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

ABE-0013426 (phnJ) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013426 showshow history
Names
phnJ JW4059 ECK4091 b4098
Product
carbon-phosphorus lyase complex subunit
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4318761 4319606 846 282
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR010306 (IPR010306 Alpha-D-ribose 1-methylphosphonate 5-phosphate C-P-lyase) Apr 2008
Automated Process Approved PF06007 (PF06007 Phosphonate metabolism protein PhnJ) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Uncurated GO biological process GO:0019700 organic phosphonate catabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010306
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO biological process GO:0042916 (DEPRECATED) alkylphosphonate transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR010306
Reference: Escherichia coli K-12 MG1655 		Apr 2008
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:0051539 4 iron, 4 sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010306
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO molecular function GO:0016829 lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010306
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name phnJ Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW4059 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK4091 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b4098 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product carbon-phosphorus lyase complex subunit Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name phosphonate metabolism Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Person Uncurated alternate product name conserved protein in phn operon Published Annotation - Database Name: GenProtEC Jan 2006
Automated Process Approved alternate product name carbon-phosphorus lyase, SAM-dependent Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Protein Family
Automated Process Approved protein family IPR010306 Alpha-D-ribose 1-methylphosphonate 5-phosphate C-P-lyase Protein Sequence Similarity - InterPro Domain: IPR010306
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF06007 Phosphonate metabolism protein PhnJ Protein Sequence Similarity - PFAM Model Name: PF06007
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Automated Process Uncurated EC number 4.-.-.- Published Annotation - Database Name: EC2GO: GO:0016829
Reference: Escherichia coli K-12 MG1655 		Jul 2018
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:EG10719 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0013426 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P16688 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948606 Published Annotation - Entrez Gene Database ID: 948606
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1790536 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P16688 Published Annotation - Swiss-Prot Accession Number: P16688 Jan 2005
Automated Process Approved function enzyme; Central intermediary metabolism: Phosphorus compounds Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note phosphonate metabolism Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC77059.1 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: 8.96
Reference: Escherichia coli K-12 MG1655 		Feb 2008
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:0042916 (DEPRECATED) alkylphosphonate transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR010306
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO biological process GO:0019700 organic phosphonate catabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010306
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:0016829 lyase activity GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010306
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Uncurated GO molecular function GO:0051539 4 iron, 4 sulfur cluster binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR010306
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-0002713 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002594 phnJ CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002592 phnJ CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002233 phnJ CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002836 phnJ CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0000386 phnJ CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0003849 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0004125 CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0000156 CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0007600 CDS
Person Uncurated Go view Dickeya dadantii 3937 ABF-0020694 phnJ CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0002678 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000617 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0006384 phnJ CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004392 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006869 phnJ CDS
Person Approved Go view Escherichia coli APEC O1 (APEC) AEG-0005572 phnJ CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004703 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010080 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006313 phnJ CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009827 PhnJ CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081310 phnJ CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004769 phnJ CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005365 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006187 phnJ CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006649 phnJ CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004724 phnJ CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0009089 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0003158 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008938 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007451 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007097 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0006227 phnJ CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010441 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0007113 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008257 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0007228 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0005808 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006555 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005976 phnJ CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0005077 phnJ CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029275 phnJ CDS
Automated Process Uncurated Go view Escherichia coli F11 (UPEC) ADQ-0007077 phnJ CDS
Automated Process Approved Go view Escherichia coli HS ADR-0009027 phnJ CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004707 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003790 phnJ CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0004186 phnJ CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004760 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004815 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004570 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004754 CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178927 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004497 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004556 phnJ CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0135193 phnJ CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0003350 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004702 phnJ CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0004064 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001305 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0004546 phnJ CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002727 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0005909 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0001743 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0001855 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0001726 phnJ CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0002306 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0002464 phnJ CDS
Automated Process Approved Go view Pantoea ananatis PA13 APK-0001682 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0010206 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0001447 CDS
Automated Process Approved Go view Pantoea stewartii DC283 ACV-0287249 phnJ CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0005609 phnJ CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0060709 phnJ CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0002925 phnJ CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0005513 CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0002607 phnJ CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0003537 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0000496 CDS
Person Approved Go view Shigella boydii 227 ADV-0004488 phnJ CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0004668 phnJ CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0004638 phnJ CDS
Person Approved Go view Shigella sonnei 046 ADD-0004641 phnJ CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0003284 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0001484 phnJ CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0002169 CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001602 phnJ CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0001881 CDS
Person Uncurated Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0235606 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0008154 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0003546 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0008406 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0003900 phnJ CDS
Person Uncurated Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0126990 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0006334 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0005821 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0002364 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0005810 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0004162 phnJ CDS
Person Uncurated Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0030359 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0006564 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000775 phnJ CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0003913 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0004987 phnJ CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0007582 phnJ CDS
Person Uncurated Go view Yersinia pseudotuberculosis IP32953 ACZ-0000551 phnJ CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0000642 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0004386 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0000789 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000538 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 4313761 to 4324606
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013405rpiBCDSforward43133504313799Downstream
ABE-0174120yjdPCDSforward43138684314197Downstream
ABE-0013412phnPCDScomplement43143444315102Downstream
ABE-0013415phnOCDScomplement43151044315538Downstream
ABE-0013417phnNCDScomplement43155254316082Downstream
ABE-0013419phnMCDScomplement43160824317218Downstream
ABE-0013421phnLCDScomplement43172154317895Downstream
ABE-0285676repeat_regionforward43179174317999Downstream
ABE-0013424phnKCDScomplement43180064318764Overlaps Downstream
ABE-0013426phnJCDScomplement43187614319606Matches
ABE-0013428phnICDScomplement43195994320663Overlaps Upstream
ABE-0013430phnHCDScomplement43206634321247Upstream
ABE-0013433phnGCDScomplement43212444321696Upstream
ABE-0013435phnFCDScomplement43216974322422Upstream
ABE-0013437phnE_2CDSpcomplement43224434322811Upstream
ABE-0285115phnEpseudogenecomplement43224434323230Upstream
ABE-0013439phnE_1CDSpcomplement43226614323230Upstream
ABE-0285677repeat_regionforward43232464323332Upstream
ABE-0013442phnDCDScomplement43233364324352Upstream
ABE-0013444phnCCDScomplement43243774325165Upstream
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.