHHHHHHHhcCCeEEEEcCCccccccCCcEEEEcccccccCCCceEEEcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999998887544334456789999999


Q ss_pred             HHHcCCCHHHHHHHHHHhCCCCCCCCCCccHHHHHHHHHHcCCHHHHHHHHHhccCCCCCCcchHHHHHHhCCCCcCCcc
Q 017876          162 LEELNLTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQEARRLFKEPEVVTDE  241 (364)
Q Consensus       162 ~e~lgl~~~qfidl~iL~G~Dy~d~IpGIG~ktA~kLik~~gsle~il~~l~~~k~~i~e~~~~~~~~~lf~~p~V~~~~  241 (364)
                      ++++|++|+||+|+|+|+||||+|||||||||||++||++|||+|+|++++++.+.++|++|++.+++.+|++|.|+++.
T Consensus       212 ~~~~gl~~~q~id~~~L~G~D~~~gipGiG~KtA~kll~~~gsle~i~~~~~~~k~~~~~~~~~~~~r~l~l~~~V~~~~  291 (341)
T 3q8k_A          212 LQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWLHKEAHQLFLEPEVLDPE  291 (341)
T ss_dssp             HHHHTCCHHHHHHHHHHHCCSSSCCCTTCCHHHHHHHHHHHCSHHHHHHHSCTTTSCCCTTCCHHHHHHHHHSCCCCCTT
T ss_pred             HHHhCCCHHHHHHHHHhcCCCCCCCCCCccHHHHHHHHHHcCCHHHHHHHHHhcCCCCCcccchHHHHHHhCCCCCCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999998766


Q ss_pred             ccccCCCCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHhhhccCCCCCcccccC
Q 017876          242 EQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSSQGRLESFFK  295 (364)
Q Consensus       242 ~~~~l~~~~pd~e~L~~fl~~e~~f~~~rv~~~l~~l~~~~~~~~Q~rld~ff~  295 (364)
                      + .+|.|.+||.++|++||+++++|+++||+++++||.++.+   |++||+||.
T Consensus       292 ~-~~l~~~~pd~~~l~~fl~~~~~f~~~rv~~~~~~l~~~~~---~~~l~~~~~  341 (341)
T 3q8k_A          292 S-VELKWSEPNEEELIKFMCGEKQFSEERIRSGVKRLSKSRQ---GSTLEVLFQ  341 (341)
T ss_dssp             T-SCCCCCCCCHHHHHHHHTTTTCCCHHHHHHHHHHHHHHHH---HHCCCCCCC
T ss_pred             c-cccCCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhc---cCcHhhhcC
Confidence            6 4899999999999999999999999999999999999875   999999994
>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
>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
>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
>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
>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
>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
>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

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 364
d1ul1x1140 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nu 4e-47
d1ul1x2216 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuc 9e-47
d1b43a1120 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nu 4e-44
d1a77a2207 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuc 8e-44
d1rxwa2217 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuc 3e-43
d1b43a2219 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuc 3e-42
d1a77a1108 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nu 2e-35
d1rxwa1105 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nu 2e-33
d1cmwa1116 a.60.7.1 (A:174-289) 5' to 3' exonuclease domain o 3e-06
d1xo1a1105 a.60.7.1 (A:186-290) T5 5'-exonuclease {Bacterioph 1e-05
d1kfta_56 a.60.2.3 (A:) Excinuclease UvrC C-terminal domain 0.002
d1x2ia168 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF201 0.003
>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

class: All alpha proteins
fold: SAM domain-like
superfamily: 5' to 3' exonuclease, C-terminal subdomain
family: 5' to 3' exonuclease, C-terminal subdomain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  154 bits (391), Expect = 4e-47
 Identities = 64/141 (45%), Positives = 98/141 (69%), Gaps = 2/141 (1%)

Query: 167 LTMDQFIDLCILSGCDYCDSIRGIGGQTALKLIRQHGSIETILENINRERYQIPEDWPYQ 226
           L  +QF+DLCIL G DYC+SIRGIG + A+ LI++H SIE I+  ++  +Y +PE+W ++
Sbjct: 1   LNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWLHK 60

Query: 227 EARRLFKEPEVVTDEEQLQIKWSAPDEEGLINFLVSENGFNSDRVTKAIEKIKAAKNKSS 286
           EA +LF EPE V D E +++KWS P+EE LI F+  E  F+ +R+   ++++  ++  S+
Sbjct: 61  EAHQLFLEPE-VLDPESVELKWSEPNEEELIKFMCGEKQFSEERIRSGVKRLSKSRQGST 119

Query: 287 QGRLESFFKPVANTSAPIKRK 307
           QGRL+ FFK V  + +  KRK
Sbjct: 120 QGRLDDFFK-VTGSLSSAKRK 139
>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
>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
>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
>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 ?
Query364
d1ul1x2216 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 100.0
d1rxwa2217 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 100.0
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 100.0
d1a77a2207 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 99.98
d1b43a1120 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 99.97
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 99.97
d1a77a1108 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 99.94
d1rxwa1105 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 99.94
d1cmwa2164 5' to 3' exonuclease domain of DNA polymerase Taq 99.83
d1xo1a2167 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 99.65
d1cmwa1116 5' to 3' exonuclease domain of DNA polymerase Taq 99.63
d1tfra2169 T4 RNase H {Bacteriophage T4 [TaxId: 10665]} 99.59
d1xo1a1105 T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726] 99.3
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 96.87
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 96.59
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 96.39
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 96.14
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 95.37
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 95.19
d1pzna161 DNA repair protein Rad51, N-terminal domain {Archa 94.47
d2bcqa257 DNA polymerase lambda {Human (Homo sapiens) [TaxId 92.86
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 92.28
d1jmsa360 Terminal deoxynucleotidyl transferase {Mouse (Mus 92.15
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 92.03
d2fmpa257 DNA polymerase beta {Human (Homo sapiens) [TaxId: 90.43
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 89.73
d1dgsa1181 NAD+-dependent DNA ligase, domain 3 {Thermus filif 87.74
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 86.27
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 85.27
d2csba355 Topoisomerase V {Methanopyrus kandleri [TaxId: 232 82.24
>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=4.1e-34  Score=260.94  Aligned_cols=165  Identities=61%  Similarity=1.030  Sum_probs=122.8

Q ss_pred             CcCCCCCchhHHHHHHHHHHHHHHcCCCcEEEEeCCCCchhhHHHHHHHhhhhhchHHHHHHHHcCCHHHHHHHhccccc
Q 017876            2 LTNEAGEVTSHLQGMFTRTIRLLEAGMKPIYVFDGQPPDLKKQELAKRYSKRADATDDLAEAVEAGNKEDIEKFSKRTVK   81 (364)
Q Consensus         2 L~~~~G~~Tsal~G~~~r~~~ll~~gi~Pv~VFDG~~p~~K~~~~~~rk~~R~~~~~~l~~a~~~g~~~~~~k~~~r~~~   81 (364)
                      |.+..|.++.++.+++.++..|+++||+|||||||.+|+.|.++..+|+..|.++.+.+..+.+.++..++.++.++...
T Consensus        52 l~~~~~~~~~~l~~~~~~~~~l~~~~I~pifVFDG~~~~~K~~~~~~R~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (216)
T d1ul1x2          52 LQNEEGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVK  131 (216)
T ss_dssp             -------CCHHHHHHHHHHHHHHHTTCCEEEEECCSCCSCCCCCCCCC-----------------------------CCC
T ss_pred             hhccCCCCcHHHHHHHHHHHHHHHcCCeEEEEEcCCCCccccchhhhhhhhHHHhhhhHHhhhhcchHHHHHHhhccCee
Confidence            45678899999999999999999999999999999999999999999999999998888888889999999999999999


Q ss_pred             cchhhHHHHHHHHHhcCCCEEeccCcHHHHHHHHHHcCCeEEEecCCCcccccccCeeEEEeecCCCCCCccEEEeHHHH
Q 017876           82 VTKQHNDDCKRLLKLMGVPVVEAPSEAEAQCAALCKSGQVYAVASEDMDSLTFGAPRFLRHLMDPSSRKIPVMEFEVAKI  161 (364)
Q Consensus        82 vt~~~~~~ik~lL~~~GIp~i~APgEADaq~A~L~~~g~v~~ViS~DsD~l~fg~~~vi~~l~~~~~~~~~v~~~~~~~v  161 (364)
                      +|..++..++++|+.+||||++||||||+|||+|+++|.|++|+|+|||+|+||++.|++++...+.++.++++|+++++
T Consensus       132 i~~~~~~~~~~ll~~~gv~~i~Ap~EAdaq~A~L~~~g~vd~v~S~DsD~l~fG~~~vi~~~~~~~~~~~~~~~~~~~~i  211 (216)
T d1ul1x2         132 VTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRI  211 (216)
T ss_dssp             CCCSCHHHHHHHHHHHTCCEEECSSCHHHHHHHHHHHTSSSEEECSCTHHHHTTCSEEEECSSCCC-CCCCEEEEEHHHH
T ss_pred             ccHHHHHHHHHHHHhcCeeeEeccchHHHHHHHHHhcCceEEEEccccceeccCCcEEEEecccccCCCCcEEEEEHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998766556678999999999


Q ss_pred             HHHcC
Q 017876          162 LEELN  166 (364)
Q Consensus       162 ~e~lg  166 (364)
                      ++.+|
T Consensus       212 l~~LG  216 (216)
T d1ul1x2         212 LQELG  216 (216)
T ss_dssp             HHHHT
T ss_pred             HHhcC
Confidence            99987
>d1rxwa2 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} 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
>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
>d2bcqa2 a.60.12.1 (A:329-385) DNA polymerase lambda {Human (Homo sapiens) [TaxId: 9606]} 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
>d1jmsa3 a.60.12.1 (A:243-302) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} 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
>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