YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24375748, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	495 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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|24375748, gi|....

Description	E-value	Query Range	Subject Range
gi\|23129547, gi\|... - gi\|23129547\|ref\|ZP_00111373.1\| COG0732: Restriction endonuclease S subunits [Nostoc punctiforme PCC ...	286.0	[0..4]	[493..7]
gi\|78685300, gi\|... - gi\|78685300\|ref\|ZP_00850079.1\| type I restriction-modification system, S subunit [Shewanella sp. ANA...	283.0	[0..5]	[492..6]
gi\|32476611, gi\|... - gi\|32476611\|ref\|NP_869605.1\| type I restriction enzyme EcoEI specificity protein [Rhodopirellula bal...	261.0	[0..5]	[487..41]
gi\|21228805, gi\|... - gi\|21228805\|ref\|NP_634727.1\| type I restriction-modification system specificity subunit [Methanosarc...	257.0	[0..4]	[486..6]
gi\|2921239 - gi\|2921239\|gb\|AAC64909.1\| putative type I S-subunit protein [Streptococcus thermophilus]	257.0	[0..2]	[451..17]
gi\|41720061, gi\|... - gi\|91772548\|ref\|YP_565240.1\| restriction modification system DNA specificity subunit [Methanococcoid...	256.0	[0..3]	[492..9]
gi\|117626660, gi... - gi\|117626660\|ref\|YP_859983.1\| specificity determinant for hsdM and hsdR [Escherichia coli APEC O1], ... gi\|91075572, gi\|... - gi\|91213998\|ref\|YP_543984.1\| specificity determinant for hsdM and hsdR [Escherichia coli UTI89], gi\|...	254.0	[0..4]	[493..5]
gi\|72397880, gi\|... - gi\|73670718\|ref\|YP_306733.1\| type I restriction-modification system specificity subunit [Methanosarc...	253.0	[0..3]	[486..16]
T1SB_ECOLX - Type-1 restriction enzyme EcoBI specificity protein OS=Escherichia coli GN=hsdS PE=3 SV=1	250.0	[0..5]	[493..21]
gi\|197365231, gi... - gi\|197365231\|ref\|YP_002144868.1\| EcoKI restriction-modification system protein HsdS [Salmonella ente... gi\|214000632 - gi\|214000632\|ref\|ZP_03411367.1\| EcoKI restriction-modification system protein HsdS [Salmonella enter... gi\|213864869 - gi\|213864869\|ref\|ZP_03386988.1\| EcoKI restriction-modification system protein HsdS [Salmonella enter... gi\|213052555 - gi\|213052555\|ref\|ZP_03345433.1\| EcoKI restriction-modification system protein HsdS [Salmonella enter... gi\|16505640, gi\|... - gi\|25289196\|pir\|\|AB1069 chain S of type I restriction-modification system [imported] - Salmonella en... gi\|56416308, gi\|... - gi\|56416308\|ref\|YP_153383.1\| EcoKI restriction-modification system protein HsdS [Salmonella enterica... gi\|16763331 - gi\|16763331\|ref\|NP_458948.1\| specificity determinant for hsdM and hsdR [Salmonella enterica subsp. e... gi\|29144809, gi\|... - gi\|29144809\|ref\|NP_808151.1\| specificity determinant for hsdM and hsdR [Salmonella enterica subsp. e...	248.0	[0..4]	[493..5]

Back

Predicted Domain #1

Region A:
Residues: [1-495]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNQVIPEGWF SAVLGNAVDV KSGVGFPKKY QGKNSGDYPV YKVGDVSIAV TSKYGGLSEA  60
   61 GHYVSQSEAE ELKGVIFREG TTLFAKIGEA VKLNRRAFVE RNGLADNNVM AVVPNYTEMD 120
  121 RFIYYFMRTV NLSDVSRSTT VPSVRKGDIE ELVISYPPLA EQKVIADKLD ELLGQVESTK 180
  181 ARLDAIPAIL KSFRQSVLAA AVSGKLTEKW RDRNNSEMVH GGELYSLAKK HHLKFYGKKY 240
  241 KAPEPLDLRM LETLPQGWVY GVVSHLVEPG SEIMYGIVQP GPKLDEGIPY VRGTDIQNGQ 300
  301 ILVHQLMKTS PEIAKKYERA TLSGNDILLG IIRATKVAIV PDELKGANIT QGTARLRVFE 360
  361 GVLTYKYLAI YLESPKVQSW LHSNYRGIDM PGLNLKDVRR LPIALPSKEE QTEIVRRVED 420
  421 LFVFADKVEA QVNAAQLRVN NLTQSILAKA FRGELTAEWR TANPELISGK NSAEALLEKI 480
  481 KVERVVAKST KKKWE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.0
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: