cho:Gene Product(s)

From EcoliWiki
Revision as of 15:28, 11 September 2009 by Azweifel (talk | contribs) (Table edited by Azweifel via TableEdit)
Jump to navigation Jump to search

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
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

YdjQ

Synonyms

endonuclease of nucleotide excision repair[1], YdjQ[2][1], Cho[2][1], B1741[2][1]

Product description

endonuclease of nucleotide excision repair[2][3]

Endonuclease involved in excision repair, cuts 3' of lesion; requires UvrAB[4]

EC number (for enzymes)
edit table


Notes

Function

[back to top]


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(s) Evidence Code with/from Aspect Notes Status
GO:0006974

response to DNA damage stimulus

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0227

P

Seeded from EcoCyc [5]

complete

GO:0006281

DNA repair

GO_REF:0000002
GO_REF:0000004
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000305
SP_KW:KW-0228
SP_KW:KW-0234
SP_KW:KW-0742

P

Seeded from EcoCyc [5]

complete

GO:0005622

intracellular

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000305

C

Seeded from EcoCyc [5]

complete

GO:0004518

nuclease activity

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000305
SP_KW:KW-0267

F

Seeded from EcoCyc [5]

complete

GO:0009432

SOS response

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0742

P

Seeded from EcoCyc [5]

complete

GO:0016787

hydrolase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc [5]

complete

GO:0005515

protein binding

PMID:15690043[6]

IPI: Inferred from Physical Interaction

UniProtKB:P0A6F5

F

Seeded from EcoCyc [5]

complete

GO:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

required fields missing

GO:0004518

nuclease activity

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000305
SP_KW:KW-0267

F

Seeded from EcoCyc

complete

GO:0005515

protein binding

PMID:15690043[6]

IPI: Inferred from Physical Interaction

UniProtKB:P0A6F5

F

Seeded from EcoCyc

complete

GO:0005622

intracellular

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000305

C

Seeded from EcoCyc

complete

GO:0006281

DNA repair

GO_REF:0000002
GO_REF:0000004
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000305
SP_KW:KW-0228
SP_KW:KW-0234
SP_KW:KW-0742

P

Seeded from EcoCyc

complete

GO:0006974

response to DNA damage stimulus

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0227

P

Seeded from EcoCyc

complete

GO:0009432

SOS response

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0742

P

Seeded from EcoCyc

complete

GO:0016787

hydrolase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc

complete

GO:0006950

response to stress

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0006974

response to DNA damage stimulus

PMID:10760165[7]

IEP: Inferred from Expression Pattern

P

complete

edit table

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

Protein

groL

PMID:15690043[6]

Experiment(s):EBI-883032

Protein

rplQ

PMID:16606699[8]

Experiment(s):EBI-1140667

Protein

dnaK

PMID:16606699[8]

Experiment(s):EBI-1140667

Protein

rpsI

PMID:16606699[8]

Experiment(s):EBI-1140667

Protein

groL

PMID:16606699[8]

Experiment(s):EBI-1140667

Protein

uspG

PMID:16606699[8]

Experiment(s):EBI-1140667

edit table


Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Notes
edit table


Notes

Structure and Physical Properties

[back to top]


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

Sequence

at EcoCyc 

MVRRLTSPRL EFEAAAIYEY PEHLRSFLND LPTRPGVYLF HGESDTMPLY IGKSVNIRSR
VLSHLRTPDE AAMLRQSRRI SWICTAGEIG ALLLEARLIK EQQPLFNKRL RRNRQLCALQ
LNEKRVDVVY AKEVDFSRAP NLFGLFANRR AALQALQTIA DEQKLCYGLL GLEPLSRGRA
CFRSALKRCA GACCGKESHE EHALRLRQSL ERLRVVCWPW QGAVALKEQH PEMTQYHIIQ
NWLWLGAVNS LEEATTLIRT PAGFDHDGYK ILCKPLLSGN YEITELDPAN DQRAS
Length

295

Mol. Wt

33.739 kDa

pI

9.0 (calculated)

Extinction coefficient

40,910 - 42,035 (calc based on 9 Y, 5 W, and 9 C residues)

edit table


Domains/Motifs/Modification Sites

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

Type Residues Description Notes
edit table

<motif_map/>

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

Structures

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

Models

View models at:

edit table

Structure figures

Notes

Gene Product Resources

[back to top]


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

Resource type Source Notes/Reference
edit table


Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:G6937-MONOMER

UniProt (EcoliWiki Page)

UniProt:P76213

PFAM (EcoliWiki Page)

PFAM:PF01541

RefSeq (EcoliWiki Page)

RefSeq:NP_416255

ModBase (EcoliWiki Page)

ModBase:P76213


edit table


Notes

Links

[back to top]


Name URL Comments
edit table



References

[back to top]


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

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 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. ↑ 3.0 3.1 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. ↑ 5.0 5.1 5.2 5.3 5.4 5.5 5.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ 6.0 6.1 6.2 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  7. ↑ Caramel, A & Schnetz, K (2000) Antagonistic control of the Escherichia coli bgl promoter by FIS and CAP in vitro. Mol. Microbiol. 36 85-92 PubMed
  8. ↑ 8.0 8.1 8.2 8.3 8.4 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=cho:Gene_Product(s)&oldid=936482"