YRC Public Data Repository - Protein Structure Prediction

Protein:	RBB1_ECOLI, RFBB...
Organism:	Escherichia coli
Length:	361 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 RBB1_ECOLI, RFBB....

Description	E-value	Query Range	Subject Range
gi\|115503058 - gi\|115503058\|gb\|ABI98981.1\| RmlB [Escherichia coli] gi\|62955957 - gi\|62955957\|gb\|AAY23333.1\| RmlB [Shigella boydii]	395.0	[0..1]	[361..1]
gi\|76366002 - gi\|76366002\|gb\|ABA42227.1\| RmlB [Escherichia coli] gi\|191167723, gi... - gi\|191167723\|ref\|ZP_03029531.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli B7A], gi\|190902236\|gb...	395.0	[0..1]	[361..1]
gi\|115513361, gi... - gi\|117624237\|ref\|YP_853150.1\| dTDP-glucose 4,6 dehydratase [Escherichia coli APEC O1], gi\|115513361\|... gi\|237704495, gi... - gi\|237704495\|ref\|ZP_04534976.1\| dTDP-glucose 4,6 dehydratase [Escherichia sp. 3_2_53FAA], gi\|2269008...	392.0	[0..1]	[361..1]
gi\|110806010, gi... - gi\|110806010\|ref\|YP_689530.1\| dTDP-glucose 4,6 dehydratase [Shigella flexneri 5 str. 8401], gi\|11061...	392.0	[0..1]	[361..1]
RMLB_SHIFL - dTDP-glucose 4,6-dehydratase OS=Shigella flexneri GN=rfbB PE=3 SV=2 gi\|24052449, gi\|... - gi\|24113426\|ref\|NP_707936.1\| dTDP-glucose 4,6 dehydratase [Shigella flexneri 2a str. 301], gi\|240524... gi\|30063492, gi\|... - gi\|30063492\|ref\|NP_837663.1\| dTDP-glucose 4,6 dehydratase [Shigella flexneri 2a str. 2457T], gi\|3004...	392.0	[0..1]	[361..1]

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Predicted Domain #1

Region A:
Residues: [1-361]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKILVTGGAG FIGSAVVRHI INNTQDSVVN VDKLTYAGNR ESLADVSDSE RYVFEHADIC  60
   61 DAPAMARIFA QHQPDAVMHL AAESHVDRSI TGPAAFIETN IVGTYVLLEA ARNYWSALDS 120
  121 DKKNSFRFHH ISTDEVYGDL PHPDEVNNTE ELPLFTETTA YAPSSPYSAS KASSDHLVRA 180
  181 WKRTYGLPTI VTNCSNNYGP YHFPEKLIPL VILNALEGKA LPIYGKGDQI RDWLYVEDHA 240
  241 RALYTVVTEG KAGETYNIGG HNEKKNIDVV LTICDLLDEI VPKEKSYREQ ITYVADRPGH 300
  301 DRRYAIDAEK IGRALGWKPQ ETFESGIRKT VEWYLSNTKW VDNVKSGAYQ SWIEQNYEGR 360
  361 Q

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	109.0
Match:	1g1aA
Description:	dTDP-glucose 4,6-dehydratase (RmlB)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
UDP-glucose 4-epimerase activity	2.13934644118967	bayes_pls_golite062009
catalytic activity	1.79741889688267	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	1.03956654822048	bayes_pls_golite062009
nucleic acid binding	0.868888700854563	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.82673050487418	bayes_pls_golite062009
DNA binding	0.790382977752475	bayes_pls_golite062009
binding	0.784517759335365	bayes_pls_golite062009
transcription regulator activity	0.613310508772122	bayes_pls_golite062009
transcription factor activity	0.11102650759187	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: