YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|168463951, gi...
Organism:	Salmonella enterica subsp. enterica serovar Newport str. SL317
Length:	855 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 gi|168463951, gi....

Description	E-value	Query Range	Subject Range
MUTS_SALPA - DNA mismatch repair protein mutS OS=Salmonella paratyphi A GN=mutS PE=3 SV=1 MUTS_SALPA - DNA mismatch repair protein MutS OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=mutS PE=3 ...	0.0	[1..855]	[1..855]
MUTS_ERWCT - DNA mismatch repair protein mutS OS=Erwinia carotovora subsp. atroseptica GN=mutS PE=3 SV=1 MUTS_PECAS - DNA mismatch repair protein MutS OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) GN...	0.0	[1..855]	[1..854]
gi\|157156430, gi... - gi\|75187457\|ref\|ZP_00700724.1\| COG0249: Mismatch repair ATPase (MutS family) [Escherichia coli E2437...	0.0	[1..855]	[6..860]
gi\|77976003, gi\|... - gi\|77976003\|ref\|ZP_00831536.1\| COG0249: Mismatch repair ATPase (MutS family) [Yersinia frederiksenii...	0.0	[1..855]	[1..851]
gi\|125617373, gi... - gi\|75829241\|ref\|ZP_00758551.1\| COG0249: Mismatch repair ATPase (MutS family) [Vibrio cholerae MO10],... gi\|229353916, gi... - gi\|229508991\|ref\|ZP_04398479.1\| DNA mismatch repair protein MutS [Vibrio cholerae B33], gi\|229353916... MUTS_VIBCH - DNA mismatch repair protein mutS OS=Vibrio cholerae GN=mutS PE=3 SV=1 MUTS_VIBCH - DNA mismatch repair protein MutS OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N1... gi\|75815683 - gi\|75815683\|ref\|ZP_00746180.1\| COG0249: Mismatch repair ATPase (MutS family) [Vibrio cholerae V52] MUTS_VIBCM - DNA mismatch repair protein MutS OS=Vibrio cholerae serotype O1 (strain M66-2) GN=mutS PE=3 SV=1 gi\|229507146, gi... - gi\|229507146\|ref\|ZP_04396652.1\| DNA mismatch repair protein MutS [Vibrio cholerae BX 330286], gi\|229... gi\|229344348, gi... - gi\|229519659\|ref\|ZP_04409102.1\| DNA mismatch repair protein MutS [Vibrio cholerae RC9], gi\|229344348... MUTS_VIBC3 - DNA mismatch repair protein MutS OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa... gi\|153223827, gi... - gi\|153223827\|ref\|ZP_01954082.1\| DNA mismatch repair protein MutS [Vibrio cholerae MAK 757], gi\|12411... gi\|126510344, gi... - gi\|153819112\|ref\|ZP_01971779.1\| DNA mismatch repair protein MutS [Vibrio cholerae NCTC 8457], gi\|126...	0.0	[1..855]	[2..862]
gi\|254850775, gi... - gi\|254850775\|ref\|ZP_05240125.1\| DNA mismatch repair protein MutS [Vibrio cholerae MO10], gi\|25484648... gi\|229368830, gi... - gi\|229606175\|ref\|YP_002876823.1\| DNA mismatch repair protein MutS [Vibrio cholerae MJ-1236], gi\|2293... tr\|C6YK41\|C6YK41... - DNA mismatch repair protein MutS OS=Vibrio cholerae MO10 GN=mutS PE=3 SV=1 gi\|75825907 - gi\|75825907\|ref\|ZP_00755342.1\| COG0249: Mismatch repair ATPase (MutS family) [Vibrio cholerae O395]	0.0	[1..855]	[19..879]
gi\|190908438, gi... - gi\|191171138\|ref\|ZP_03032688.1\| DNA mismatch repair protein MutS [Escherichia coli F11], gi\|19090843... MUTS_ECOL5 - DNA mismatch repair protein MutS OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=mutS PE=3 SV=...	0.0	[4..855]	[2..853]
gi\|116219810, gi... - gi\|75819256\|ref\|ZP_00749345.1\| COG0249: Mismatch repair ATPase (MutS family) [Vibrio cholerae V51], ...	0.0	[1..855]	[19..879]
gi\|75823717, gi\|... - gi\|75823717\|ref\|ZP_00753201.1\| COG0249: Mismatch repair ATPase (MutS family) [Vibrio cholerae RC385]...	0.0	[1..855]	[19..879]
gi\|77962849 - gi\|77962849\|ref\|ZP_00826665.1\| COG0249: Mismatch repair ATPase (MutS family) [Yersinia mollaretii AT...	0.0	[1..855]	[1..851]

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Predicted Domain #1

Region A:
Residues: [1-855]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNESFDKDFS NHTPMMQQYL KLKAQHPEIL LFYRMGDFYE LFYDDAKRAS QLLDISLTKR  60
   61 GASAGEPIPM AGIPHHAVEN YLAKLVNQGE SVAICEQIGD PATSKGPVER KVVRIVTPGT 120
  121 ISDEALLQER QDNLLAAIWQ DGKGYGYATL DISSGRFRLS EPADRETMAA ELQRTNPAEL 180
  181 LYAEDFAEMA LIEGRRGLRR RPLWEFEIDT ARQQLNLQFG TRDLVGFGVE NASRGLCAAG 240
  241 CLLQYVKDTQ RTSLPHIRSI TMERQQDSII MDAATRRNLE ITQNLAGGVE NTLAAVLDCT 300
  301 VTPMGSRMLK RWLHMPVRNT DILRERQQTI GALQDTVSEL QPVLRQVGDL ERILARLALR 360
  361 TARPRDLARM RHAFQQLPEL HAQLETVDSA PVQALRKKMG DFAELRDLLE RAIIDAPPVL 420
  421 VRDGGVIAPG YHEELDEWRA LADGATDYLD RLEIRERERT GLDTLKVGYN AVHGYYIQIS 480
  481 RGQSHLAPIN YVRRQTLKNA ERYIIPELKE YEDKVLTSKG KALALEKQLY DELFDLLLPH 540
  541 LADLQQSANA LAELDVLVNL AERAWTLNYT CPTFTDKPGI RITEGRHPVV EQVLNEPFIA 600
  601 NPLNLSPQRR MLIITGPNMG GKSTYMRQTA LIALLAYIGS YVPAQNVEIG PIDRIFTRVG 660
  661 AADDLASGRS TFMVEMTETA NILHNATENS LVLMDEIGRG TSTYDGLSLA WACAENLANK 720
  721 IKALTLFATH YFELTQLPEK MEGVANVHLD ALEHGDTIAF MHSVQDGAAS KSYGLAVAAL 780
  781 AGVPKEVIKR ARQKLRELES ISPNAAATQV DGTQMSLLAA PEETSPAVEA LENLDPDSLT 840
  841 PRQALEWIYR LKSLV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1e3mA
Description:	DNA repair protein MutS, domain III; DNA repair protein MutS, the C-terminal domain; DNA repair protein MutS, domain II; DNA repair protein MutS, domain I
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
mismatched DNA binding	7.6300905919597	bayes_pls_golite062009
	6.67853997762091	bayes_pls_golite062009
guanine/thymine mispair binding	6.45283004617788	bayes_pls_golite062009
DNA insertion or deletion binding	6.26024791706598	bayes_pls_golite062009
single base insertion or deletion binding	5.15853852267378	bayes_pls_golite062009
dinucleotide insertion or deletion binding	4.09431251446007	bayes_pls_golite062009
oxidized purine DNA binding	3.84835351634579	bayes_pls_golite062009
oxidized DNA binding	3.84835351634579	bayes_pls_golite062009
single guanine insertion binding	3.84835351634579	bayes_pls_golite062009
DNA secondary structure binding	3.18179842526435	bayes_pls_golite062009
dinucleotide repeat insertion binding	3.17347240690102	bayes_pls_golite062009
loop DNA binding	3.13510929288157	bayes_pls_golite062009
mismatch repair complex binding	2.99730753457176	bayes_pls_golite062009
single thymine insertion binding	2.28303894489307	bayes_pls_golite062009
four-way junction DNA binding	2.23712359726448	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.16381244011837	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.11265775498161	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.11046854230259	bayes_pls_golite062009
double-strand/single-strand DNA junction binding	1.91034220759707	bayes_pls_golite062009
MutLalpha complex binding	1.83584397705627	bayes_pls_golite062009
hydrolase activity	1.66122526893602	bayes_pls_golite062009
binding	1.62320027057768	bayes_pls_golite062009
ATPase activity	1.53315090215319	bayes_pls_golite062009
DNA-dependent ATPase activity	1.1653223755451	bayes_pls_golite062009
Y-form DNA binding	1.0681332518071	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
DNA helicase activity	0.8104901979223	bayes_pls_golite062009
helicase activity	0.701689608967233	bayes_pls_golite062009
nucleic acid binding	0.503971340374059	bayes_pls_golite062009
structure-specific DNA binding	0.269513772401086	bayes_pls_golite062009
ATP-dependent helicase activity	0.146865639513637	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.146865639513637	bayes_pls_golite062009
double-stranded DNA binding	0.11598665103566	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
DNA binding	0.111331583742205	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009

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: