YRC Public Data Repository - Protein Structure Prediction

Protein:	BETA_ECOLI
Organism:	Escherichia coli
Length:	556 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 BETA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|254287189, gi... - gi\|254287189\|ref\|YP_003052937.1\| choline dehydrogenase [Escherichia coli BL21(DE3)], gi\|253976496\|gb... gi\|242376101, gi... - gi\|251783828\|ref\|YP_002998132.1\| hypothetical protein B21_00270 [Escherichia coli BL21], gi\|24237610... gi\|253972287, gi... - gi\|254160386\|ref\|YP_003043494.1\| choline dehydrogenase [Escherichia coli B str. REL606], gi\|25397228... gi\|83586349, gi\|... - gi\|83586349\|ref\|ZP_00924984.1\| COG2303: Choline dehydrogenase and related flavoproteins [Escherichia...	602.0	[0..1]	[556..1]
gi\|193068729, gi... - gi\|75237286\|ref\|ZP_00721333.1\| COG2303: Choline dehydrogenase and related flavoproteins [Escherichia... gi\|75231136, gi\|... - gi\|75231136\|ref\|ZP_00717558.1\| COG2303: Choline dehydrogenase and related flavoproteins [Escherichia... BETA_ECOHS - Oxygen-dependent choline dehydrogenase OS=Escherichia coli O9:H4 (strain HS) GN=betA PE=3 SV=1 BETA_ECO24 - Oxygen-dependent choline dehydrogenase OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=betA ... BETA_ECOSE - Oxygen-dependent choline dehydrogenase OS=Escherichia coli (strain SE11) GN=betA PE=3 SV=1 BETA_ECO8A - Oxygen-dependent choline dehydrogenase OS=Escherichia coli O8 (strain IAI1) GN=betA PE=3 SV=1 gi\|154720973 - gi\|154720973\|gb\|ABS84662.1\| choline dehydrogenase [Escherichia coli] BETA_ECO55 - Oxygen-dependent choline dehydrogenase OS=Escherichia coli (strain 55989 / EAEC) GN=betA PE=3 SV=1	602.0	[0..1]	[556..1]
BETA_ECO57 - Oxygen-dependent choline dehydrogenase OS=Escherichia coli O157:H7 GN=betA PE=3 SV=1 gi\|15829611, gi\|... - gi\|15829611\|ref\|NP_308384.1\| choline dehydrogenase [Escherichia coli O157:H7 str. Sakai], gi\|1335981... gi\|254590885, gi... - gi\|254791485\|ref\|YP_003076322.1\| choline dehydrogenase, a flavoprotein [Escherichia coli O157:H7 str... gi\|15800033, gi\|... - gi\|15800033\|ref\|NP_286045.1\| choline dehydrogenase [Escherichia coli O157:H7 EDL933], gi\|12513123\|gb... gi\|25284031, gi\|... - pir\|\|A85524 choline dehydrogenase, a flavoprotein [imported] - Escherichia coli (strain O157:H7, sub... gi\|217326034, gi... - gi\|217326034\|ref\|ZP_03442118.1\| choline dehydrogenase [Escherichia coli O157:H7 str. TW14588], gi\|21... gi\|208805688, gi... - gi\|208805688\|ref\|ZP_03248025.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4206], gi\|208... gi\|208815210, gi... - gi\|208815210\|ref\|ZP_03256389.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4045], gi\|208... gi\|208822818, gi... - gi\|208822818\|ref\|ZP_03263136.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4042], gi\|208... BETA_ECO5E - Oxygen-dependent choline dehydrogenase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=betA PE... gi\|187769095, gi... - gi\|187769095\|gb\|EDU32939.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4196], gi\|1687753... gi\|188999861, gi... - gi\|188999861\|gb\|EDU68847.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4076], gi\|1687826... gi\|189377877, gi... - gi\|189377877\|gb\|EDU96293.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC508], gi\|16879975... gi\|195937806 - gi\|195937806\|ref\|ZP_03083188.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4024] gi\|188016464, gi... - gi\|188016464\|gb\|EDU54586.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4113], gi\|1687491... gi\|168755879, gi... - gi\|189356884\|gb\|EDU75303.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4401], gi\|1687558... gi\|168761970, gi... - gi\|189367708\|gb\|EDU86124.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4501], gi\|1687619... gi\|168769680, gi... - gi\|189361298\|gb\|EDU79717.1\| choline dehydrogenase [Escherichia coli O157:H7 str. EC4486], gi\|1687696...	602.0	[0..1]	[556..1]
gi\|75257666, gi\|... - gi\|75257666\|ref\|ZP_00729157.1\| COG2303: Choline dehydrogenase and related flavoproteins [Escherichia... gi\|194414336, gi... - gi\|75211163\|ref\|ZP_00711270.1\| COG2303: Choline dehydrogenase and related flavoproteins [Escherichia...	602.0	[0..1]	[556..1]
BETA_SHIF8 - Oxygen-dependent choline dehydrogenase OS=Shigella flexneri serotype 5b (strain 8401) GN=betA PE=3 S...	601.0	[0..1]	[556..1]
gi\|71147368, gi\|... - gi\|71281628\|ref\|YP_268077.1\| choline dehydrogenase [Colwellia psychrerythraea 34H], gi\|71147368\|gb\|A...	595.0	[0..2]	[555..5]
BETA_PSE14 - Oxygen-dependent choline dehydrogenase OS=Pseudomonas savastanoi pv. phaseolicola (strain 1448A / Ra...	595.0	[0..2]	[555..6]
gi\|226898900, gi... - gi\|237707690\|ref\|ZP_04538171.1\| choline dehydrogenase [Escherichia sp. 3_2_53FAA], gi\|226898900\|gb\|E... gi\|91209386, gi\|... - gi\|91209386\|ref\|YP_539372.1\| choline dehydrogenase [Escherichia coli UTI89], gi\|91070960\|gb\|ABE05841...	595.0	[0..1]	[556..16]
BETA_ECOL6 - Oxygen-dependent choline dehydrogenase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC... BETA_ECOL6 - Choline dehydrogenase OS=Escherichia coli O6 GN=betA PE=3 SV=2	594.0	[0..1]	[556..1]
BETA_PSEPK - Oxygen-dependent choline dehydrogenase OS=Pseudomonas putida (strain KT2440) GN=betA PE=3 SV=1	594.0	[0..2]	[555..4]

