rutB:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

YcdL

Synonyms

predicted enzyme[1], B1011[2][1], YcdL[2][1], RutB[2][1] , ECK1002, JW5139, ycdL, b1011

Product description

predicted isochorismatase[2][3]

Gene in rut operon for pyrimidine nitrogen catabolism; putative isochorismatase[4]

EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000868

F

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000868

P

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence
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Notes

Localization

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Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MPRPSTCADS GGGMMTTLTA RPEAITFDPQ QSALIVVDMQ NAYATPGGYL DLAGFDVSTT
RPVIANIQTA VTAARAAGML IIWFQNGWDE QYVEAGGPGS PNFHKSNALK TMRKQPQLQG
KLLAKGSWDY QLVDELVPQP GDIVLPKPRY SGFFNTPLDS ILRSRGIRHL VFTGIATNVC
VESTLRDGFF LEYFGVVLED ATHQAGPKFA QKAALFNIET FFGWVSDVET FCDALSPTSF AHIA
Length

244

Mol. Wt

26.557 kDa

pI

5.3 (calculated)

Extinction coefficient

30,940 - 31,315 (calc based on 6 Y, 4 W, and 3 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

18..216

PF00857 Isochorismatase family

PMID:19920124[5]

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=rutB taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:90111203

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945699

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003414

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P75897

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6522

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13858

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945699

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003122

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3618

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

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