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

ABE-0006762 (rfbA) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0006762 showshow history
Names
rfbA ECK2033 JW2024 rmlA1 rmlA som b2039
Product
glucose-1-phosphate thymidylyltransferase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 2110138 2111019 882 294
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR005835 (IPR005835 Nucleotidyl transferase domain) Apr 2008
Automated Process Approved IPR005907 (IPR005907 Glucose-1-phosphate thymidylyltransferase, short form) Apr 2008
Automated Process Approved IPR029044 (IPR029044 Nucleotide-diphospho-sugar transferases) Jul 2018
Automated Process Approved PF00483 (PF00483 Nucleotidyl transferase) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0009058 biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005835
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Approved GO biological process GO:0009243 O antigen biosynthetic process Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Feb 2005
Person Approved GO biological process GO:0051289 protein homotetramerization Experimental - PubMed ID: 11697907
Reference: Escherichia coli 		Jul 2005
Automated Process Approved GO biological process GO:0045226 extracellular polysaccharide biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005907
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Approved GO biological process GO:0019305 dTDP-rhamnose biosynthetic process Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Feb 2005
Person Approved GO biological process GO:0009103 lipopolysaccharide biosynthetic process Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Feb 2005
Person Approved GO cellular component GO:0005737 cytoplasm Experimental - PubMed ID: 10455186 Feb 2005
Automated Process Approved GO molecular function GO:0008879 glucose-1-phosphate thymidylyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005907
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0016779 nucleotidyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005835
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Approved GO molecular function GO:0000287 magnesium ion binding Experimental - PubMed ID: 11697907
Reference: Escherichia coli 		Jan 2005
Person Approved GO molecular function GO:0008879 glucose-1-phosphate thymidylyltransferase activity Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Aug 2005
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name rfbA Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Feb 2005
Person Approved synonym JW2024 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK2033 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym rmlA Published Sequence Analysis - PubMed ID: 9004408 Jan 2005
Person Approved synonym som Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved synonym rmlA1 Published Annotation - Swiss-Prot Accession Number: P37744 Jan 2005
Person Approved locus tag b2039 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product glucose-1-phosphate thymidylyltransferase Published Sequence Analysis - PubMed ID: 7517391 Feb 2005
Person Approved alternate product name dTDP-glucose pyrophosphorylase Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family PF00483 Nucleotidyl transferase Protein Sequence Similarity - PFAM Model Name: PF00483
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR029044 Nucleotide-diphospho-sugar transferases Protein Sequence Similarity - InterPro Domain: IPR029044
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR005835 Nucleotidyl transferase domain Protein Sequence Similarity - InterPro Domain: IPR005835
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR005907 Glucose-1-phosphate thymidylyltransferase, short form Protein Sequence Similarity - InterPro Domain: IPR005907
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 2.7.7.24 Published Annotation - Swiss-Prot Accession Number: P37744 Feb 2006
Automated Process Uncurated EC number 2.7.7.- Published Annotation - Database Name: EC2GO: GO:0016779
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Approved MultiFun 1.6.3.1 (metabolism; macromolecules (cellular constituent) biosynthesis; lipopolysaccharide; O antigen) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Approved MultiFun 6.1 (cell structure; membrane) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Approved MultiFun 6.3 (cell structure; surface antigens (ECA, O antigen of LPS)) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Approved MultiFun 7.1 (location of gene products; cytoplasm) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Person Approved MultiFun 1.7.10 (metabolism; central intermediary metabolism; sugar nucleotide biosynthesis, conversions) 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
Person Uncurated comment In comparison with its orthologs, the K-12 version of this protein exhibits C-terminal variability. Unpublished Sequence Analysis - Author Name, Email; Comment: Eric Neeno-Eckwall, ecneenoeckwa@wisc.edu
Reference: Escherichia coli K-12 		Mar 2009
Automated Process Approved db xref ASAP:ABE-0006762 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG11978 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1788351 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref UniProtKB/Swiss-Prot:P37744 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P37744 Published Annotation - Swiss-Prot Accession Number: P37744 Jan 2005
Person Uncurated db xref NCBI_gi:510250 Published Annotation - GenPept Accession Number: 510250 Feb 2005
Person Uncurated db xref NCBI_gi:2665491 Published Annotation - GenPept Accession Number: 2665491 Feb 2005
Automated Process Approved db xref GeneID:945154 Published Annotation - Entrez Gene Database ID: 945154
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved function 6.3 cell structure; surface antigens (ECA, O antigen of LPS) Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function 1.7.10 metabolism; central intermediary metabolism; sugar nucleotide biosynthesis, conversions Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function 6.1 cell structure; membrane Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function 7.1 location of gene products; cytoplasm Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved function 1.6.3.1 metabolism; macromolecules (cellular constituent) biosynthesis; lipopolysaccharide; O antigen Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function first of four steps in the biosynthesis of dTDP-L-rhamnose from glucose-1-phosphate Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Aug 2005
Person Approved function enzyme; Central intermediary metabolism: Sugar-nucleotide biosynthesis, conversions Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved function biosynthesis of L-rhamnose component of O-antigen Experimental - PubMed ID: 751391
Reference: Escherichia coli 		Aug 2005
Person Approved function converts a-D-glucose-1-phosphate to dTDP-glucose Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Aug 2005
Automated Process Approved note dTDP-glucose pyrophosphorylase; GO_component: GO:0005737 - cytoplasm; GO_function: GO:0042280 - cell surface antigen activity, host-interacting; GO_function: GO:0000287 - magnesium ion binding; GO_process: GO:0009243 - O antigen biosynthetic process; GO_process: GO:0019305 - dTDP-rhamnose biosynthetic process; GO_process: GO:0009103 - lipopolysaccharide biosynthetic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75100.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved structure PDB:1H5R, wt, whole protein, co-crystallized with alpha-D-glucose-1-phosphate, thymidine:1.90 A; X-ray diffraction. Experimental - PubMed ID: 11697907
Reference: Escherichia coli 		Jan 2005
Person Approved structure PDB:1HST, wt, whole protein, co-crystallized with 2'deoxy-thymidine-5'-diphospho-alpha-D-glucose thymidine-5'-diphosphate:1.90 A; X-ray diffraction. Experimental - PubMed ID: 11697907
Reference: Escherichia coli 		Jan 2005
Person Approved structure PDB:1H5S, wt, whole protein, co-crystallized with thymidine-5'-phosphate:2.30 A, X-ray diffraction. Experimental - PubMed ID: 11697907
Reference: Escherichia coli 		Jan 2005
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
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
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:0009058 biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005835
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Approved GO biological process GO:0009243 O antigen biosynthetic process Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Feb 2005
Person Approved GO biological process GO:0051289 protein homotetramerization Experimental - PubMed ID: 11697907
Reference: Escherichia coli 		Jul 2005
Person Approved GO biological process GO:0009103 lipopolysaccharide biosynthetic process Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Feb 2005
Person Approved GO biological process GO:0019305 dTDP-rhamnose biosynthetic process Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Feb 2005
Automated Process Approved GO biological process GO:0045226 extracellular polysaccharide biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005907
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Approved GO cellular component GO:0005737 cytoplasm Experimental - PubMed ID: 10455186 Feb 2005
Person Approved GO molecular function GO:0000287 magnesium ion binding Experimental - PubMed ID: 11697907
Reference: Escherichia coli 		Jan 2005
Automated Process Approved GO molecular function GO:0016779 nucleotidyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005835
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Approved GO molecular function GO:0008879 glucose-1-phosphate thymidylyltransferase activity Experimental - PubMed ID: 7517391
Reference: Escherichia coli 		Aug 2005
Automated Process Approved GO molecular function GO:0008879 glucose-1-phosphate thymidylyltransferase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR005907
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-0006765 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000065 rfbA CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000064 rfbA CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0000073 rfbA CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000082 rfbA CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0002805 rfbA CDS
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0003591 rfbA CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0003495 rfbA CDS
Automated Process Uncurated Go view Escherichia coli APEC O1 (APEC) AEG-0001984 rmlA CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0007247 rmlA CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0008010 CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0006767 rfbA1 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0001915 rfbA CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002096 rfbA CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0002317 rfbA CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0000825 rfbA CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0001859 CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0002219 CDS
Automated Process Approved Go view Pantoea ananatis PA13 APK-0001586 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0010321 CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0005729 rfbA CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0006389 rfbA CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0006702 rfbA CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0006674 rfbA CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0006346 rfbA CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0004319 rfbA CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0006683 rfbA CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0005983 rfbA CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0006429 rfbA CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0004068 rfbA CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0005815 rfbA CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0006640 rfbA CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0007632 rfbA CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0000774 CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0000771 rfbA CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0000942 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0006872 rfbA CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0006323 rfbA CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0006407 rfbA CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0005630 rfbA CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0109672 rfbA CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0082490 rfbA CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0002593 rfbA CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0096702 rfbA CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0004703 rfbA CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005371 rfbA CDS
Person Uncurated Go view Shigella boydii 227 ADV-0000944 rfbA CDS
Automated Process Uncurated Go view Shigella boydii BS512 ADJ-0006595 rfbA1 CDS
Person Uncurated Go view Shigella dysenteriae 197 ADU-0002543 rfbA CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0073339 rfbA CDS
Person Approved Go view Shigella flexneri 301 ABT-0088387 rfbA CDS
Automated Process Uncurated Go view Shigella flexneri 8401 BAG-0002250 rfbA 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 2105138 to 2116019
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0006751wbbICDScomplement21050652106057Downstream
ABE-0006753wbbHCDScomplement21060602107226Downstream
ABE-0006755glfCDScomplement21072262108329Downstream
ABE-0006757rfbXCDScomplement21083372109584Downstream
ABE-0006759rfbCCDScomplement21095812110138Overlaps Downstream
ABE-0006762rfbACDScomplement21101382111019Matches
ABE-0006764rfbDCDScomplement21110772111976Upstream
ABE-0006766rfbBCDScomplement21119762113061Upstream
ABE-0006771galFCDScomplement21134342114327Upstream
ABE-0006774wcaMCDScomplement21145022115896Upstream
ABE-0006777wcaLCDScomplement21159072117127Upstream
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.