YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24371978, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	439 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|24371978, gi|....

Description	E-value	Query Range	Subject Range
gi\|2921239 - gi\|2921239\|gb\|AAC64909.1\| putative type I S-subunit protein [Streptococcus thermophilus]	297.0	[0..2]	[425..10]
gi\|23200589, gi\|... - gi\|23217024\|ref\|NP_690631.2\| type I R/M system specificity subunit [Lactococcus lactis subsp. lactis...	277.0	[0..2]	[425..14]
gi\|78505362, gi\|... - gi\|78686852\|ref\|ZP_00851613.1\| type I restriction-modification system, S subunit [Shewanella sp. ANA...	272.0	[0..12]	[432..5]
gi\|25397750 - pir\|\|B87326 hypothetical protein CC0621 [imported] - Caulobacter crescentus gi\|16124874, gi\|... - gi\|16124874\|ref\|NP_419438.1\| type I restriction-modification system, S subunit [Caulobacter crescent... gi\|221233594, gi... - gi\|221233594\|ref\|YP_002516030.1\| type I restriction-modification system specificity subunit [Cauloba...	267.0	[0..2]	[436..10]
gi\|91225110, gi\|... - gi\|91225110\|ref\|ZP_01260332.1\| hypothetical type I restriction-modification system specificity deter...	264.0	[0..2]	[432..17]
gi\|82402429, gi\|... - gi\|82499561\|ref\|ZP_00885003.1\| conserved hypothetical protein [Caldicellulosiruptor saccharolyticus ...	258.0	[0..3]	[431..14]
gi\|7767523 - gi\|7767523\|gb\|AAF69139.1\|AF228680_3 HsdS [Lactococcus lactis] gi\|9789464, gi\|3... - gi\|9789464\|gb\|AAF98316.1\|AF243383_17 HsdS [Lactococcus lactis subsp. lactis], gi\|32455490\|ref\|NP_862...	258.0	[0..2]	[425..4]
gi\|22299772, gi\|... - gi\|22299772\|ref\|NP_683019.1\| type I site-specific deoxyribonuclease specificity subunit [Thermosynec...	257.0	[0..4]	[431..11]
gi\|76884669, gi\|... - gi\|77166355\|ref\|YP_344880.1\| restriction modification system DNA specificity subunit [Nitrosococcus ...	254.0	[0..10]	[439..3]

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Predicted Domain #1

Region A:
Residues: [1-439]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSHSILSPFG KIPNDWEYQI IIDNVEFLTG PAFDSSLFNT ESRGARLVRG INLTQGSTRW  60
   61 GEDKTKYWDV ELNNLKKYQL AINDILIGMD GSLVGKNYAY LKQSDLPALL VQRVARLRAK 120
  121 SNLHSKYLYY MYATDFWLDY VEVVKTNSGI PHISNGDIKN FRFPFPPLPE QQKIAAILTS 180
  181 VDEVIEKTQA QIDKLKDLKS GMMQELLTKG VGIKQGDKYV PHIEFKDSPV GKIPKSWEVK 240
  241 PLNSVVLKII DCEHKTAPYV DKSEYLVVRT SNVRHGELVL DDMKYTHADG YAEWTNRAIP 300
  301 SLGDVLFTRE APAGESCLVP ENTKVCMGQR MVLLRPDANV IFSNFFSLFL TSEAASCAIY 360
  361 ERSIGTTVSR INIEDIKRIP CIVPPLSEQQ EISKAIQSVQ NSILNKQEKL QSLKNLKKAL 420
  421 MQDLLTGKVR VKVDNDLVV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	64.69897
Match:	1yf2A
Description:	Three-dimensional structure of DNA sequence specificity (S) subunit of a type I restriction-modification enzyme and its functional implications
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	1.4210145112553	bayes_pls_golite062009
DNA binding	1.41179209561821	bayes_pls_golite062009
binding	1.33040179592624	bayes_pls_golite062009
endodeoxyribonuclease activity	0.80284978967783	bayes_pls_golite062009
deoxyribonuclease activity	0.63913609426399	bayes_pls_golite062009
catalytic activity	0.316629025709297	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: