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Protein

Rubredoxin

Gene

rub

Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Rubredoxin is a small nonheme, iron protein lacking acid-labile sulfide. Its single Fe, chelated to 4 Cys, functions as an electron acceptor and may also stabilize the conformation of the molecule (By similarity).By similarity

Cofactori

Fe3+Note: Binds 1 Fe3+ ion per subunit.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi6IronPROSITE-ProRule annotation1 Publication1
Metal bindingi9IronPROSITE-ProRule annotation1 Publication1
Metal bindingi39IronPROSITE-ProRule annotation1 Publication1
Metal bindingi42IronPROSITE-ProRule annotation1 Publication1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Electron transport, Transport

Keywords - Ligandi

Iron, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Rubredoxin
Short name:
Rd
Gene namesi
Name:rub
Synonyms:rd
Ordered Locus Names:PYRAB08920
ORF Names:PAB7224
OrganismiPyrococcus abyssi (strain GE5 / Orsay)
Taxonomic identifieri272844 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000810 Componenti: Chromosome
  • UP000009139 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001350621 – 53RubredoxinAdd BLAST53

Interactioni

Protein-protein interaction databases

STRINGi272844.PAB7224.

Structurei

Secondary structure

153
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 10Combined sources8
Beta strandi12 – 14Combined sources3
Turni15 – 17Combined sources3
Helixi20 – 22Combined sources3
Helixi30 – 32Combined sources3
Turni40 – 42Combined sources3
Helixi46 – 48Combined sources3
Beta strandi49 – 52Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1YK4X-ray0.69A2-53[»]
1YK5X-ray1.79A/B/C/D1-53[»]
2PYAX-ray0.86A2-53[»]
ProteinModelPortaliQ9V099.
SMRiQ9V099.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9V099.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 52Rubredoxin-likePROSITE-ProRule annotationAdd BLAST52

Sequence similaritiesi

Belongs to the rubredoxin family.Curated
Contains 1 rubredoxin-like domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiarCOG04391. Archaea.
COG1773. LUCA.
HOGENOMiHOG000223371.
OMAiAPKDMFE.

Family and domain databases

CDDicd00730. rubredoxin. 1 hit.
Gene3Di2.20.28.10. 1 hit.
InterProiIPR024922. Rubredoxin.
IPR024934. Rubredoxin-like_dom.
IPR004039. Rubredoxin-type_fold.
IPR024935. Rubredoxin_dom.
IPR018527. Rubredoxin_Fe_BS.
[Graphical view]
PfamiPF00301. Rubredoxin. 1 hit.
[Graphical view]
PIRSFiPIRSF000071. Rubredoxin. 1 hit.
PRINTSiPR00163. RUBREDOXIN.
PROSITEiPS00202. RUBREDOXIN. 1 hit.
PS50903. RUBREDOXIN_LIKE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9V099-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAKWRCKICG YIYDEDEGDP DNGISPGTKF EDLPDDWVCP LCGAPKSEFE

RIE
Length:53
Mass (Da):6,041
Last modified:May 1, 2000 - v1
Checksum:i46A7BE222A4D19A0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248285 Genomic DNA. Translation: CAB49806.1.
HE613800 Genomic DNA. Translation: CCE70299.1.
PIRiE75136.
RefSeqiWP_010868015.1. NC_000868.1.

Genome annotation databases

EnsemblBacteriaiCAB49806; CAB49806; PAB7224.
GeneIDi1496243.
KEGGipab:PAB7224.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248285 Genomic DNA. Translation: CAB49806.1.
HE613800 Genomic DNA. Translation: CCE70299.1.
PIRiE75136.
RefSeqiWP_010868015.1. NC_000868.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1YK4X-ray0.69A2-53[»]
1YK5X-ray1.79A/B/C/D1-53[»]
2PYAX-ray0.86A2-53[»]
ProteinModelPortaliQ9V099.
SMRiQ9V099.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272844.PAB7224.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB49806; CAB49806; PAB7224.
GeneIDi1496243.
KEGGipab:PAB7224.

Phylogenomic databases

eggNOGiarCOG04391. Archaea.
COG1773. LUCA.
HOGENOMiHOG000223371.
OMAiAPKDMFE.

Miscellaneous databases

EvolutionaryTraceiQ9V099.

Family and domain databases

CDDicd00730. rubredoxin. 1 hit.
Gene3Di2.20.28.10. 1 hit.
InterProiIPR024922. Rubredoxin.
IPR024934. Rubredoxin-like_dom.
IPR004039. Rubredoxin-type_fold.
IPR024935. Rubredoxin_dom.
IPR018527. Rubredoxin_Fe_BS.
[Graphical view]
PfamiPF00301. Rubredoxin. 1 hit.
[Graphical view]
PIRSFiPIRSF000071. Rubredoxin. 1 hit.
PRINTSiPR00163. RUBREDOXIN.
PROSITEiPS00202. RUBREDOXIN. 1 hit.
PS50903. RUBREDOXIN_LIKE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRUBR_PYRAB
AccessioniPrimary (citable) accession number: Q9V099
Secondary accession number(s): G8ZI58
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 21, 2001
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 103 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.