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Predicted Domain #1

Region A:
Residues: [1-556]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQFDYIIIGA GSAGNVLATR LTEDPNTSVL LLEAGGPDYR FDFRTQMPAA LAFPLQGKRY  60
   61 NWAYETEPEP FMNNRRMECG RGKGLGGSSL INGMCYIRGN ALDLDNWAQE PGLENWSYLD 120
  121 CLPYYRKAET RDMGENDYHG GDGPVSVTTS KPGVNPLFEA MIEAGVQAGY PRTDDLNGYQ 180
  181 QEGFGPMDRT VTPQGRRAST ARGYLDQAKS RPNLTIRTHA MTDHIIFDGK RAVGVEWLEG 240
  241 DSTIPTRATA NKEVLLCAGA IASPQILQRS GVGNAELLAE FDIPLVHELP GVGENLQDHL 300
  301 EMYLQYECKE PVSLYPALQW WNQPKIGAEW LFGGTGVGAS NHFEAGGFIR SREEFAWPNI 360
  361 QYHFLPVAIN YNGSNAVKEH GFQCHVGSMR SPSRGHVRIK SRDPHQHPAI LFNYMSHEQD 420
  421 WQEFRDAIRI TREIMHQPAL DQYRGREISP GVECQTDEQL DEFVRNHAET AFHPCGTCKM 480
  481 GYDEMSVVDG EGRVHGLEGL RVVDASIMPQ IITGNLNATT IMIGEKIADM IRGQEALPRS 540
  541 TAGYFVANGM PVRAKK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	84.0
Match:	1cf3A
Description:	Glucose oxidase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
choline dehydrogenase activity	4.66965094791663	bayes_pls_golite062009
NADPH-adrenodoxin reductase activity	4.10319574017291	bayes_pls_golite062009
oxidoreductase activity	2.3417445147889	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors	1.47575323060551	bayes_pls_golite062009
oxygen-dependent protoporphyrinogen oxidase activity	1.34149762265767	bayes_pls_golite062009
glucose dehydrogenase activity	1.30840878956762	bayes_pls_golite062009
transporter activity	1.29839290134235	bayes_pls_golite062009
transmembrane transporter activity	1.07862908893913	bayes_pls_golite062009
catalytic activity	1.03127962968326	bayes_pls_golite062009
monooxygenase activity	0.72374980280274	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors	0.704326257168965	bayes_pls_golite062009
binding	0.694618787489897	bayes_pls_golite062009
substrate-specific transporter activity	0.556967966402473	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors	0.442625746935807	bayes_pls_golite062009
protein binding	0.370064403093958	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.31459693204333	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor	0.242456601435627	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	0.170082356807927	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: