trmD:Gene Product(s): Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Add jmol applet area.
Updating Product_structure_table
Line 585: Line 585:
!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>trmD
<beststructure>
562</beststructure>
gene=trmD
 
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=trmD&sub=keywordSearc EcoliPredict]
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=trmD&organism=562&organismtext= ModBase]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)

Revision as of 23:38, 25 August 2009

{{#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

TrmD

Synonyms

tRNA (guanine-1-)-methyltransferase[1], B2607[2][1], TrmD[2][1]

Product description

TrmD[2][3];

Component of tRNA (guanine-1-)-methyltransferase[3]

tRNA m(1)G37 methyltransferase[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:0009019

tRNA (guanine-N1-)-methyltransferase activity

GO_REF:0000003
GO_REF:0000020

IEA: Inferred from Electronic Annotation

EC:2.1.1.31
HAMAP:MF_00605

F

Seeded from EcoCyc 12.5 [5]

complete

GO:0005737

cytoplasm

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc 12.5 [5]

complete

GO:0003723

RNA binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002649

F

Seeded from EcoCyc [6]

complete

GO:0006400

tRNA modification

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00605

P

Seeded from EcoCyc [6]

complete

GO:0008033

tRNA processing

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR002649
SP_KW:KW-0819

P

Seeded from EcoCyc [6]

complete

GO:0008168

methyltransferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0489

F

Seeded from EcoCyc [6]

complete

GO:0008175

tRNA methyltransferase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002649

F

Seeded from EcoCyc [6]

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [6]

complete

GO:0030488

tRNA methylation

PMID:342495[7]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc [6]

complete

GO:0003723

RNA binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002649

F

Seeded from EcoCyc

complete

GO:0005737

cytoplasm

GO_REF:0000020
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

HAMAP:MF_00605
SP_KW:KW-0963
SP_SL:SL-0086

C

Seeded from EcoCyc

complete

GO:0006400

tRNA modification

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00605

P

Seeded from EcoCyc

complete

GO:0008033

tRNA processing

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR002649
SP_KW:KW-0819

P

Seeded from EcoCyc

complete

GO:0008168

methyltransferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0489

F

Seeded from EcoCyc

complete

GO:0008175

tRNA methyltransferase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002649

F

Seeded from EcoCyc

complete

GO:0009019

tRNA (guanine-N1-)-methyltransferase activity

GO_REF:0000020
GO_REF:0000003
PMID:6337136[8]

IDA: Inferred from Direct Assay

HAMAP:MF_00605
EC:2.1.1.31

F

Seeded from EcoCyc

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc

complete

GO:0030488

tRNA methylation

PMID:342495[7]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc

complete

GO:0009451

RNA modification

P

Seeded from Riley et al 2006 [1].

required fields missing

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

Subunits of tRNA (guanine-1-)-methyltransferase

could be indirect


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 

MWIGIISLFP EMFRAITDYG VTGRAVKNGL LSIQSWSPRD FTHDRHRTVD DRPYGGGPGM
LMMVQPLRDA IHAAKAAAGE GAKVIYLSPQ GRKLDQAGVS ELATNQKLIL VCGRYEGIDE
RVIQTEIDEE WSIGDYVLSG GELPAMTLID SVSRFIPGVL GHEASATEDS FAEGLLDCPH
YTRPEVLEGM EVPPVLLSGN HAEIRRWRLK QSLGRTWLRR PELLENLALT EEQARLLAEF
KTEHAQQQHK HDGMA
Length

255

Mol. Wt

28.422 kDa

pI

5.7 (calculated)

Extinction coefficient

36,440 - 36,690 (calc based on 6 Y, 5 W, and 2 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=trmD 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:EG11023-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0A873

PFAM (EcoliWiki Page)

PFAM:PF01746

RefSeq (EcoliWiki Page)

RefSeq:NP_417098

ModBase (EcoliWiki Page)

ModBase:P0A873


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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 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 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  7. ↑ 7.0 7.1 Björk, GR & Kjellin-Stråby, K (1978) Escherichia coli mutants with defects in the biosynthesis of 5-methylaminomethyl-2-thio-uridine or 1-methylguanosine in their tRNA. J Bacteriol 133 508-17 PubMed
  8. ↑ Hjalmarsson, KJ et al. (1983) Purification and characterization of transfer RNA (guanine-1)methyltransferase from Escherichia coli. J. Biol. Chem. 258 1343-51 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=trmD:Gene_Product(s)&oldid=932528"