YRC Public Data Repository - Protein Structure Prediction

Protein:	MKT1
Organism:	Saccharomyces cerevisiae
Length:	830 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 MKT1.

Description	E-value	Query Range	Subject Range
MKT1_YEAST - Protein MKT1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MKT1 PE=1 SV=2 MKT1 - Protein that forms a complex with Pbp1p that may mediate posttranscriptional regulation of HO endonu...	0.0	[1..830]	[1..830]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[470..814]	[1..344]
gi\|15778123 - gi\|15778123\|dbj\|BAB68507.1\| FEN-1 nuclease [Gallus gallus]	1.0E-83	[1..401]	[1..374]
gi\|26337949, gi\|... - gi\|74185061\|dbj\|BAE39135.1\| unnamed protein product [Mus musculus], gi\|74150381\|dbj\|BAE32236.1\| unna...	3.0E-78	[1..386]	[1..359]
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...	1.0E-77	[1..397]	[1..370]
gi\|8896169, gi\|1... - gi\|8896169\|gb\|AAF81265.1\|AF281018_1 flag structure-specific endonuclease [Rattus norvegicus], gi\|167...	7.0E-77	[1..386]	[1..359]
FEN1A_XENLA - Flap endonuclease 1-A OS=Xenopus laevis GN=fen1-a PE=1 SV=1	8.0E-77	[1..386]	[1..359]

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Predicted Domain #1

Region A:
Residues: [1-84]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAIKSLESFL FERGLVGSYA IEALNNCTLD IDVNHYVSRL LTNKREQYLD AIGGFPTSLK  60
   61 MYLESDLKIF KDFNITPIFV FNGG

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [100-248]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SASASISSTT TSSSGTNATT RSNTESVLLQ RSRGWTQWNN LISSNQNSYI DQPIQPQEPF  60
   61 RHNTTIDSKA YQNDLIAYFI EHGYMYQVAP YSSWFQLAYL LNSAYIDAIY GPTDCLMLDC 120
  121 VDRFILGMEF PNKEFRFIDR SRVMKDLGC

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [303-372]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TLQNDSKENI QNYQRGISAL RYMPVLKDTG KVELFVQEIV VSEEDSEKNN KDGKKSNLSS  60
   61 PSSASSSASP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.30103
Match:	1b43A_
Description:	Flap endonuclease-1 (Fen-1 nuclease)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
endodeoxyribonuclease activity	4.18461263107599	bayes_pls_golite062009
deoxyribonuclease activity	3.85892177341967	bayes_pls_golite062009
exonuclease activity	3.45142689336533	bayes_pls_golite062009
flap endonuclease activity	3.15967964087761	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	2.42937586057619	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	2.28283401034201	bayes_pls_golite062009
exodeoxyribonuclease activity	2.26089375411362	bayes_pls_golite062009
nuclease activity	2.25783328399886	bayes_pls_golite062009
5'-3' exonuclease activity	2.09065411241765	bayes_pls_golite062009
DNA binding	1.80079106105882	bayes_pls_golite062009
nucleic acid binding	1.77028256579181	bayes_pls_golite062009
protein binding	1.53930087292625	bayes_pls_golite062009
endonuclease activity	1.42881364561524	bayes_pls_golite062009
binding	1.42844458880206	bayes_pls_golite062009
5'-3' exodeoxyribonuclease activity	1.40692088927452	bayes_pls_golite062009
catalytic activity	1.37534898662234	bayes_pls_golite062009
double-stranded DNA specific exodeoxyribonuclease activity	1.20639149622758	bayes_pls_golite062009
5'-flap endonuclease activity	0.995401458224216	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.931536010162285	bayes_pls_golite062009
endodeoxyribonuclease activity, producing 5'-phosphomonoesters	0.592871503540176	bayes_pls_golite062009
damaged DNA binding	0.571529443801057	bayes_pls_golite062009
single-stranded DNA specific 5'-3' exodeoxyribonuclease activity	0.380267633493762	bayes_pls_golite062009
structure-specific DNA binding	0.274441095399626	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [85-99]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LTYNQLEASG HFTAA

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [249-302]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 THEEFIDIAM AVGNDLQPTT LPPLQIYPVP QLFDIALEMV LNTGTNFYAY QLST

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.30103
Match:	1b43A_
Description:	Flap endonuclease-1 (Fen-1 nuclease)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [373-439]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ATTVTKNASE KLTYEKSSTK EVRKPRDIPN DVHDFIGQML PHEYYFYRSI GLVTGKLFDA  60
   61 IVTGVYP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	12.522879
Match:	1xwl__
Description:	Exonuclease domain of prokaryotic DNA polymerase; DNA polymerase I (Klenow fragment)
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [440-562]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EEPPLGGGSS TSYKKLVSKS VEIFKNKEIN LLTQPINRYY QIKQIKQVKW YAANEPTTLT  60
   61 NRMSPSMFET INHLIVKTET SDEKEFSISE FITTINGSSN MAKDFISEKV IFPNSVPIES 120
  121 KLN

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #5

Region A:
Residues: [563-830]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPFNLLSTNF LRLLVLLEFF TFDFKEKLLE PTRWGEVFLK LNELNIDSKY HESVIIFLVF  60
   61 LKCDVLKLDE EVQPPAPSAL SQATLRSYPE ESLYVLLITR VLTLFQVDQK PSNYHGPIDK 120
  121 KTLIFRDHLS FIKENLNELF EAVLISSLTS GEFNRLSLDN FGWARKIVRY LPFKLDSPNT 180
  181 IMAMMWEFFL QKYLHNGNAK NDALSLVATE FNTYKSTPNL DEQFVESHRF LLEISKVMQE 240
  241 LNAAKLIDEN VFKLFTKAVE FTTTALSS

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident 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: