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

ABE-0011362 (nikE) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0011362 showshow history
Names
nikE hydC JW3445 ECK3464 hydD b3480
Product
ATP-binding component of an ABC superfamily nickel transporter
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 3617776 3618582 807 269
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR003439 (IPR003439 ABC transporter-like) Apr 2008
Automated Process Approved IPR003593 (IPR003593 AAA+ ATPase domain) Apr 2008
Automated Process Approved IPR014137 (IPR014137 Nickel import ATP-binding protein NikE) Apr 2008
Automated Process Approved IPR027417 (IPR027417 P-loop containing nucleoside triphosphate hydrolase) Jul 2018
Automated Process Approved PF00005 (PF00005 ABC transporter) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0009060 aerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO biological process GO:0015675 nickel cation transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO biological process GO:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
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 cellular component GO:0005886 plasma membrane GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO molecular function GO:0015413 ABC-type nickel transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO molecular function GO:0016151 nickel cation binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0017111 nucleoside-triphosphatase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003593
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0000166 nucleotide binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003593
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:IPR003439
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016887 ATPase GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003439
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name nikE Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym hydD Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved synonym ECK3464 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym hydC Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW3445 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3480 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product ATP-binding component of an ABC superfamily nickel transporter Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Mar 2008
Person Uncurated alternate product name nickel transport protein (ABC superfamily, atp_bind) Published Annotation - Database Name: GenProtEC Jan 2006
Automated Process Approved alternate product name nickel transporter subunit Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved alternate product name ATP-binding protein of nickel transport system Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Automated Process Approved protein family IPR014137 Nickel import ATP-binding protein NikE Protein Sequence Similarity - InterPro Domain: IPR014137
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR027417 P-loop containing nucleoside triphosphate hydrolase Protein Sequence Similarity - InterPro Domain: IPR027417
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00005 ABC transporter Protein Sequence Similarity - PFAM Model Name: PF00005
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR003593 AAA+ ATPase domain Protein Sequence Similarity - InterPro Domain: IPR003593
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR003439 ABC transporter-like Protein Sequence Similarity - InterPro Domain: IPR003439
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 3.6.3.24 Published Annotation - Swiss-Prot Accession Number: P33594 Feb 2006
Automated Process Uncurated EC number 3.6.1.3 Published Annotation - Database Name: EC2GO: GO:0016887
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated MultiFun 1.3.6 (metabolism; energy metabolism, carbon; aerobic respiration) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.3.7 (metabolism; energy metabolism, carbon; anaerobic respiration) 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 4.3.A.1.a (transport; Primary Active Transporters; Pyrophosphate Bond (ATP, GTP, P2) Hydrolysis-driven Active Transporters; The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases; ABC superfamily ATP binding cytoplasmic component) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.S.143 (transport; substrate; Ni++) 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 EcoGene:EG12079 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0011362 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P33594 Published Annotation - Swiss-Prot Accession Number: P33594 Jan 2005
Automated Process Approved db xref GeneID:947987 Published Annotation - Entrez Gene Database ID: 947987
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1789891 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P33594 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function transport; Transport of small molecules: Cations Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note ATP-binding protein of nickel transport system; ATP-binding component of ABC superfamily; GO_component: GO:0005737 - cytoplasm; GO_process: GO:0009060 - aerobic respiration; GO_process: GO:0009061 - anaerobic respiration Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC76505.1 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: 9.12
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 Uncurated GO biological process GO:0015675 nickel cation transport GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated GO biological process GO:0009060 aerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO biological process GO:0009061 anaerobic respiration Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
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
Person Uncurated GO cellular component GO:0005737 cytoplasm Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0005886 plasma membrane GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0000166 nucleotide binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003593
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0016151 nickel cation binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0017111 nucleoside-triphosphatase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003593
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0015413 ABC-type nickel transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR014137
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0016887 ATPase GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003439
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:IPR003439
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 (205 gammaproteobacteria) APP-0003619 nikE CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003870 nikE CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003369 nikE CDS
Ortholog
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0000273 nikE CDS
Automated Process Uncurated Go view Dickeya dadantii 3937 ABF-0015790 CDS
Person Uncurated Go view Enterobacter sp. 638 AEL-0002270 nikE CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001424 nikE CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0004843 nikE CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0003613 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0007612 nikE CDS
Person Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003534 nikE CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0000709 nikE CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0005594 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006503 nikE CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005385 NikE CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0080449 nikE CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0003969 nikE CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004615 nikE CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005267 nikE CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0003960 nikE CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008397 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0004773 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008157 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006670 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0006216 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005207 nikE CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0009654 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005292 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0007468 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005249 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0005317 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0005156 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005046 nikE CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0005645 nikE CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0028524 nikE CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0005478 nikE CDS
Automated Process Approved Go view Escherichia coli HS ADR-0008368 nikE CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0003979 nikE CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003241 nikE CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003891 nikE CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004126 nikE CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004120 nikE CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0003824 nikE CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0003985 nikE CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003819 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003761 nikE CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0134419 nikE CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0002698 CDS
Person Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004006 nikE CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0003902 nikE CDS
Person Approved Go view Shigella boydii 227 ADV-0003796 nikE CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0009260 nikE CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003418 nikE CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0004115 nikE CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0075567 nikE CDS
Person Approved Go view Shigella flexneri 301 ABT-0089731 nikE CDS
Person Approved Go view Shigella flexneri 8401 BAG-0003697 nikE CDS
Person Approved Go view Shigella sonnei 046 ADD-0004053 nikE 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 3612776 to 3623582
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0011347yhhTCDSforward36118653612914Upstream
ABE-0011351acpTCDSforward36129693613556Upstream
ABE-0011354nikACDSforward36136673615241Upstream
ABE-0011356nikBCDSforward36152413616185Upstream
ABE-0011358nikCCDSforward36161823617015Upstream
ABE-0011360nikDCDSforward36170153617779Overlaps Upstream
ABE-0011362nikECDSforward36177763618582Matches
ABE-0011366nikRCDSforward36185883618989Downstream
ABE-0011371rhsBCDSforward36191923623427Downstream
ABE-0011373yhhHCDSforward36233993623782Downstream
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.