YRC Public Data Repository - Protein Structure Prediction

Protein:	RIB3
Organism:	Saccharomyces cerevisiae
Length:	208 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

[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 RIB3.

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	4.0E-92	[2..208]	[9..209]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	1.0E-89	[2..208]	[128..328]
RIBBA_SYNY3 - Riboflavin biosynthesis protein RibBA OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=ribBA PE=3 ... gi\|7428281 - pir\|\|S75629 GTP cyclohydrolase II (EC 3.5.4.25) / 3, 4-dihydroxy-2-butanone 4-phosphate synthase (EC... GCH2_SYNY3, RIBA... - Riboflavin biosynthesis protein ribBA OS=Synechocystis sp. (strain ATCC 27184 / PCC 6803 / N-1) GN=r...	2.0E-86	[1..206]	[1..200]
gi\|17132669, gi\|... - gi\|17231028\|ref\|NP_487576.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohyd... gi\|25290330 - pir\|\|AI2247 GTP cyclohydrolase II / 3,4-dihydroxy-2-butanone 4-phosphate synthase [imported] - Nosto...	1.0E-85	[1..206]	[37..236]
RIBB_NEIMB - 3,4-dihydroxy-2-butanone 4-phosphate synthase OS=Neisseria meningitidis serogroup B (strain MC58) GN... RIBAB_NEIMB, RIB... - 3,4-dihydroxy-2-butanone 4-phosphate synthase OS=Neisseria meningitidis serogroup B GN=ribB PE=3 SV=... gi\|11266351 - pir\|\|H81104 GTP cyclohydrolase II/3,4-dihydroxy-2-butanone-4-phosphate synthase NMB1256 [imported] -...	1.0E-85	[2..208]	[4..202]
gi\|34873547 - gi\|34873547\|gb\|AAQ83287.1\| RibA [Cloning vector pRFN4] RIBBA_BACSU - Riboflavin biosynthesis protein RibBA OS=Bacillus subtilis (strain 168) GN=ribBA PE=3 SV=1 RIBBA_BACSU, RIB... - Riboflavin biosynthesis protein ribBA OS=Bacillus subtilis GN=ribBA PE=3 SV=1, Riboflavin biosynthes... gi\|221323765 - gi\|221323765\|ref\|ZP_03605059.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclo... gi\|221319489 - gi\|221319489\|ref\|ZP_03600783.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclo... gi\|221314567 - gi\|221314567\|ref\|ZP_03596372.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclo...	1.0E-85	[1..206]	[1..197]
gi\|11266350 - pir\|\|C81912 probable bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase I... RIBB_NEIMA - 3,4-dihydroxy-2-butanone 4-phosphate synthase OS=Neisseria meningitidis serogroup A / serotype 4A (s... RIBB_NEIMA, RIBA... - 3,4-dihydroxy-2-butanone 4-phosphate synthase OS=Neisseria meningitidis serogroup A GN=ribB PE=3 SV=...	4.0E-85	[2..208]	[4..202]
gi\|207346220 - gi\|207346220\|gb\|EDZ72781.1\| YDR487Cp-like protein [Saccharomyces cerevisiae AWRI1631] RIB3_YEAST - 3,4-dihydroxy-2-butanone 4-phosphate synthase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288... gi\|190404591 - gi\|190404591\|gb\|EDV07858.1\| 3,4-dihydroxy-2-butanone 4-phosphate synthase [Saccharomyces cerevisiae ... RIB3 - 3,4-dihydroxy-2-butanone-4-phosphate synthase (DHBP synthase), required for riboflavin biosynthesis ...	9.0E-85	[1..208]	[1..208]
RIBBA_ACTPL - Riboflavin biosynthesis protein RibBA OS=Actinobacillus pleuropneumoniae GN=ribBA PE=3 SV=1 RIBBA_ACTP2 - Riboflavin biosynthesis protein RibBA OS=Actinobacillus pleuropneumoniae serotype 5b (strain L20) GN... gi\|46143612 - gi\|46143612\|ref\|ZP_00134866.2\| COG0108: 3,4-dihydroxy-2-butanone 4-phosphate synthase [Actinobacillu...	2.0E-83	[2..208]	[6..203]
gi\|25290325 - pir\|\|D83844 GTP cyclohydrolase II / 3, 4-dihydroxy-2-butanone 4-phosphate synthase ribA [imported] -... gi\|10174173, gi\|... - gi\|15614119\|ref\|NP_242422.1\| bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohyd...	3.0E-83	[1..208]	[5..203]

Back

Predicted Domain #1

Region A:
Residues: [1-208]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFTPIDQAIE HFKQNKFVIV MDDAGRENEG DLICAAENVS TEQMAFLVRH SSGYVCAPMT  60
   61 NAIADKLDLP LLRTGMKFES NDDDRHGTAY TITVDVAQGT TTGISAHDRS MTCRALADSS 120
  121 STPKSFLKPG HICPLRAADG GVLQRRGHTE AGVDLCKLSG LSPVAVIGEL VNDDEQGTMM 180
  181 RLNDCQAFGK KHGIPLISIE ELAQYLKK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	598.67837
Match:	1k49A_
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

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: