PROSITE documentation PDOC00179

Rubredoxin signature

• Description
• Technical section
• References
• Copyright
• Miscellaneous

Rubredoxins [1] are small electron-transfer prokaryotic proteins. They contain an iron atom which is ligated by four cysteine residues. Rubredoxins are, in some cases, functionally interchangeable with ferredoxins. As a pattern for these proteins we have selected a conserved region that includes two of the cysteine residues that bind the iron atom.

Note:

In Pseudomonas oleovorans rubredoxin 2 (gene alkG) [2], this pattern is found twice because alkG has two rubredoxin domains.

Note:

Rubrerythrin [3], a protein with inorganic pyrophosphatase activity from Desulfovibrio vulgaris possesses a C-terminal rubredoxin-like domain. But this domain is too divergent to be detected by the above pattern.

Last update:

December 2004 / Pattern and text revised.

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PROSITE method (with tools and information) covered by this documentation:

RUBREDOXIN, PS00202; Rubredoxin signature  (PATTERN)

• Consensus pattern:
  [LIVM]-x-{G}-{R}-W-x-C-P-x-C-[AGD]
  The 2 C's bind the iron atom
• Sequences in UniProtKB/Swiss-Prot known to belong to this class: 51
  • detected by PS00202: 45 (true positives)
  • undetected by PS00202: 6 (6 false negatives and 0 'partial')
• Other sequence(s) in UniProtKB/Swiss-Prot detected by PS00202:
  3 false positives.
• Retrieve an alignment of UniProtKB/Swiss-Prot true positive hits:
  Clustal format, color, condensed view  /  Clustal format, color  /  Clustal format, plain text  /  Fasta format
• Retrieve the sequence logo from the alignment
• Taxonomic distribution of all UniProtKB (Swiss-Prot + TrEMBL) entries matching PS00202
• Retrieve a list of all UniProtKB (Swiss-Prot + TrEMBL) entries matching PS00202
• Scan UniProtKB (Swiss-Prot and/or TrEMBL) entries against PS00202
• View ligand binding statistics of PS00202
• Matching PDB structures: 1B13 1B2J 1B2O 1BFY ... [ALL]

1	Authors	Berg J.M. Holm R.H.
	Source	(In) Iron-sulfur proteins, Spiro T.G., Ed., pp1-66, Wiley, New-York, (1982).

2	Authors	Kok M. Oldenhuis R. der Linden M.P.G. Meulenberg C.H.C. Kingma J.
	Title	Witholt B The Pseudomonas oleovorans alkBAC operon encodes two structurally related rubredoxins and an aldehyde dehydrogenase.
	Source	J. Biol. Chem. 264:5442-5451(1989).
	PubMed ID	2647719

3	Authors	van Beeumen J.J. van Driessche G. Liu M.-Y. Le Gall J.
	Title	The primary structure of rubrerythrin, a protein with inorganic pyrophosphatase activity from Desulfovibrio vulgaris. Comparison with hemerythrin and rubredoxin.
	Source	J. Biol. Chem. 266:20645-20653(1991).
	PubMed ID	1657933

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