YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24349699, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	367 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|24349699, gi|....

Description	E-value	Query Range	Subject Range
RIBAB_AQUAE, RIB... - Riboflavin biosynthesis protein ribBA OS=Aquifex aeolicus GN=ribBA PE=3 SV=1, Riboflavin biosynthesi... RIBBA_AQUAE - Riboflavin biosynthesis protein RibBA OS=Aquifex aeolicus (strain VF5) GN=ribBA PE=3 SV=1	579.0	[0..2]	[365..8]
gi\|242232022, gi... - gi\|242256429\|ref\|ZP_04801320.1\| 3,4-dihydroxy-2-butanone 4-phosphate synthase [Thermoanaerobacter sp... RIBBA_THEPX - Riboflavin biosynthesis protein RibBA OS=Thermoanaerobacter sp. (strain X514) GN=ribBA PE=3 SV=1	571.0	[0..3]	[366..2]
gi\|241884501, gi... - gi\|241903098\|ref\|ZP_04787826.1\| 3,4-dihydroxy-2-butanone 4-phosphate synthase [Thermoanaerobacter br... RIBBA_THEP3 - Riboflavin biosynthesis protein RibBA OS=Thermoanaerobacter pseudethanolicus (strain ATCC 33223 / 39...	570.0	[0..3]	[366..2]
gi\|53735199, gi\|... - gi\|67922265\|ref\|ZP_00515778.1\| 3,4-Dihydroxy-2-butanone 4-phosphate synthase:GTP cyclohydrolase II [...	568.0	[0..2]	[365..10]
gi\|125972630, gi... - gi\|67874098\|ref\|ZP_00504003.1\| 3,4-Dihydroxy-2-butanone 4-phosphate synthase:GTP cyclohydrolase II [... gi\|196199353, gi... - gi\|196251390\|ref\|ZP_03150060.1\| 3,4-dihydroxy-2-butanone 4-phosphate synthase [Clostridium thermocel...	565.0	[0..1]	[365..1]
gi\|146274191, gi... - gi\|98662619\|dbj\|GAA00510.1\| unnamed protein product [Pelotomaculum thermopropionicum SI], gi\|1476780...	562.0	[0..1]	[365..1]
gi\|56750133, gi\|... - gi\|56750133\|ref\|YP_170834.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohyd...	562.0	[0..2]	[365..8]
gi\|220931844, gi... - gi\|89210620\|ref\|ZP_01189007.1\| 3,4-Dihydroxy-2-butanone 4-phosphate synthase:GTP cyclohydrolase II [...	562.0	[0..3]	[365..1]
gi\|33861450, gi\|... - gi\|33861450\|ref\|NP_893011.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohyd...	561.0	[0..1]	[365..22]
gi\|78712790, gi\|... - gi\|78779291\|ref\|YP_397403.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohyd...	561.0	[0..1]	[365..22]

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Predicted Domain #1

Region A:
Residues: [1-215]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MALHSIEEII EDIRQGKMVI LMDDEDRENE GDLILAAEMV TPEAINFMAK YGRGLICQTM  60
   61 TKARCQQLNL PLMVTNNNAQ FSTNFTVSIE AAEGVTTGIS AHDRAVTVKA AVAKDAKASD 120
  121 LVQPGHIFPL MAQDGGVLTR AGHTEAGCDL ARLAGLEPSG VIVEILNEDG TMARRPDLEI 180
  181 FSEKHGIKIG TIAALIEYRN TKETTVVREA KCKLP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	84.69897
Match:	1iezA
Description:	3,4-dihydroxy-2-butanone 4-phosphate synthase, DHBP synthase, RibB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
3,4-dihydroxy-2-butanone-4-phosphate synthase activity	7.56167968780416	bayes_pls_golite062009
GTP cyclohydrolase activity	2.51581618679202	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines	1.92717548101547	bayes_pls_golite062009
cyclohydrolase activity	1.48770406828775	bayes_pls_golite062009
binding	1.05088380360844	bayes_pls_golite062009
nucleic acid binding	0.637633326908211	bayes_pls_golite062009
catalytic activity	0.343636936190038	bayes_pls_golite062009
protein binding	0.291469273637145	bayes_pls_golite062009
DNA binding	0.21448652890147	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [216-367]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TRFGEFDMVT FRDTIDNQLH FALVKGEVKP DCLVRVHLQN TFNDLLHSER DQQRSWPLEK  60
   61 AMARISAEGG VLVLLGNQEH SSEILAKVKA FEAEDQGQTP VSAKWQGTSR RVGVGSQILA 120
  121 SLGVTKMRLL SSPKRYHSLS GFGLEVTECV AE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	57.30103
Match:	2bz0A
Description:	Crystal Structure of E. coli GTP cyclohydrolase II in complex with GTP analogue, GMPcPP, and Zinc
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
GTP cyclohydrolase activity	4.36867535385235	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines	3.7708397651039	bayes_pls_golite062009
cyclohydrolase activity	3.33696578638249	bayes_pls_golite062009
catalytic activity	1.40764037338379	bayes_pls_golite062009
binding	1.32693434551075	bayes_pls_golite062009
protein binding	0.418779722842637	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:

Predicted functions: