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PDBsum entry 2nrd
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Oxidoreductase (nitric oxide(a))
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PDB id
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2nrd
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References listed in PDB file
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Key reference
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Title
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The structure of copper-Nitrite reductase from achromobacter cycloclastes at five ph values, With no2- Bound and with type ii copper depleted.
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Authors
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E.T.Adman,
J.W.Godden,
S.Turley.
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Ref.
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J Biol Chem, 1995,
270,
27458-27474.
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PubMed id
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Note In the PDB file this reference is
annotated as "TO BE PUBLISHED".
The citation details given above were identified by an automated
search of PubMed on title and author
names, giving a
percentage match of
92%.
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Abstract
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High resolution x-ray crystallographic structures of nitrite reductase from
Achromobacter cycloclastes, undertaken in order to understand the pH optimum of
the reaction with nitrite, show that at pH 5.0, 5.4, 6.0, 6.2, and 6.8, no
significant changes occur, other than in the occupancy of the type II copper at
the active site. An extensive network of hydrogen bonds, both within and between
subunits of the trimer, maintains the rigidity of the protein structure. A water
occupies a site approximately 1.5 A from the site of the type II copper in the
structure of the type II copper-depleted structure (at pH 5.4), again with no
other significant changes in structure. In nitrite-soaked crystals, nitrite
binds via its oxygens to the type II copper and replaces the water normally
bound to the type II copper. The active-site cavity of the protein is distinctly
hydrophobic on one side and hydrophilic on the other, providing a possible path
for diffusion of the product NO. Asp-98 exhibits thermal parameter values higher
than its surroundings, suggesting a role in shuttling the two protons necessary
for the overall reaction. The strong structural homology with cupredoxins is
described.
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Secondary reference #1
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Title
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The 2.3 angstrom X-Ray structure of nitrite reductase from achromobacter cycloclastes.
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Authors
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J.W.Godden,
S.Turley,
D.C.Teller,
E.T.Adman,
M.Y.Liu,
W.J.Payne,
J.Legall.
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Ref.
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Science, 1991,
253,
438-442.
[DOI no: ]
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PubMed id
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Secondary reference #2
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Title
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Amino acid sequence of nitrite reductase: a copper protein from achromobacter cycloclastes.
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Authors
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F.F.Fenderson,
S.Kumar,
E.T.Adman,
M.Y.Liu,
W.J.Payne,
J.Legall.
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Ref.
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Biochemistry, 1991,
30,
7180-7185.
[DOI no: ]
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PubMed id
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Secondary reference #3
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Title
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Crystallization of nitrite reductase from achromobacter cycloclastes.
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Authors
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S.Turley,
E.T.Adman,
L.C.Sieker,
M.Y.Liu,
W.J.Payne,
J.Legall.
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Ref.
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J Mol Biol, 1988,
200,
417-419.
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PubMed id
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