YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39995240, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	182 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|39995240, gi|....

Description	E-value	Query Range	Subject Range
gi\|70733535, gi\|... - gi\|70733535\|ref\|YP_257174.1\| peptide deformylase [Pseudomonas fluorescens Pf-5], gi\|68347834\|gb\|AAY9...	249.0	[0..15]	[182..46]
gi\|49081366 - gi\|49081366\|gb\|AAT50122.1\| PA0019 [synthetic construct]	249.0	[0..15]	[182..1]
DEF1_PSEPK - Peptide deformylase 1 OS=Pseudomonas putida (strain KT2440) GN=def1 PE=3 SV=1 tr\|E4R9N8\|E4R9N8... - Peptide deformylase OS=Pseudomonas putida (strain BIRD-1) GN=def PE=3 SV=1 gi\|82737338, gi\|... - gi\|82737338\|ref\|ZP_00900188.1\| Formylmethionine deformylase [Pseudomonas putida F1], gi\|82715502\|gb\|... tr\|I7BRK4\|I7BRK4... - Peptide deformylase OS=Pseudomonas putida (strain DOT-T1E) GN=def PE=3 SV=1	249.0	[0..15]	[182..1]
gi\|95108325, gi\|... - gi\|95108325\|emb\|CAK13019.1\| peptide deformylase 1 [Pseudomonas entomophila L48], gi\|104779338\|ref\|YP... gi\|95108325 - gi\|95108325\|emb\|CAK13019.1\| peptide deformylase 1 [Pseudomonas]	248.0	[0..15]	[182..1]
gi\|116053739, gi... - gi\|53726911\|ref\|ZP_00140421.2\| COG0242: N-formylmethionyl-tRNA deformylase [Pseudomonas aeruginosa U...	248.0	[0..15]	[182..1]
gi\|33357406, gi\|... - gi\|47168959\|pdb\|1S17\|B Chain B, Identification Of Novel Potent Bicyclic Peptide Deformylase Inhibito...	248.0	[0..15]	[182..13]
gi\|126196509, gi... - gi\|84324767\|ref\|ZP_00972822.1\| COG0242: N-formylmethionyl-tRNA deformylase [Pseudomonas aeruginosa 2... DEF_PSEAE - Peptide deformylase OS=Pseudomonas aeruginosa GN=def PE=1 SV=1 DEF_PSEAE - Peptide deformylase OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) ... gi\|218888765, gi... - gi\|218888765\|ref\|YP_002437629.1\| peptide deformylase [Pseudomonas aeruginosa LESB58], gi\|218768988\|e... gi\|107099012 - gi\|107099012\|ref\|ZP_01362930.1\| hypothetical protein PaerPA_01000019 [Pseudomonas aeruginosa PACS2] gi\|194548724, gi... - gi\|84318294\|ref\|ZP_00966720.1\| COG0242: N-formylmethionyl-tRNA deformylase [Pseudomonas aeruginosa C...	248.0	[0..15]	[182..1]
gi\|94417296, gi\|... - gi\|94417296\|ref\|ZP_01297115.1\| hypothetical protein PaerP_01001095 [Pseudomonas aeruginosa PA7], gi\|...	247.0	[0..15]	[182..1]
gi\|77380248, gi\|... - gi\|77456245\|ref\|YP_345750.1\| peptide deformylase [Pseudomonas fluorescens Pf0-1], gi\|77380248\|gb\|ABA...	245.0	[0..15]	[181..1]

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Predicted Domain #1

Region A:
Residues: [1-182]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAIIKKINPL RKVQTMVRTI LTYPDPVLKK KAVPVTIIND ATRELVRDMA ETMYDAQGVG  60
   61 LAAPQIGVSQ RVIVIDVSQR DERPELIVCI NPVIIHGEGE SYEEEGCLSV PKYSANVHRH 120
  121 ERVVVKSLNL EGEEVVHRAE GLLAIAFQHE IDHLDGVLFV DHLSALKKEM FKKKYRRMTE 180
  181 EE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	66.154902
Match:	1n5nA
Description:	Peptide deformylase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	2.58820956037645	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	2.29341894440799	bayes_pls_golite062009
peptide deformylase activity	2.09701270257336	bayes_pls_golite062009
hydrolase activity	1.74603757697733	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	1.59643176725105	bayes_pls_golite062009
formylmethionine deformylase activity	0.90550535791718	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: