YRC Public Data Repository - Protein Structure Prediction

Protein:	RAD27
Organism:	Saccharomyces cerevisiae
Length:	382 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 RAD27.

Description	E-value	Query Range	Subject Range
gi\|15778123 - gi\|15778123\|dbj\|BAB68507.1\| FEN-1 nuclease [Gallus gallus]	0.0	[1..381]	[1..381]
FEN1_YEAST - Flap endonuclease 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD27 PE=1 SV=1 FEN1_YEAS8 - Flap endonuclease 1 OS=Saccharomyces cerevisiae (strain Lalvin EC1118 / Prise de mousse) GN=RAD27 PE... RAD27 - 5' to 3' exonuclease, 5' flap endonuclease, required for Okazaki fragment processing and maturation ... FEN1_YEAS2 - Flap endonuclease 1 OS=Saccharomyces cerevisiae (strain JAY291) GN=RAD27 PE=3 SV=1 FEN1_YEAS7 - Flap endonuclease 1 OS=Saccharomyces cerevisiae (strain YJM789) GN=RAD27 PE=3 SV=1	0.0	[1..382]	[1..382]
gi\|26337949, gi\|... - gi\|74185061\|dbj\|BAE39135.1\| unnamed protein product [Mus musculus], gi\|74150381\|dbj\|BAE32236.1\| unna...	0.0	[1..367]	[1..359]
gi\|8896169, gi\|1... - gi\|8896169\|gb\|AAF81265.1\|AF281018_1 flag structure-specific endonuclease [Rattus norvegicus], gi\|167...	1.0E-98	[1..367]	[1..359]
FEN1_SCHPO - Flap endonuclease 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rad2 PE=1 SV=1 rad2 - FEN-1 endonuclease	2.0E-96	[1..382]	[1..380]
FEN1 - flap structure-specific endonuclease 1 gi\|60813577, gi\|... - gi\|61362985\|gb\|AAX42314.1\| flap structure-specific endonuclease 1 [synthetic construct], gi\|61355958... HGNC:3650\|MIM:60... - structure-specific endonuclease 1 gi\|114637926, gi... - gi\|114637926\|ref\|XP_508480.2\| PREDICTED: flap structure-specific endonuclease 1 isoform 5 [Pan trogl...	2.0E-95	[1..375]	[1..367]
Fen1-PA - The gene Flap endonuclease 1 is referred to in FlyBase by the symbol Dmel\Fen1 (CG8648, FBgn0025832)...	7.0E-95	[1..366]	[1..363]
FEN1A_XENLA - Flap endonuclease 1-A OS=Xenopus laevis GN=fen1-a PE=1 SV=1	8.0E-95	[1..361]	[1..358]
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)	9.0E-95	[1..372]	[1..365]

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Predicted Domain #1

Region A:
Residues: [1-90]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGIKGLNAII SEHVPSAIRK SDIKSFFGRK VAIDASMSLY QFLIAVRQQD GGQLTNEAGE  60
   61 TTSHLMGMFY RTLRMIDNGI KPCYVFDGKP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [107-216]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ETEKKLAEAT TELEKMKQER RLVKVSKEHN EEAQKLLGLM GIPYIIAPTE AEAQCAELAK  60
   61 KGKVYAAASE DMDTLCYRTP FLLRHLTFSE AKKEPIHEID TELVLRGLDL

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [287-382]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDPEVIDGNE INLKWSPPKE KELIEYLCDD KKFSEERVKS GISRLKKGLK SGIQGRLDGF  60
   61 FQVVPKTKEQ LAAAAKRAQE NKKLNKNKNK VTKGRR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	646.703922
Match:	1b43A_
Description:	Flap endonuclease-1 (Fen-1 nuclease)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrolase activity, acting on ester bonds	5.44893156272125	bayes_pls_golite062009
DNA-directed DNA polymerase activity	4.17543266498933	bayes_pls_golite062009
DNA polymerase activity	4.1412804577877	bayes_pls_golite062009
flap endonuclease activity	4.10438637013244	bayes_pls_golite062009
exonuclease activity	3.99717729574528	bayes_pls_golite062009
single-stranded DNA specific exodeoxyribonuclease activity	3.90367500308359	bayes_pls_golite062009
endonuclease activity	3.40075034200919	bayes_pls_golite062009
endodeoxyribonuclease activity	3.29138075959109	bayes_pls_golite062009
deoxyribonuclease activity	3.25110450559975	bayes_pls_golite062009
5'-3' exonuclease activity	3.19536858640519	bayes_pls_golite062009
nuclease activity	2.9643999717473	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	2.76402807313057	bayes_pls_golite062009
single-stranded DNA specific endodeoxyribonuclease activity	2.49388502336873	bayes_pls_golite062009
hydrolase activity	2.4418166499042	bayes_pls_golite062009
ribonuclease activity	2.33034300966639	bayes_pls_golite062009
5'-3' exodeoxyribonuclease activity	2.26658239783943	bayes_pls_golite062009
damaged DNA binding	2.10834170214137	bayes_pls_golite062009
double-stranded DNA specific exodeoxyribonuclease activity	2.09057967200253	bayes_pls_golite062009
binding	2.06833406478856	bayes_pls_golite062009
nucleic acid binding	2.02510018436829	bayes_pls_golite062009
exodeoxyribonuclease activity	2.0005433655378	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	1.9833086883205	bayes_pls_golite062009
DNA binding	1.93844174573408	bayes_pls_golite062009
5'-flap endonuclease activity	1.81850767854435	bayes_pls_golite062009
structure-specific DNA binding	1.70042864382698	bayes_pls_golite062009
catalytic activity	1.37534898662234	bayes_pls_golite062009
ribonuclease H activity	1.29762010718359	bayes_pls_golite062009
single-stranded DNA specific 5'-3' exodeoxyribonuclease activity	1.15948049342759	bayes_pls_golite062009
endodeoxyribonuclease activity, producing 5'-phosphomonoesters	0.901965019685213	bayes_pls_golite062009
double-stranded DNA binding	0.626785110524684	bayes_pls_golite062009
endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.512509234493511	bayes_pls_golite062009
3'-5' exonuclease activity	0.50487165366129	bayes_pls_golite062009
protein binding	0.488846604207788	bayes_pls_golite062009
nucleotidyltransferase activity	0.351084053450465	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.319622686426271	bayes_pls_golite062009
endoribonuclease activity	0.312346277055223	bayes_pls_golite062009
single-stranded DNA specific 3'-5' exodeoxyribonuclease activity	0.14861832363159	bayes_pls_golite062009
3'-5'-exodeoxyribonuclease activity	0.0205129272358	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [91-106]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PDLKSHELTK RSSRRV

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [217-286]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TIEQFVDLCI MLGCDYCESI RGVGPVTALK LIKTHGSIEK IVEFIESGES NNTKWKIPED  60
   61 WPYKQARMLF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	646.703922
Match:	1b43A_
Description:	Flap endonuclease-1 (Fen-1 nuclease)
Matching Structure (courtesy of the PDB):

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: