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

ABE-0003789 (potD) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0003789 showshow history
Names
potD JW1109 ECK1109 b1123
Product
periplasmic-binding component of an ABC superfamily polyamine transporter
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 1181783 1182829 1047 349
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR011587 (IPR011587 (DEPRECATED) Prokaryotic extracellular metal-binding protein) Apr 2008
Automated Process Approved IPR001188 (IPR001188 Bacterial periplasmic spermidine/putrescine-binding protein) Apr 2008
Automated Process Approved IPR006059 (IPR006059 Bacterial extracellular solute-binding protein) Apr 2008
Automated Process Approved PF13416 (PF13416 Bacterial extracellular solute-binding protein) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0006596 polyamine biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011587
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0009310 amine catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001188
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO cellular component GO:0042597 periplasmic space Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Uncurated GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011587
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name potD Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW1109 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK1109 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b1123 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product periplasmic-binding component of an ABC superfamily polyamine transporter Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Mar 2008
Person Approved alternate product name spermidine/putrescine periplasmic transport protein Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Automated Process Approved alternate product name polyamine transporter subunit Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated alternate product name spermidine/putrescine transport protein (ABC superfamily, peri_bind) Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR001188 Bacterial periplasmic spermidine/putrescine-binding protein Protein Sequence Similarity - InterPro Domain: IPR001188
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR006059 Bacterial extracellular solute-binding protein Protein Sequence Similarity - InterPro Domain: IPR006059
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF13416 Bacterial extracellular solute-binding protein Protein Sequence Similarity - PFAM Model Name: PF13416
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR011587 (DEPRECATED) Prokaryotic extracellular metal-binding protein Protein Sequence Similarity - InterPro Domain: IPR011587
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Uncurated MultiFun 4.3.A.1.p (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, periplasmic binding component) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 7.2 (location of gene products; periplasmic space) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 4.S.166 (transport; substrate; putrescine/spermidine) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.1.4 (metabolism; carbon utilization; amines) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Uncurated MultiFun 1.7.14 (metabolism; central intermediary metabolism; polyamine biosynthesis) 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:EG10752 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P0AFK9 Published Annotation - Swiss-Prot Accession Number: P0AFK9 Jan 2006
Automated Process Approved db xref GeneID:945682 Published Annotation - Entrez Gene Database ID: 945682
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1787367 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0003789 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P0AFK9 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function transport; Transport of small molecules: Amino acids, amines Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note spermidine/putrescine periplasmic transport protein; periplasmic-binding component of ABC superfamily; GO_component: GO:0042597 - periplasmic space; GO_process: GO:0006596 - polyamine biosynthetic process; GO_process: GO:0009310 - amine catabolic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC74207.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Periplasmic Predicted by PSORTb - PSORTb Final_Score: 10.00
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 Approved GO biological process GO:0006810 transport GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011587
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0006596 polyamine biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO biological process GO:0009310 amine catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Person Uncurated GO cellular component GO:0042597 periplasmic space Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR001188
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0030288 outer membrane-bounded periplasmic space GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Approved GO molecular function GO:0005215 transporter activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR011587
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-0002862 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002463 potD CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002443 potD CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0003850 potD CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002365 potD CDS
Ortholog
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0002238 CDS
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0001672 CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0002479 CDS
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0001953 potD CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0002500 potD CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0002225 CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0003751 potD CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0009076 potD CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0001127 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0005350 potD CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0001039 potD CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003254 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008291 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0009602 potD CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0008992 PotD CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0077502 potD CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0001218 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0001451 potD CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009601 potD CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0010276 potD CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0001289 potD CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0005689 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0006416 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0010218 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0009248 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0010010 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0009434 potD CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0006341 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0009352 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0010128 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0009718 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0010756 potD CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0010135 potD CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0008203 potD CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0010361 potD CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0025560 potD CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0008210 potD CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005921 potD CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0001610 potD CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0001074 potD CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0001135 potD CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001625 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001425 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001376 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0001336 potD CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0175419 potD CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001216 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002002 potD CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0131446 potD CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0000357 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0001254 potD CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0002724 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001133 potD CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0004101 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0009267 CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0004690 potD CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0062716 potD CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0001447 potD CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0001826 potD CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0004313 potD CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0006704 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0006136 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0001847 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0001381 potD CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0006415 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0005946 potD CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0005739 potD CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0008596 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0005701 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0007929 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0008130 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0007454 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0004793 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0005691 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0008449 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0001640 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0001628 potD CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0002308 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0005870 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0008830 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0005387 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0008293 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0107645 potD CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0083412 potD CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0001399 potD CDS
Person Uncurated Go view Salmonella Typhimurium LT2 [T] ABU-0094215 potD CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0008225 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0008488 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0006265 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0003787 CDS
Person Approved Go view Shigella boydii 227 ADV-0002155 potD CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0007613 potD CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0006331 potD CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0002342 potD CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0072260 potD CDS
Person Approved Go view Shigella flexneri 301 ABT-0087468 potD CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0001212 potD CDS
Person Approved Go view Shigella sonnei 046 ADD-0001227 potD CDS
Person Uncurated Go view Trabulsiella guamensis ATCC 49490 [T] APH-0000918 CDS
Person Uncurated Go view Vibrio cholerae N16961 ADH-0001496 VC1424 CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0006610 potD CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0011910 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0004258 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
FB20257mutantTn5 InsertionRequest the StrainABE-0003789potDpotD::Tn5KAN-2 at position 632 in Minus orientation ,- pKD460Blattner 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 1176783 to 1187829
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0003774lolDCDSforward11766191177320Downstream
ABE-0003776lolECDSforward11773201178564Downstream
ABE-0003778nagKCDSforward11785931179504Downstream
ABE-0003781cobBCDSforward11795201180359Downstream
ABE-0285431repeat_regionforward11803541180449Downstream
ABE-0003784ycfZCDScomplement11804791181267Downstream
ABE-0003786ymfACDScomplement11812641181725Downstream
ABE-0003789potDCDScomplement11817831182829Matches
ABE-0003791potCCDScomplement11828261183620Overlaps Upstream
ABE-0003794potBCDScomplement11836171184444Upstream
ABE-0003796potACDScomplement11844581185594Upstream
ABE-0003800pepTCDSforward11858441187070Upstream
ABE-0285432repeat_regionforward11870831187106Upstream
ABE-0003802roxACDScomplement11871191188240Upstream
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.