ISDA

Deposition Date 2007-05-16

Release Date 2008-04-29

Last Version Date 2024-02-21

Entry Detail

PDB ID:

2PYA

Keywords:

ELECTRON TRANSPORT

Title:

Ultra-high resolution structure of P. abyssi rubredoxin W4L/R5S/A44S

Biological Source:

Source Organism:

Pyrococcus abyssi (Taxon ID: 29292)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

0.86 Å

R-Value Free:

0.10

R-Value Observed:

0.09

Space Group:

P 21 21 21

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Rubredoxin
Gene (Uniprot):rub
Mutations:W4L,R5S,A44S
Chain IDs:A
Chain Length:52
Number of Molecules:1
Biological Source:Pyrococcus abyssi

UniProt ID:Q9V099 Pfam ID:PF00301

Ligand Molecules

Primary Citation

Ultrahigh-resolution study on Pyrococcus abyssi rubredoxin: II. Introduction of an O-H...Sgamma-Fe hydrogen bond increased the reduction potential by 65 mV.

Bonisch, H, Schmidt, C.L, Bianco, P, Ladenstein, R.Show

J.Biol.Inorg.Chem. 12 1163 1171 (2007)

PMID: 17712580 DOI: 10.1007/s00775-007-0289-8

Abstact

The effect of D-H...S(gamma)-Fe hydrogen bonding on the reduction potential of rubredoxin was investigated by the introduction of an O-H...S(gamma)-Fe hydrogen bond on the surface of Pyrococcus abyssi rubredoxin. The formation of a weak hydrogen bond between Ser44-O(gamma) and Cys42-S(gamma) in mutant W4L/R5S/A44S increased the reduction potential by 56 mV. When side effects of the mutation were taken into account, the contribution of the additional cluster hydrogen bond to the reduction potential was estimated to be +65 mV. The structural analysis was based on ultrahigh-resolution structures of oxidized P. abyssi rubredoxin W4L/R5S and W4L/R5S/A44S refined to 0.69 and 0.86 A, respectively.

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Primary Citation of related structures