Escherichia coli K-12 MG1655
About ASAP Data Release Policy University of Wisconsin—Madison
Home    Overview    Annotations    BLAST    Downloads    Comparative Genomics    Experiments    Strains    Help (this script)    User: guest  / Log On   
Working With: Genome: Escherichia coli K-12 MG1655 Version: v3

ABE-0003503 (ghrA) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0003503 showshow history
Names
ghrA JW5146 ECK1019 ycdW b1033
Product
glyoxylate/hydroxypyruvate reductase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 1097886 1098824 939 313
Sequence

Get full DNA or protein sequence

View sequence with flanking regions: bases upstream and bases downstream

Context

Browse sequence in GaPP

You last hovered over feature (none)
Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR006140 (IPR006140 D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain) Apr 2008
Automated Process Approved IPR036291 (IPR036291 NAD(P)-binding domain superfamily) Jul 2018
Automated Process Approved PF02826 (PF02826 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006140
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO molecular function GO:0051287 NAD binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006140
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006140
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0048037 (OBSOLETE) cofactor binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006140
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Uncurated name ghrA Published Annotation in EcoGene - EG Number: EG13869
Reference: Escherichia coli K-12 MG1655 		Jul 2008
Person Approved synonym ECK1019 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW5146 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ycdW Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved locus tag b1033 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product glyoxylate/hydroxypyruvate reductase Experimental - PubMed ID: 11237876
Reference: Escherichia coli K-12 		Jul 2008
Automated Process Approved alternate product name glyoxylate/hydroxypyruvate reductase A Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Protein Family
Automated Process Approved protein family PF02826 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain Protein Sequence Similarity - PFAM Model Name: PF02826
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR006140 D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding domain Protein Sequence Similarity - InterPro Domain: IPR006140
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR036291 NAD(P)-binding domain superfamily Protein Sequence Similarity - InterPro Domain: IPR036291
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Uncurated EC number 1.-.-.- Protein Sequence Similarity - InterPro Domain: IPR006140
Reference: Escherichia coli K-12 MG1655 		Dec 2008
Automated Process Approved codon start 1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG13869 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P75913 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0003503 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946431 Published Annotation - Entrez Gene Database ID: 946431
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:87081824 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P75913 Published Annotation - Swiss-Prot Accession Number: P75913 Jan 2005
Automated Process Approved function enzyme; Not classified Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note putative dehydrogenase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC74117.2 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Predicted by PSORTb - PSORTb Final_Score: 9.97
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated subsystem component of in silico model iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 2009
Person Uncurated subsystem component of in silico model iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 2009
Person Uncurated subsystem component of in silico model iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 2009
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Gene Ontology
Automated Process Uncurated GO biological process GO:0055114 (OBSOLETE) oxidation-reduction process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006140
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006140
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0051287 NAD binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR006140
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0048037 (OBSOLETE) cofactor binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR006140
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0001618 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002024 ghrA CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001270 ghrA CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002053 ghrA CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000165 ghrA CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0001563 ghrA CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0002586 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0001862 ghrA CDS
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0002344 ghrA CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0005175 CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0001499 ycdW CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0003654 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007251 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0001035 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0005447 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000953 ycdW CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003349 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008403 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008048 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0007152 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0077399 ghrA CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0001121 ghrA CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0001354 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0007927 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008328 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0001195 ghrA CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0005250 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0010123 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0009160 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0010072 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005388 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0006251 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006519 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0010031 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0006457 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0007114 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006232 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0007037 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0010221 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0025471 ycdW CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007498 ghrA CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005827 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0001703 ghrA CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000989 ycdW CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0001043 ycdW CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001719 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001325 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001282 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0001236 ghrA CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0175317 ghrA CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001122 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002099 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0131357 ycdW CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0000453 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0001157 ycdW CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0001849 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001060 ycdW CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0004011 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0000885 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0004202 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0000918 ycdW CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0003256 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0001613 ycdW CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0002646 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0009315 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0003299 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0287326 ghrA CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0004775 ycdW CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0141586 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0006229 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0001948 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0001289 ycdW CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0006506 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0006219 ycdW CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0005995 ycdW CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0005610 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0008032 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0004701 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0005600 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0008359 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0001728 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0001716 ycdW CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0002414 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0005779 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0008169 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0005289 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0006481 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0107480 CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0083499 CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0001301 ycdW CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0093966 ghrA CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0008317 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0008722 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0008082 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0003864 CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0264136 CDS
Person Approved Go view Shigella boydii 227 ADV-0002256 ycdW CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0007708 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0004809 CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0001130 ycdW CDS
Person Uncurated Go view Shigella flexneri 2457T ABQ-0072144 ghrA pseudogene
Person Approved Go view Shigella flexneri 301 ABT-0087377 ycdW pseudogene
Person Approved Go view Shigella sonnei 046 ADD-0001120 ycdW CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0003816 ghrA CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0000335 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0006967 CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0002624 ghrA CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0000262 ghrA CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0003821 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0011619 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0004342 CDS
Experimental to toptop
SelectSetNameSetDetailsNotes
stringent responsetranscriptional profile of the stringent responseNone
Recombinant heat-shock dataexpression data for recombinant strain under heat shockThese data are from the Harcum laboratory. (Jeremy Glasner)
Suppressor tRNA expressionexperiment comparing transcript levels in cells with and without suppressor tRNA expressionThese data were reported in the paper: Herring and Blattner. 2004. Global transcriptional effects of a suppressor tRNA and the inactivation of the regulator frmR. J. Bacteriol. 186(20):6714-20. Link to Abstract (Jeremy Glasner)
Recombinant E. coli expressionexperiment comparing expression of wild-type E. coli with the same strain harboring a plasmid that expresses protein when induced with IPTG These data were reported in the paper: F. T. Haddadin, S. W. Harcum (2005) Transcriptome profiles for high-cell-density recombinant and wild-type Escherichia coli, Biotechnology and Bioengineering, 90:127-153. Link to Abstract (Jeremy Glasner)
Aerobic shiftAerobic shiftThese data were reported in the paper: Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO. 2004. Integrating high-throughput and computational data elucidates bacterial networks. Nature. 2004 May 6;429(6987):92-6. Link to Abstract (Jeremy Glasner)
CalibratorCalibrated microarray experiments (50 hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
AffyData1Affymetrix Experiments (data from 41 chip hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
Strains to toptop

Strains with mutations in this feature.

Strain NameStrain TypeStrain InformationStrain RequestFeatureIDNameMutation DetailsExperiments Using StrainSubmitter
FB22872mutantTn5 InsertionRequest the StrainABE-0003503ghrAycdW::Tn5(KAN-I-SceI) at position 250 in Plus orientation ,+ pKD46 0Blattner Laboratory
Context Table to toptop

Listed below are features that lie nearby this feature. Features encoded in multiple intervals may appear more than once in the table. Features that span the origin will have a left endpoint greater than the right endpoint.

Features overlapping the region 1092886 to 1103824
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0003472dgcTCDSforward10928761094234Upstream
ABE-0003473mobile_elementcomplement10942451095502Upstream
ABE-0003475insF-4CDScomplement10942751095141Upstream
ABE-0003477insE-4CDScomplement10951381095437Upstream
ABE-0003486ymdEpseudogeneforward10955031095846Upstream
ABE-0003489ycdUCDSforward10958431096829Upstream
ABE-0003498serXtRNAcomplement10975651097652Upstream
ABE-0003503ghrACDSforward10978861098824Matches
ABE-0003508ycdXCDSforward10988791099616Downstream
ABE-0003511ycdYCDSforward10996401100194Downstream
ABE-0003514ycdZCDSforward11002961100787Downstream
ABE-0285423repeat_regionforward11008211100839Downstream
ABE-0003516csgGCDScomplement11008511101684Downstream
ABE-0003519csgFCDScomplement11017111102127Downstream
ABE-0003528csgECDScomplement11021521102541Downstream
ABE-0003530csgDCDScomplement11025461103196Downstream
Release Notes to toptop
All MG1655 annotations and sequence data are publicly available, and investigators can use these data in publications without contacting the genome curators. This version of the sequence was the source of GenBank record U00096.3. Ongoing annotation updates to that GenBank record are being generated from a collaboration that includes ASAP, EcoGene, the Coli Genetic Stock Center, EcoliHub, EcoCyc, RegulonDB and UniProtKB/Swiss-Prot.