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

ABE-0007156 (rihB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0007156 showshow history
Names
rihB JW2149 ECK2155 yeiK b2162
Product
ribonucleoside hydrolase 2
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 2254245 2255186 942 314
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR001910 (IPR001910 Inosine/uridine-preferring nucleoside hydrolase domain) Apr 2008
Automated Process Approved IPR023186 (IPR023186 Inosine/uridine-preferring nucleoside hydrolase) Jul 2018
Automated Process Approved IPR036452 (IPR036452 Ribonucleoside hydrolase-like) Jul 2018
Automated Process Approved PF01156 (PF01156 Inosine-uridine preferring nucleoside hydrolase) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
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
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name rihB Experimental - PubMed ID: 11027694
Reference: Escherichia coli 		Aug 2002
Person Approved synonym ECK2155 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW2149 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym yeiK Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved locus tag b2162 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product ribonucleoside hydrolase 2 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name ribonucleoside hydrolase 2, pyrimidine-specific, silent Published Annotation - Database Name: GenProtEC Jan 2006
Person Approved alternate product name pyrimidine specific nucleoside hydrolase Experimental - PubMed ID: 11027694
Reference: Escherichia coli 		Jan 2006
Protein Family
Automated Process Approved protein family IPR001910 Inosine/uridine-preferring nucleoside hydrolase domain Protein Sequence Similarity - InterPro Domain: IPR001910
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF01156 Inosine-uridine preferring nucleoside hydrolase Protein Sequence Similarity - PFAM Model Name: PF01156
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR023186 Inosine/uridine-preferring nucleoside hydrolase Protein Sequence Similarity - InterPro Domain: IPR023186
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR036452 Ribonucleoside hydrolase-like Protein Sequence Similarity - InterPro Domain: IPR036452
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Uncurated EC number 3.2.-.- Protein Sequence Similarity - InterPro Domain: IPR001910
Reference: Escherichia coli K-12 MG1655 		Dec 2008
Person Uncurated MultiFun 1.7.1 (metabolism; central intermediary metabolism; unassigned reversible reactions) 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:EG12030 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0007156 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P33022 Published Annotation - Swiss-Prot Accession Number: P33022 Jan 2005
Automated Process Approved db xref GI:1788486 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:946646 Published Annotation - Entrez Gene Database ID: 946646
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref UniProtKB/Swiss-Prot:P33022 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC75223.1 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
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 cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0003280 rihB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0003333 rihB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002790 rihB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003159 rihB CDS
Ortholog
Person Uncurated Go view Dickeya dadantii 3937 ABF-0019087 CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0306800 CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0003481 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0005118 CDS
Automated Process Uncurated Go view Escherichia coli 536 (UPEC) AEF-0002220 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0009176 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0002111 rihB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0002164 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0007106 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006589 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0005456 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0078832 rihB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0002497 rihB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0002824 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009780 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005779 CDS
Automated Process Uncurated Go view Escherichia coli E2348/69 (EPEC) BCI-0002453 rihB CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0006895 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0000524 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0006634 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0005161 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0006602 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0010726 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0008138 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005795 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0005921 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0010747 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0007206 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0009376 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0008851 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0009252 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0027139 rihB CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0004994 rihB CDS
Automated Process Approved Go view Escherichia coli HS ADR-0006972 CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0002738 rihB CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002033 rihB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002228 rihB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0002649 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0002593 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0002544 CDS
Automated Process Uncurated Go view Escherichia coli SE11 AFS-0002470 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0002308 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133062 CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0000231 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0002443 yeiK CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0000550 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0003009 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0000714 CDS
Person Uncurated Go view Shigella boydii 227 ADV-0002402 yeiK CDS
Automated Process Uncurated Go view Shigella boydii BS512 ADJ-0006201 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003532 CDS
Person Uncurated Go view Shigella dysenteriae 197 ADU-0002424 yeiK CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0073505 yeiK CDS
Person Approved Go view Shigella flexneri 301 ABT-0088512 yeiK CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0002402 yeiK CDS
Person Approved Go view Shigella sonnei 046 ADD-0002428 rihB CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0006460 rihB 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 2249245 to 2260186
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0007138yeiECDScomplement22487372249618Downstream
ABE-0007142yeiHCDSforward22497172250766Downstream
ABE-0007146nfoCDSforward22508402251697Downstream
ABE-0007149yeiICDSforward22517002252788Downstream
ABE-0285497repeat_regionforward22527962252886Downstream
ABE-0007152nupXCDScomplement22528952254145Downstream
ABE-0007156rihBCDScomplement22542452255186Matches
ABE-0007160yeiLCDSforward22553552256014Upstream
ABE-0285498repeat_regionforward22560382256074Upstream
ABE-0007163psuTCDScomplement22560852257335Upstream
ABE-0007165psuGCDScomplement22574292258367Upstream
ABE-0007168psuKCDScomplement22583552259296Upstream
ABE-0007172fruACDScomplement22597192261410Upstream
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.