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

ABE-0001309 (ddlA) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0001309 showshow history
Names
ddlA JW0372 ECK0376 b0381
Product
D-alanine-D-alanine ligase A
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 399829 400923 1095 365
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000291 (IPR000291 D-alanine--D-alanine ligase/VANA/B/C, conserved site) Apr 2008
Automated Process Approved IPR013817 (IPR013817 (DEPRECATED) Pre-ATP-grasp fold) Apr 2008
Automated Process Approved IPR013816 (IPR013816 (DEPRECATED) ATP-grasp fold, subdomain 2) Apr 2008
Automated Process Approved IPR011761 (IPR011761 ATP-grasp fold) Apr 2008
Automated Process Approved IPR005905 (IPR005905 D-alanine--D-alanine ligase) Apr 2008
Automated Process Approved IPR011127 (IPR011127 D-alanine--D-alanine ligase, N-terminal domain) Apr 2008
Automated Process Approved IPR011095 (IPR011095 D-alanine--D-alanine ligase, C-terminal) Apr 2008
Automated Process Approved IPR016185 (IPR016185 Pre-ATP-grasp domain superfamily) Jul 2018
Automated Process Approved PF07478 (PF07478 D-ala D-ala ligase C-terminus) Jul 2018
Automated Process Approved PF01820 (PF01820 D-ala D-ala ligase N-terminus) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0009252 peptidoglycan biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0009252 peptidoglycan biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000291
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005618 cell wall GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011127
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005905
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Approved GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO molecular function GO:0005524 ATP binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013817
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0008716 D-alanine-D-alanine ligase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000291
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:IPR013817
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name ddlA Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW0372 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK0376 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b0381 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product D-alanine-D-alanine ligase A Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name D-alanine-D-alanine ligase A Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR016185 Pre-ATP-grasp domain superfamily Protein Sequence Similarity - InterPro Domain: IPR016185
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR013817 (DEPRECATED) Pre-ATP-grasp fold Protein Sequence Similarity - InterPro Domain: IPR013817
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR000291 D-alanine--D-alanine ligase/VANA/B/C, conserved site Protein Sequence Similarity - InterPro Domain: IPR000291
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF01820 D-ala D-ala ligase N-terminus Protein Sequence Similarity - PFAM Model Name: PF01820
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF07478 D-ala D-ala ligase C-terminus Protein Sequence Similarity - PFAM Model Name: PF07478
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR011095 D-alanine--D-alanine ligase, C-terminal Protein Sequence Similarity - InterPro Domain: IPR011095
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR005905 D-alanine--D-alanine ligase Protein Sequence Similarity - InterPro Domain: IPR005905
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR011127 D-alanine--D-alanine ligase, N-terminal domain Protein Sequence Similarity - InterPro Domain: IPR011127
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR013816 (DEPRECATED) ATP-grasp fold, subdomain 2 Protein Sequence Similarity - InterPro Domain: IPR013816
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR011761 ATP-grasp fold Protein Sequence Similarity - InterPro Domain: IPR011761
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 6.3.2.4 Published Annotation - Swiss-Prot Accession Number: P0A6J8 Feb 2006
Person Uncurated MultiFun 1.6.7 (metabolism; macromolecules (cellular constituent) biosynthesis; peptidoglycan (murein)) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.1 (location of gene products; cytoplasm) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 6.2 (cell structure; peptidoglycan (murein)) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
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 GeneID:945313 Published Annotation - Entrez Gene Database ID: 945313
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P0A6J8 Published Annotation - Swiss-Prot Accession Number: P0A6J8 Jan 2006
Automated Process Approved db xref GI:1786579 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P0A6J8 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0001309 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG10213 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Murein sacculus, peptidoglycan Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0005737 - cytoplasm; GO_process: GO:0009252 - peptidoglycan biosynthetic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC73484.1 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 iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 2009
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:0009252 peptidoglycan biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000291
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0009252 peptidoglycan biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Approved GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved 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 cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005905
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO cellular component GO:0005618 cell wall GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011127
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0005524 ATP binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013817
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0008716 D-alanine-D-alanine ligase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000291
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:IPR013817
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-0000094 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002380 ddlA CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002225 ddlA CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002474 ddlA CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002165 ddlA CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0000925 ddlA CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0003232 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0001132 ddl_2 CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0001661 ddl_2 CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0008409 CDS
Person Uncurated Go view Dickeya dadantii 3937 ABF-0016418 ddlA CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0000745 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0001366 CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0000534 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0008176 ddlA CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0000444 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006136 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000358 ddlA CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003942 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0009249 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008456 ddlA CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0006897 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0076561 ddlA CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0000440 ddlA CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0000531 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0007015 ddlA CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0009008 ddlA CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0000336 ddlA CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0004856 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0002389 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0010625 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008207 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0009754 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0007939 ddlA CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0005292 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0008913 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0009023 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0008840 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0007743 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0007162 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0007969 ddlA CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0006515 ddlA CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0024368 ddlA CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0008664 ddlA CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005128 ddlA CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0000789 ddl CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000382 ddlA CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0000384 ddlA CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0000574 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0000525 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0000554 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0000482 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0174577 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0000410 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0000409 ddlA CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0130322 ddlA CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0005054 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0000399 ddlA CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0000869 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0000324 ddl CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0003343 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0008220 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0002600 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0003143 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0002731 ddlA CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0001272 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0003540 ddlA CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0000614 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0011199 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000241 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0290431 ddlA CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0006470 ddlA CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0004255 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0004594 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0002678 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0000491 ddlA CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0004693 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0001226 ddlA CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0001203 ddlA CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0005759 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0004842 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0004198 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0004703 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006742 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0008861 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0004792 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0006932 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0002343 ddlA misc_feature
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0003226 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0005082 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0007032 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0004524 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0006743 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0106094 ddlA CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0084199 ddlA CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0000449 ddl_1 CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0091733 ddlA CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0009118 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0005457 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0006465 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0004472 CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0265798 ddlA CDS
Person Approved Go view Shigella boydii 227 ADV-0000303 ddlA CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0005694 ddlA CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0005005 ddlA CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0000406 ddlA CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0071194 ddlA CDS
Person Approved Go view Shigella flexneri 301 ABT-0086595 ddlA CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0000360 ddlA CDS
Person Approved Go view Shigella sonnei 046 ADD-0000385 ddlA CDS
Person Uncurated Go view Wigglesworthia morsitans AEQ-0000374 ddlA CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0009290 ddlA CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0001931 ddlA CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001824 ddlA CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0008812 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0001482 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 394829 to 405923
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0001290iprACDSforward394506395129Downstream
ABE-0001292ampHCDScomplement395130396287Downstream
ABE-0001297sbmACDSforward396639397859Downstream
ABE-0001299yaiWCDSforward397872398966Downstream
ABE-0285357repeat_regionforward398980399014Downstream
ABE-0001302yaiYCDScomplement399025399333Downstream
ABE-0001307yaiZCDSforward399593399805Downstream
ABE-0001309ddlACDScomplement399829400923Matches
ABE-0001313iraPCDSforward401386401646Upstream
ABE-0001328phoACDSforward401747403162Upstream
ABE-0001330psiFCDSforward403281403601Upstream
ABE-0001336dgcCCDSforward403703404818Upstream
ABE-0001338proCCDScomplement404835405644Upstream
ABE-0001344yaiICDSforward405764406222Upstream
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.