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

ABE-0002227 (rihA) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0002227 showshow history
Names
rihA JW0646 ECK0644 ybeK b0651
Product
ribonucleoside hydrolase 1
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 683477 684412 936 312
Sequence

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View sequence with flanking regions: bases upstream and bases downstream

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
Person Uncurated GO biological process GO:0009226 nucleotide-sugar biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name rihA Experimental - PubMed ID: 11027694
Reference: Escherichia coli 		Aug 2002
Person Approved synonym ECK0644 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ybeK Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW0646 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b0651 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product ribonucleoside hydrolase 1 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name ribonucleoside hydrolase 1, pyrimidine-specific Published Annotation - Database Name: GenProtEC Jan 2006
Person Uncurated 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 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 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 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 1.7.10 (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
Automated Process Approved db xref EcoGene:EG12701 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0002227 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P41409 Published Annotation - Swiss-Prot Accession Number: P41409 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P41409 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:945503 Published Annotation - Entrez Gene Database ID: 945503
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1786871 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function orf; Not classified Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_process: GO:0009226 - nucleotide-sugar biosynthetic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC73752.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
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
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Gene Ontology
Person Uncurated GO biological process GO:0009226 nucleotide-sugar biosynthetic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0002367 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002435 rihA CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002302 rihA CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002602 rihA CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002256 rihA CDS
Ortholog
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0001466 rihA_2 CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0001996 rihA CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0001696 CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0000299 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0009266 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0000678 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0005871 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0000580 ybeK CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0003702 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008940 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0009544 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009117 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0076811 rihA CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0000704 rihA CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0000811 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0007525 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006974 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0000568 rihA CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0005126 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0005949 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0010915 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0008495 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0005761 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0010335 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0005583 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0010170 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0009315 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0010193 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006529 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0010224 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0010152 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0006806 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0024638 rihA CDS
Automated Process Uncurated Go view Escherichia coli F11 (UPEC) ADQ-0009230 rihA CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005377 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0000645 rihA CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0000661 rihA CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0000850 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0000902 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0000814 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0000728 rihA CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0174825 rihA CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0000731 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0000671 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0130584 rihA CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0005337 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0000649 ybeK CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001944 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0001917 CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0003596 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0006060 CDS
Person Uncurated Go view Pectobacterium atrosepticum SCRI1043 ABL-0064761 CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0002617 CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0000805 CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0002417 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0004882 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0002399 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0000816 ybeK CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0005039 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0002117 ybeK CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0002054 ybeK CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0008730 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0005143 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0004500 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0007925 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006114 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0004285 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0005088 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0007275 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0002094 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0002079 ybeK CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0002902 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0005378 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0006095 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0004904 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0005987 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0106659 ybeK CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0083926 ybeK CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0000770 rihA CDS
Person Uncurated Go view Salmonella Typhimurium LT2 [T] ABU-0092543 ybeK CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0008812 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0006557 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005054 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0004650 CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0264366 CDS
Person Approved Go view Shigella boydii 227 ADV-0000556 ybeK CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0005995 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0007256 CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0071647 ybeK CDS
Person Approved Go view Shigella flexneri 301 ABT-0086981 ybeK CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0000710 ybeK CDS
Person Approved Go view Shigella sonnei 046 ADD-0000652 rihA CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0003135 rihA_1 CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001199 rihA 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
FB22010mutantTn5 InsertionRequest the StrainABE-0002227rihAybeK::Tn5KAN-I-SceI at position 321 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 678477 to 689412
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0002210djlBCDSforward677415678842Downstream
ABE-0002213ybeTCDScomplement678852679406Downstream
ABE-0002220ybeUCDSforward679508680215Downstream
ABE-0002222djlCCDSforward680212681663Downstream
ABE-0285383repeat_regionforward681685681714Downstream
ABE-0002225hscCCDScomplement681723683393Downstream
ABE-0002227rihACDScomplement683477684412Matches
ABE-0002232gltLCDScomplement684530685255Upstream
ABE-0002234gltKCDScomplement685255685929Upstream
ABE-0002239gltJCDScomplement685929686669Upstream
ABE-0285767sroCncRNAcomplement686681686843Upstream
ABE-0285384repeat_regionforward686750686774Upstream
ABE-0002241gltICDScomplement686839687747Upstream
ABE-0002243is_elementforward687851689045Upstream
ABE-0285385mobile_elementcomplement687851689045Upstream
ABE-0002246insH3CDScomplement687997688977Upstream
ABE-0285386repeat_regionforward689264689297Upstream
ABE-0002250lntCDScomplement689343690881Upstream
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.