YRC Public Data Repository - Protein Structure Prediction

Protein:	RBD1_ECOLI, RFBD...
Organism:	Escherichia coli
Length:	299 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 RBD1_ECOLI, RFBD....

Description	E-value	Query Range	Subject Range
gi\|77810847, gi\|... - gi\|77814102\|ref\|ZP_00813368.1\| dTDP-glucose 4,6-dehydratase [Shewanella putrefaciens CN-32], gi\|7781...	284.0	[0..1]	[297..1]
gi\|83955937, gi\|... - gi\|83955937\|ref\|ZP_00964448.1\| dTDP-glucose 4,6-dehydratase [Sulfitobacter sp. NAS-14.1], gi\|8383970...	282.0	[0..1]	[296..1]
gi\|9957845 - gi\|9957845\|gb\|AAG09522.1\|AF279621_1 dTDP-D-glucose-4,6-dehydratase [Salmonella enterica]	281.0	[0..1]	[296..1]
gi\|89094082, gi\|... - gi\|89094082\|ref\|ZP_01167025.1\| dTDP-D-glucose 4;6-dehydratase [Oceanospirillum sp. MED92], gi\|890815...	280.0	[0..1]	[298..1]
gi\|29726033 - gi\|29726033\|gb\|AAO88957.1\| dTDP-D-glucose-4,6-dehydratase [Vibrio cholerae]	280.0	[0..1]	[296..1]
gi\|33413324, gi\|... - gi\|33413324\|emb\|CAD67949.1\| putative dTDP-glucose 4,6-dehydratase [Thermotoga sp. RQ2], gi\|170288108...	280.0	[0..1]	[298..1]
gi\|213650451 - gi\|213650451\|ref\|ZP_03380504.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213979614 - gi\|213979614\|ref\|ZP_03406873.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|214001795 - gi\|214001795\|ref\|ZP_03412530.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213023599 - gi\|213023599\|ref\|ZP_03338046.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213052826 - gi\|213052826\|ref\|ZP_03345704.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|213425545 - gi\|213425545\|ref\|ZP_03358295.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|56412999, gi\|... - gi\|56412999\|ref\|YP_150074.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica serov... gi\|213585955 - gi\|213585955\|ref\|ZP_03367781.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica se... gi\|197936445, gi... - gi\|198241929\|ref\|YP_002216184.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica s... gi\|204928949, gi... - gi\|204928949\|ref\|ZP_03220092.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|205273021, gi... - gi\|205353240\|ref\|YP_002227041.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|207857533, gi... - gi\|207857533\|ref\|YP_002244184.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|161362587, gi... - gi\|161613223\|ref\|YP_001587188.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|167551043, gi... - gi\|205324063\|gb\|EDZ11902.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... gi\|168818214, gi... - gi\|205344684\|gb\|EDZ31448.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... gi\|197093404, gi... - gi\|197361927\|ref\|YP_002141564.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|16761029 - gi\|16761029\|ref\|NP_456646.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica serov... gi\|25292364, gi\|... - gi\|25292364\|pir\|\|AF0767 dTDP-glucose 4,6-dehydratase [imported] - Salmonella enterica subsp. enteric... gi\|29141275, gi\|... - gi\|29141275\|ref\|NP_804617.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica serov...	280.0	[0..1]	[296..1]
RMLB_SALTY, RFBB... - dTDP-glucose 4,6-dehydratase OS=Salmonella typhimurium GN=rfbB PE=1 SV=1, dTDP-glucose 4,6-dehydrata... gi\|194443120, gi... - gi\|194443120\|ref\|YP_002041367.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica s... gi\|581654, gi\|13... - gi\|581654\|emb\|CAA40115.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica], gi\|13786958\|pdb\|1G1A\|D... gi\|168466245, gi... - gi\|195631509\|gb\|EDX50069.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... gi\|18655662, gi\|... - gi\|18655664\|pdb\|1KEW\|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase (Rmlb) From ... gi\|194407940, gi... - gi\|194449636\|ref\|YP_002046147.1\| dTDP-glucose 4,6 dehydratase [Salmonella enterica subsp. enterica s... gi\|205338665, gi... - gi\|205338665\|gb\|EDZ25429.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... gi\|205330442, gi... - gi\|205330442\|gb\|EDZ17206.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... RFBB_SALTY - dTDP-glucose 4,6-dehydratase OS=Salmonella typhimurium GN=rfbB PE=1 SV=1 lcl\|NC_016856.1_... - [gene=rfbB] [protein=dTDP-glucose-4,6-dehydratase] [protein_id=YP_005238132.1] [location=complement(... RMLB_SALTY - dTDP-glucose 4,6-dehydratase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=rfbB...	279.0	[0..1]	[296..1]
gi\|41205692 - gi\|41205692\|gb\|AAR99612.1\| dTDP-glucose 4,6-dehydratase [Geobacillus stearothermophilus]	279.0	[0..1]	[298..3]

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Predicted Domain #1

Region A:
Residues: [1-299]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNILLFGKTG QVGWELQRAL APLGNLIAFD VHSTDYCGDF SNPEGVAETV RSIRPDIIVN  60
   61 AAAHTAVDKA ESEPEFAQLI NATSVEAIAK AANEVGAWVI HYSTDYVFPG NGDMPWLETD 120
  121 ATAPLNVYGE TKLAGEKALQ EYCAKHLIFR TSWVYAGKGN NFAKTMLRLA KEREELAVIN 180
  181 DQFGAPTGAE LLADCTAHAI RVALNKPDVA GLYHLVASGT TTWYDYAALV FEEARKAGIP 240
  241 LALNKLNAVP TTAYPTPARR PHNSRLNTEK FQQNFALVLP DWQVGVKRML NELFTTTAI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	58.0
Match:	1kbzA
Description:	dTDP-6-deoxy-L-lyxo-4-hexulose reductase (RmlD)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	2.16785883389468	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	1.3919444853018	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	1.17019598256699	bayes_pls_golite062009
dTDP-4-dehydrorhamnose reductase activity	0.835820446605149	bayes_pls_golite062009
fatty acid synthase activity	0.561621495862231	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: