YRC Public Data Repository - Protein Structure Prediction

Protein:	YEN1
Organism:	Saccharomyces cerevisiae
Length:	759 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for YEN1.

Description	E-value	Query Range	Subject Range
YEN1 - Holliday junction resolvase; localization is cell-cycle dependent and regulated by Cdc28p phosphoryl... gi\|6320880\|ref\|N... - Holliday junction resolvase; localization is cell-cycle dependent and regulated by Cdc28p phosphoryl...	0.0	[1..759]	[1..759]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	2.0E-74	[1..399]	[1..358]
gi\|15778123 - gi\|15778123\|dbj\|BAB68507.1\| FEN-1 nuclease [Gallus gallus]	3.0E-72	[1..409]	[1..333]
Fen1-PA - The gene Flap endonuclease 1 is referred to in FlyBase by the symbol Dmel\Fen1 (CG8648, FBgn0025832)...	1.0E-69	[1..421]	[1..345]
gi\|26337949, gi\|... - gi\|74185061\|dbj\|BAE39135.1\| unnamed protein product [Mus musculus], gi\|74150381\|dbj\|BAE32236.1\| unna...	1.0E-69	[1..409]	[1..333]
FEN11_ORYSJ - Flap endonuclease 1-A OS=Oryza sativa subsp. japonica GN=FEN-1a PE=2 SV=1 FEN1A_ORYSA - Flap endonuclease 1a (EC 3.1.-.-) (OsFEN-1a) - Oryza sativa (Rice)	2.0E-68	[1..387]	[1..348]
DPO1_STRR6 - DNA polymerase I OS=Streptococcus pneumoniae (strain ATCC BAA-255 / R6) GN=polA PE=3 SV=1 gi\|25288534 - pir\|\|H97875 DNA-directed DNA polymerase (EC 2.7.7.7) I [imported] - Streptococcus pneumoniae (strain... gi\|116077230, gi... - gi\|116516654\|ref\|YP_815461.1\| DNA polymerase I [Streptococcus pneumoniae D39], gi\|116077230\|gb\|ABJ54...	3.0E-68	[69..491]	[6..400]
gi\|2674207, gi\|1... - gi\|2674207\|gb\|AAB88707.1\| flap endonuclease 1 [Xenopus laevis], gi\|115528353\|gb\|AAI24978.1\| Fen1-A p...	4.0E-68	[1..409]	[1..333]

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Predicted Domain #1

Region A:
Residues: [1-122]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGVSQIWEFL KPYLQDSRIP LRKFVIDFNK SQKRAPRIAI DAYGWLFECG FIQNIDISPR  60
   61 SRSRSRSPTR SPRDSDIDSS QEYYGSRSYT TTGKAVINFI SRLKELLSLN VEFLLVFDGV 120
  121 MK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [139-273]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DDEKEYYSSW EQHVKNHEVY GNCKGLLAPS DPEFISLVRK LLDLMNISYV IACGEGEAQC  60
   61 VWLQVSGAVD FILSNDSDTL VFGGEKILKN YSKFYDDFGP SSITSHSPSR HHDSKESFVT 120
  121 VIDLPKINKV AGKKF

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [321-371]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KDFNLEDLTS ESLRKSRYRL FQKRLYLYCK DHSVELFGRN YPVLLNQGSF E

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	133.512579
Match:	1b43A_
Description:	Flap endonuclease-1 (Fen-1 nuclease)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nuclease activity	1.01613710322657	bayes_pls_golite062009
flap endonuclease activity	0.82585431543948	bayes_pls_golite062009
exonuclease activity	0.824724356048525	bayes_pls_golite062009
binding	0.689831953215996	bayes_pls_golite062009
catalytic activity	0.608920813710592	bayes_pls_golite062009
hydrolase activity	0.474100428865975	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.456180294825256	bayes_pls_golite062009
5'-3' exonuclease activity	0.37506170847971	bayes_pls_golite062009
endonuclease activity	0.313338552386604	bayes_pls_golite062009
endodeoxyribonuclease activity	0.261085038325444	bayes_pls_golite062009
nucleic acid binding	0.15331824596114	bayes_pls_golite062009
deoxyribonuclease activity	0.152177969184321	bayes_pls_golite062009
DNA binding	0.0968248862430132	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [123-138]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PSFKRKFNHE QNATTC

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [274-320]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DRLSLLFFSV LLGADYNRGV KGLGKNKSLQ LAQCEDPNFS MEFYDIF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	133.512579
Match:	1b43A_
Description:	Flap endonuclease-1 (Fen-1 nuclease)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [372-759]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GWPSTVAIMH YFHPIVQPYF DEEVLSDKYI NMAGNGHYRN LNFNELKYFL QSLNLPQISS  60
   61 FDKWFHDSMH EMFLLREFLS IDESDNIGKG NMRITEEKIM NIDGGKFQIP CFKIRYTTFL 120
  121 PNIPISSQSP LKRSNSPSRS KSPTRRQMDI MEHPNSLWLP KYLIPQSHPL VIQYYETQQL 180
  181 IQKEKEKKGK KSNKSRLPQK NNLDEFLRKH TSPIKSIGKV GESRKEILEP VRKRLFVDTD 240
  241 EDTSLEEIPA PTRLTTVDEH SDNDDDSLIF VDEITNSQSV LDSSPGKRIR DLTQDEQVDV 300
  301 WKDVIEISPI KKSRTTNAEK NPPESGLKSR SSITINARLQ GTKMLPPNLT APRLEREHSS 360
  361 VLDQLVTDAQ DTVDRFVACD SDSSSTIE

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: