YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373221, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	328 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|24373221, gi|....

Description	E-value	Query Range	Subject Range
gi\|41205692 - gi\|41205692\|gb\|AAR99612.1\| dTDP-glucose 4,6-dehydratase [Geobacillus stearothermophilus]	238.0	[0..7]	[327..1]
gi\|33413324, gi\|... - gi\|33413324\|emb\|CAD67949.1\| putative dTDP-glucose 4,6-dehydratase [Thermotoga sp. RQ2], gi\|170288108...	235.0	[0..9]	[326..1]
gi\|99077994, gi\|... - gi\|99077994\|ref\|YP_611253.1\| dTDP-glucose 4,6-dehydratase [Silicibacter sp. TM1040], gi\|99034937\|gb\|...	233.0	[0..9]	[326..1]
gi\|22726352, gi\|... - gi\|32456000\|ref\|NP_862002.1\| rb127 [Ruegeria sp. PR1b], gi\|22726352\|gb\|AAN05148.1\| RB127 [Ruegeria s...	231.0	[0..9]	[325..1]
gi\|85668073, gi\|... - gi\|85707417\|ref\|ZP_01038498.1\| dTDP-glucose 4,6-dehydratase [Roseovarius sp. 217], gi\|85668073\|gb\|EA...	228.0	[0..9]	[325..1]
gi\|7437238 - pir\|\|H69105 dTDP-glucose 4,6-dehydratase - Methanobacterium thermoautotrophicum (strain Delta H) gi\|15679777, gi\|... - gi\|2622920\|gb\|AAB86255.1\| dTDP-glucose 4,6-dehydratase [Methanothermobacter thermautotrophicus str. ...	228.0	[0..10]	[326..3]
gi\|196111589, gi... - gi\|88795902\|ref\|ZP_01111591.1\| dTDP-glucose 4,6 dehydratase [Alteromonas macleodii 'Deep ecotype'], ...	227.0	[0..7]	[326..1]
gi\|83955937, gi\|... - gi\|83955937\|ref\|ZP_00964448.1\| dTDP-glucose 4,6-dehydratase [Sulfitobacter sp. NAS-14.1], gi\|8383970...	226.0	[0..9]	[324..1]

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Predicted Domain #1

Region A:
Residues: [1-328]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQDVTPARPT VLLTGAHSQL AKALIRTHLN GGLVFNLHPL THAALDISDK YSVAEVFAQV  60
   61 KPDWVINCAA YNAVDKAETA VDEAYRVNSL GPELLATECA LTGARLVHIS SDYVFSGLLT 120
  121 GVEANALSET VTPSPLSVYG KSKLAGEQAV QRILGERAIV IRTAWLYGVD GHNFVKTMLR 180
  181 LMAATPDAQP LFVIDDQIGS PTWVDALASL IWQLMLRGES GLFHYAGQGQ CSWYEFAAEI 240
  241 QQQALALKLL KKAVPIIATD SLSYAAKALE KGNVLAQRPS YSALNSAKLR DTLGKDNLAA 300
  301 IQCPEVWQDW RVQLNCMLNA LITQSAKP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	39.221849
Match:	1vl0A
Description:	Crystal structure of DTDP-4-dehydrorhamnose reductase, rfbD ortholog (CAC2315) from Clostridium acetobutylicum at 2.05 A resolution
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
methionine adenosyltransferase regulator activity	5.88466784940665	bayes_pls_golite062009
catalytic activity	1.79741889688267	bayes_pls_golite062009
oxidoreductase activity	0.9367410227151	bayes_pls_golite062009
nucleic acid binding	0.868888700854563	bayes_pls_golite062009
DNA binding	0.790382977752475	bayes_pls_golite062009
transcription regulator activity	0.613310508772122	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	0.418775403210681	bayes_pls_golite062009
binding	0.390159270709819	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.32207755075663	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: