Escherichia coli K-12 MG1655
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Working With: Genome: Escherichia coli K-12 MG1655 Version: v3

ABE-0009428 (ygeX) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0009428 showshow history
Names
ygeX JW2839 ECK2867 b2871
Product
2,3-diaminopropionate ammonia-lyase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 3007510 3008706 1197 399
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001926 (IPR001926 Pyridoxal-phosphate dependent enzyme) Apr 2008
Automated Process Approved IPR010081 (IPR010081 Diaminopropionate ammonia-lyase) Apr 2008
Automated Process Approved IPR019871 (IPR019871 Diaminopropionate ammonia-lyase, subgroup) Jul 2018
Automated Process Approved IPR036052 (IPR036052 Tryptophan synthase beta subunit-like PLP-dependent enzyme) Jul 2018
Automated Process Approved PF00291 (PF00291 Pyridoxal-phosphate dependent enzyme) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001926
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0030170 pyridoxal phosphate binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010081
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001926
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0008838 diaminopropionate ammonia-lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010081, IPR019871
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name ygeX Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym ECK2867 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2839 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2871 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product 2,3-diaminopropionate ammonia-lyase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name putative dehydratase (deaminase), PLP-dependent enzyme Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name putative diaminopropionate ammonia-lyase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Automated Process Approved alternate product name 2,3-diaminopropionate ammonia lyase, PLP-dependent Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Protein Family
Automated Process Approved protein family IPR001926 Pyridoxal-phosphate dependent enzyme Protein Sequence Similarity - InterPro Domain: IPR001926
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR010081 Diaminopropionate ammonia-lyase Protein Sequence Similarity - InterPro Domain: IPR010081
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00291 Pyridoxal-phosphate dependent enzyme Protein Sequence Similarity - PFAM Model Name: PF00291
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR019871 Diaminopropionate ammonia-lyase, subgroup Protein Sequence Similarity - InterPro Domain: IPR019871
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR036052 Tryptophan synthase beta subunit-like PLP-dependent enzyme Protein Sequence Similarity - InterPro Domain: IPR036052
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 4.3.1.15 Published Annotation - Swiss-Prot Accession Number: P66899 Feb 2006
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 UniProtKB/Swiss-Prot:P66899 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1789235 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P66899 Published Annotation - Swiss-Prot Accession Number: P66899 Jan 2006
Automated Process Approved db xref EcoGene:EG13054 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:947012 Published Annotation - Entrez Gene Database ID: 947012
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0009428 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
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 diaminopropionate ammonia-lyase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75909.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Unknown Predicted by PSORTb - PSORTb Final_Score: 2.00
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated subsystem component of in silico model iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 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 Approved GO biological process GO:0008152 metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001926
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0003824 catalytic activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001926
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0030170 pyridoxal phosphate binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010081
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO molecular function GO:0008838 diaminopropionate ammonia-lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010081, IPR019871
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0004775 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003294 ygeX CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003400 ygeX CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0007310 ygeX CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003116 ygeX CDS
Ortholog
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0000809 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0003753 dpaL CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0005976 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0002895 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0008273 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0002872 ygeX CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0001407 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006318 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0006141 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0079609 ygeX CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0003294 dpaL CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0003804 ygeX CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009155 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0007166 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0003325 ygeX CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007632 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0004242 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0007498 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006018 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0005495 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005822 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008997 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0008360 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0006799 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005783 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006294 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0005605 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0007716 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0006034 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027882 ygeX CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0008379 ygeX CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007710 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002690 ygeX CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002943 ygeX CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003404 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0003545 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0003272 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0003198 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0177451 pseudogene
Automated Process Approved Go view Escherichia coli SE11 AFS-0003196 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003002 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133786 ygeX CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001039 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0003265 ygeX CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0000022 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0000965 CDS
Person Approved Go view Shigella boydii 227 ADV-0003408 ygeX CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0005504 CDS
Person Approved Go view Shigella sonnei 046 ADD-0003302 ygeX CDS
Person Uncurated Go view Trabulsiella guamensis ATCC 49490 [T] APH-0004618 dpaL CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0001600 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000313 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)
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 3002510 to 3013706
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0009413xdhACDSforward30003453002603Upstream
ABE-0009416xdhBCDSforward30026143003492Upstream
ABE-0009418xdhCCDSforward30034893003968Upstream
ABE-0009420ygeVCDScomplement30040083005786Upstream
ABE-0009425ygeWCDSforward30062623007452Upstream
ABE-0009428ygeXCDSforward30075103008706Matches
ABE-0009434ygeYCDSforward30087643009975Downstream
ABE-0009436hyuACDSforward30100283011413Downstream
ABE-0009438yqeACDSforward30114613012393Downstream
ABE-0285555repeat_regionforward30124013012604Downstream
ABE-0009441yqeBCDScomplement30126143014239Downstream
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.