YRC Public Data Repository - Protein Structure Prediction

Protein:	PDXH_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	212 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 PDXH_SHEON.

Description	E-value	Query Range	Subject Range
gi\|106770932, gi... - gi\|148654599\|ref\|YP_001274804.1\| pyridoxamine 5'-phosphate oxidase [Roseiflexus sp. RS-1], gi\|148566...	316.0	[0..4]	[212..3]
gi\|37677308, gi\|... - gi\|37677308\|ref\|NP_937704.1\| pyridoxamine 5'-phosphate oxidase [Vibrio vulnificus YJ016], gi\|3720185...	312.0	[0..3]	[212..38]
PDXH_VIBVU - Pyridoxine/pyridoxamine 5'-phosphate oxidase OS=Vibrio vulnificus (strain CMCP6) GN=pdxH PE=3 SV=1 PDXH_VIBVU - Pyridoxine/pyridoxamine 5'-phosphate oxidase OS=Vibrio vulnificus GN=pdxH PE=3 SV=1 PDXH_VIBVY - Pyridoxine/pyridoxamine 5'-phosphate oxidase OS=Vibrio vulnificus (strain YJ016) GN=pdxH PE=3 SV=2	312.0	[0..3]	[212..2]
gi\|153838206, gi... - gi\|153838206\|ref\|ZP_01990873.1\| pyridoxamine 5'-phosphate oxidase [Vibrio parahaemolyticus AQ3810], ... PDXH_VIBPA - Pyridoxine/pyridoxamine 5'-phosphate oxidase OS=Vibrio parahaemolyticus GN=pdxH PE=3 SV=1 PDXH_VIBPA - Pyridoxine/pyridoxamine 5'-phosphate oxidase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD ...	311.0	[0..3]	[212..2]
gi\|125531706 - gi\|125531706\|gb\|EAY78271.1\| hypothetical protein OsI_33318 [Oryza sativa Indica Group] gi\|31431696, gi\|... - gi\|37533692\|ref\|NP_921148.1\| putative pyridoxamine 5-phosphate oxidase [Oryza sativa (japonica culti...	310.0	[0..3]	[212..259]
gi\|84355579 - gi\|84355579\|ref\|ZP_00980459.1\| COG0259: Pyridoxamine-phosphate oxidase [Burkholderia cenocepacia PC1... PDXH_BURCH - Pyridoxine/pyridoxamine 5'-phosphate oxidase OS=Burkholderia cenocepacia (strain HI2424) GN=pdxH PE=... PDXH_BURCA - Pyridoxine/pyridoxamine 5'-phosphate oxidase OS=Burkholderia cenocepacia (strain AU 1054) GN=pdxH PE...	309.0	[0..1]	[212..1]
gi\|75857428, gi\|... - gi\|75857428\|ref\|ZP_00765043.1\| COG0259: Pyridoxamine-phosphate oxidase [Vibrio sp. Ex25], gi\|2542274...	309.0	[0..3]	[212..2]
gi\|91191833, gi\|... - gi\|91223020\|ref\|ZP_01258286.1\| pyridoxamine 5'-phosphate oxidase [Vibrio alginolyticus 12G01], gi\|91...	308.0	[0..3]	[212..2]
gi\|254251577, gi... - gi\|84362783\|ref\|ZP_00987397.1\| COG0259: Pyridoxamine-phosphate oxidase [Burkholderia dolosa AUO158],...	308.0	[0..1]	[212..1]

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Predicted Domain #1

Region A:
Residues: [1-212]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTDLSDIRRE YTQGGLRRAD LPKNPMQLFE LWMTQARDAQ LSDPTAMCVA TVDEHGQPFQ  60
   61 RIVLLKRFDD SGFVFFTNLG SRKALQIAAN NKVSLHFPWH PIERQVSILG EAQPLSTAEV 120
  121 LKYFMTRPKE SQIAAWVSQQ SSKLSARQVL EGKFFEMKAK FAKGDVPLPS FWGGYLVKPS 180
  181 SIEFWQGGEH RLHDRFLYTR EAQAWQIDRL AP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	83.69897
Match:	1g76A
Description:	Pyridoxine 5'-phoshate oxidase (PNP oxidase)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
pyridoxamine-phosphate oxidase activity	3.81533880638523	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor	1.18444956617957	bayes_pls_golite062009
catalytic activity	0.660906721832294	bayes_pls_golite062009
oxidoreductase activity	0.0268904833845668	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: