YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|214001944
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E98-3139
Length:	355 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|214001944.

Description	E-value	Query Range	Subject Range
gi\|197264413, gi... - gi\|197264413\|ref\|ZP_03164487.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica se... gi\|167994617, gi... - gi\|205327551\|gb\|EDZ14315.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serova... lcl\|NC_016856.1_... - [gene=rffG] [protein=dTDP-glucose 4,6-dehydratase] [protein_id=YP_005240184.1] [location=4145370..41... gi\|16422490, gi\|... - gi\|6960275\|gb\|AAF33465.1\| 89% identity with E. coli dTDP-D-glucose-4,6-dehydratase (RFFG) (SP:P27830...	1.0E-96	[1..355]	[1..355]
gi\|82546143, gi\|... - gi\|82546143\|ref\|YP_410090.1\| dTDP-glucose 4,6-dehydratase [Shigella boydii Sb227], gi\|81247554\|gb\|AB...	1.0E-95	[1..354]	[1..354]
gi\|73857780, gi\|... - gi\|74314303\|ref\|YP_312722.1\| dTDP-glucose 4,6-dehydratase [Shigella sonnei Ss046], gi\|73857780\|gb\|AA...	1.0E-95	[1..354]	[1..354]
gi\|91213310, gi\|... - gi\|91213310\|ref\|YP_543296.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli UTI89], gi\|91074884\|gb\|A... gi\|117626048, gi... - gi\|117626048\|ref\|YP_859371.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli APEC O1], gi\|115515172\|... gi\|237702798, gi... - gi\|237702798\|ref\|ZP_04533279.1\| dTDP-glucose 4,6-dehydratase [Escherichia sp. 3_2_53FAA], gi\|2269029... gi\|218367623, gi... - gi\|218560854\|ref\|YP_002393767.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli S88], gi\|218367623\|e...	1.0E-95	[1..354]	[1..354]
gi\|62182397, gi\|... - gi\|62182397\|ref\|YP_218814.1\| dTDP-glucose 4,6-dehydratase [Salmonella enterica subsp. enterica serov... gi\|224470273, gi... - gi\|224585745\|ref\|YP_002639544.1\| UDP-N-acetylglucosamine epimerase (UDP-GlcNAc-2-epimerase) [Salmone...	2.0E-95	[1..355]	[1..355]
gi\|209753446, gi... - pir\|\|A91219 dTDP-glucose 4,6-dehydratase [imported] - Escherichia coli (strain O157:H7, substrain R... gi\|189362621, gi... - gi\|189362621\|gb\|EDU81040.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4486], gi\|... gi\|189365802, gi... - gi\|189365802\|gb\|EDU84218.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4501], gi\|... gi\|13364196, gi\|... - gi\|15833975\|ref\|NP_312748.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7], gi\|13364196\|db... gi\|189358938, gi... - gi\|189358938\|gb\|EDU77357.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4401], gi\|... gi\|168751746, gi... - gi\|188014279\|gb\|EDU52401.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4113], gi\|... gi\|217325882, gi... - gi\|217325882\|ref\|ZP_03441966.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. TW14588]... gi\|209399629, gi... - gi\|209399629\|ref\|YP_002273306.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4115]... gi\|13364196, gi\|... - gi\|15833975\|ref\|NP_312748.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|189376800, gi... - gi\|189376800\|gb\|EDU95216.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC508], gi\|1... gi\|189373224, gi... - gi\|189373224\|gb\|EDU91640.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC869], gi\|1... gi\|168780684, gi... - gi\|189001405\|gb\|EDU70391.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4076], gi\|... gi\|168775664, gi... - gi\|187768885\|gb\|EDU32729.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4196], gi\|... gi\|208818281, gi... - gi\|208818281\|ref\|ZP_03258601.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4042],... gi\|208813029, gi... - gi\|208813029\|ref\|ZP_03254358.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4045],... gi\|254595186, gi... - gi\|254795786\|ref\|YP_003080623.1\| dTDP-D-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. TW143... gi\|208725490, gi... - gi\|208805689\|ref\|ZP_03248026.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4206],... gi\|195938077 - gi\|195938077\|ref\|ZP_03083459.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli O157:H7 str. EC4024]	2.0E-95	[1..354]	[1..354]
gi\|227888628, gi... - gi\|227888628\|ref\|ZP_04006433.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli 83972], gi\|227834467\|... gi\|26250527, gi\|... - gi\|26250527\|ref\|NP_756567.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli CFT073], gi\|26110957\|gb\|...	3.0E-95	[1..354]	[1..354]
gi\|83569033, gi\|... - gi\|83569033\|ref\|ZP_00920495.1\| COG1088: dTDP-D-glucose 4,6-dehydratase [Shigella dysenteriae 1012], ...	3.0E-95	[1..354]	[1..354]
gi\|75230753, gi\|... - gi\|75230753\|ref\|ZP_00717216.1\| COG1088: dTDP-D-glucose 4,6-dehydratase [Escherichia coli B7A], gi\|19... gi\|157155600, gi... - gi\|75188534\|ref\|ZP_00701801.1\| COG1088: dTDP-D-glucose 4,6-dehydratase [Escherichia coli E24377A], g...	3.0E-95	[1..354]	[1..354]
gi\|124531282, gi... - gi\|124531282\|ref\|ZP_01701618.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli B], gi\|124498659\|gb\|E... gi\|192926236, gi... - gi\|75255792\|ref\|ZP_00727546.1\| COG1088: dTDP-D-glucose 4,6-dehydratase [Escherichia coli E22], gi\|19... gi\|75234082, gi\|... - gi\|75234082\|ref\|ZP_00718495.1\| COG1088: dTDP-D-glucose 4,6-dehydratase [Escherichia coli E110019], g... gi\|194412196, gi... - gi\|75208992\|ref\|ZP_00709256.1\| COG1088: dTDP-D-glucose 4,6-dehydratase [Escherichia coli B171], gi\|1... gi\|75197675, gi\|... - gi\|75197675\|ref\|ZP_00707745.1\| COG1088: dTDP-D-glucose 4,6-dehydratase [Escherichia coli HS], gi\|157... gi\|169757113, gi... - gi\|170022185\|ref\|YP_001727139.1\| dTDP-glucose 4,6-dehydratase [Escherichia coli ATCC 8739], gi\|16975...	3.0E-95	[1..354]	[1..354]

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Predicted Domain #1

Region A:
Residues: [1-355]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKRILVTGGA GFIGSAVVRH IIHETADAVV VVDKLTYAGN LMSLASVAQS DRFAFEKVDI  60
   61 CDRASLEQVF QQYQPDSVMH LAAESHVDRS IDGPAAFIET NIVGTYTLLE AARAYWSALD 120
  121 ADAKAAFRFH HISTDEVYGD LHTADDFFTE TTPYAPSSPY SASKASSDHL VRAWLRTYGL 180
  181 PTLVTNCSNN YGPYHFPEKL IPLMILNALA GKPLPVYGNG QQIRDWLYVE DHARALYHVV 240
  241 TNGAVGETYN IGGHNERKNL DVVRTICALL EELAPQKPQG VANYHDLITF VDDRPGHDLR 300
  301 YAIDASKIAR ELGWTPQETF ESGMRKTVQW YLANEAWWKP VQDGSYQGER LGLKR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	96.0
Match:	1bxkA
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: