fdoI:Gene Product(s): Difference between revisions

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==Domains/Motifs/Modification Sites==
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Revision as of 01:49, 5 November 2008

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

Standard name

FdoI product

Synonyms

formate dehydrogenase-O, cytochrome b556 subunit product[1], B3892 product[2][1], FdoI product[2][1]

Product description

formate dehydrogenase-O, γ subunit[2][3];

Component of ; formate dehydrogenase-O[2][3]

EC number (for enzymes)
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Notes

Function

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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:0005506

iron ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc 12.5 [4]

complete

GO:0006810

transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc 12.5 [4]

complete

GO:0008863

formate dehydrogenase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006471

F

Seeded from EcoCyc 12.5 [4]

complete

GO:0009326

formate dehydrogenase complex

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006471

C

Seeded from EcoCyc 12.5 [4]

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0397

C

Seeded from EcoCyc 12.5 [4]

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc 12.5 [4]

complete

GO:0016021

integral to membrane

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006471

C

Seeded from EcoCyc 12.5 [4]

complete

GO:0016021

integral to membrane

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011577

C

Seeded from EcoCyc 12.5 [4]

complete

GO:0016021

integral to membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc 12.5 [4]

complete

GO:0045333

cellular respiration

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006471

P

Seeded from EcoCyc 12.5 [4]

complete

GO:0009053

electron donor activity

F

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0017004

cytochrome complex assembly

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0009061

anaerobic respiration

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0046872

metal ion binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

Seeded from EcoCyc 12.5 [4]

complete

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Interactions

Partner Type Partner Notes

Protein

Subunits of formate dehydrogenase-O

could be indirect

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

Notes

Localization

Compartment Description Evidence Notes

plasma membrane

From EcoCyc[3]

plasma membrane

C-terminus localized in the cytoplasm with 4 predicted transmembrane domains

Daley et al. (2005) [5]


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Notes

Structure and Physical Properties

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Physical Properties

Sequence

at EcoCyc 

MKRRDTIVRY TAPERINHWI TAFCFILAAV SGLGFLFPSF NWLMQIMGTP QLARILHPFV
GVVMFASFII MFFRYWHHNL INRDDIFWAK NIRKIVVNEE VGDTGRYNFG QKCVFWAAII
FLVLLLVSGV IIWRPYFAPA FSIPVIRFAL MLHSFAAVAL IVVIMVHIYA ALWVKGTITA
MVEGWVTSAW AKKHHPRWYR EVRKTTEKKA E
Mol. Wt

24.61 kDa (calc) [2]

pI

10.33[2]

Extinction coefficient

63940 - 64190 (calc based on 6 Y, 10 W, and 2 C residues)

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Domains/Motifs/Modification Sites

Type Residues Description Notes

Domain

114 - 136

Predicted membrane-spanning helix.

TMD predicted by TMHMM[6]

Domain

21 - 40

Predicted membrane-spanning helix.

TMD predicted by TMHMM[6]

Domain

55 - 77

Predicted membrane-spanning helix.

TMD predicted by TMHMM[6]

Domain

151 - 173

Predicted membrane-spanning helix.

TMD predicted by TMHMM[6]

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tmhmm.php?gene=fdoI&show=pic&.jpg
Click the image to view raw output from TMHMM.

Structure

Structures

<beststructure>fdoI 562</beststructure>

Models

View models at:

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

Notes

Gene Product Resources

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Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:FDOI-MONOMER

SwissModel (EcoliWiki Page)

SwissModel:P0AEL0

UniProt (EcoliWiki Page)

UniProt:P0AEL0

PFAM (EcoliWiki Page)

PFAM:PF01292

RefSeq (EcoliWiki Page)

RefSeq:NP_418328

ModBase (EcoliWiki Page)

ModBase:P0AEL0

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Notes

Links

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Name URL Comments
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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 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 2.4 2.5 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.00 4.01 4.02 4.03 4.04 4.05 4.06 4.07 4.08 4.09 4.10 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  5. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 Krogh, A et al. (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305 567-80 PubMed


Categories

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