4D4X image
Deposition Date 2014-10-31
Release Date 2015-09-09
Last Version Date 2024-11-13
Entry Detail
PDB ID:
4D4X
Title:
Nitrosyl complex of the D121I variant of cytochrome c prime from Alcaligenes xylosoxidans
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.30 Å
R-Value Free:
0.21
R-Value Work:
0.16
R-Value Observed:
0.17
Space Group:
P 65 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:CYTOCHROME C'
Mutations:YES
Chain IDs:A
Chain Length:127
Number of Molecules:1
Biological Source:ACHROMOBACTER XYLOSOXIDANS
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
PCA A GLU PYROGLUTAMIC ACID
Primary Citation
Hydrogen Bonding of the Dissociated Histidine Ligand is not Required for Formation of a Proximal No Adduct in Cytochrome C'.
J.Biol.Inorg.Chem. 20 949 ? (2015)
PMID: 26100643 DOI: 10.1007/S00775-015-1278-Y

Abstact

Cytochromes c', that occur in methanotrophic, denitrifying and photosynthetic bacteria, form unusual proximal penta-coordinate NO complexes via a hexa-coordinate distal NO intermediate. Their NO binding properties are similar to those of the eukaryotic NO sensor, soluble guanylate cyclase, for which they provide a valuable structural model. Previous studies suggested that hydrogen bonding between the displaced proximal histidine (His120) ligand (following its dissociation from heme due to trans effects from the distally bound NO) and a conserved aspartate residue (Asp121) could play a key role in allowing proximal NO binding to occur. We have characterized three variants of Alcaligenes xylosoxidans cytochrome c' (AXCP) where Asp121 has been replaced by Ala, Ile and Gln, respectively. In all variants, hydrogen bonding between residue 121 and His120 is abolished yet 5-coordinate proximal NO species are still formed. Our data therefore demonstrate that the His120-Asp121 bond is not essential for proximal NO binding although it likely provides an energy minimum for the displaced His ligand. All variants have altered proximal pocket structure relative to native AXCP.

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Primary Citation of related structures