1nds
From Proteopedia
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|PDB= 1nds |SIZE=350|CAPTION= <scene name='initialview01'>1nds</scene>, resolution 2.8Å | |PDB= 1nds |SIZE=350|CAPTION= <scene name='initialview01'>1nds</scene>, resolution 2.8Å | ||
|SITE= <scene name='pdbsite=AC1:Monomer+A+Type+1+Cu+Site'>AC1</scene>, <scene name='pdbsite=AC2:Monomer+A+Type+2+Cu+Site'>AC2</scene>, <scene name='pdbsite=BC1:Monomer+B+Type+1+Cu+Site'>BC1</scene>, <scene name='pdbsite=BC2:Monomer+B+Type+2+Cu+Site'>BC2</scene>, <scene name='pdbsite=CC1:Monomer+C+Type+1+Cu+Site'>CC1</scene> and <scene name='pdbsite=CC2:Monomer+C+Type+2+Cu+Site'>CC2</scene> | |SITE= <scene name='pdbsite=AC1:Monomer+A+Type+1+Cu+Site'>AC1</scene>, <scene name='pdbsite=AC2:Monomer+A+Type+2+Cu+Site'>AC2</scene>, <scene name='pdbsite=BC1:Monomer+B+Type+1+Cu+Site'>BC1</scene>, <scene name='pdbsite=BC2:Monomer+B+Type+2+Cu+Site'>BC2</scene>, <scene name='pdbsite=CC1:Monomer+C+Type+1+Cu+Site'>CC1</scene> and <scene name='pdbsite=CC2:Monomer+C+Type+2+Cu+Site'>CC2</scene> | ||
| - | |LIGAND= <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene> | + | |LIGAND= <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=NO2:NITRITE+ION'>NO2</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/ | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrite_reductase_(NO-forming) Nitrite reductase (NO-forming)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.1 1.7.2.1] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1nds FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nds OCA], [http://www.ebi.ac.uk/pdbsum/1nds PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1nds RCSB]</span> | ||
}} | }} | ||
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Structures of a blue-copper nitrite reductase and its substrate-bound complex., Dodd FE, Hasnain SS, Abraham ZH, Eady RR, Smith BE, Acta Crystallogr D Biol Crystallogr. 1997 Jul 1;53(Pt 4):406-18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15299906 15299906] | Structures of a blue-copper nitrite reductase and its substrate-bound complex., Dodd FE, Hasnain SS, Abraham ZH, Eady RR, Smith BE, Acta Crystallogr D Biol Crystallogr. 1997 Jul 1;53(Pt 4):406-18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15299906 15299906] | ||
[[Category: Achromobacter xylosoxidans]] | [[Category: Achromobacter xylosoxidans]] | ||
| + | [[Category: Nitrite reductase (NO-forming)]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
| - | [[Category: Transferred entry: 1 7.2 1]] | ||
[[Category: Abraham, Z H.L.]] | [[Category: Abraham, Z H.L.]] | ||
[[Category: Dodd, F E.]] | [[Category: Dodd, F E.]] | ||
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[[Category: Hasnain, S S.]] | [[Category: Hasnain, S S.]] | ||
[[Category: Smith, B E.]] | [[Category: Smith, B E.]] | ||
| - | [[Category: CU]] | ||
| - | [[Category: NO2]] | ||
[[Category: blue copper nitrite reductase]] | [[Category: blue copper nitrite reductase]] | ||
[[Category: copper protein]] | [[Category: copper protein]] | ||
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[[Category: reductase]] | [[Category: reductase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:29:00 2008'' |
Revision as of 19:29, 30 March 2008
| |||||||
| , resolution 2.8Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | , , , , and | ||||||
| Ligands: | , | ||||||
| Activity: | Nitrite reductase (NO-forming), with EC number 1.7.2.1 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
CRYSTALLOGRAPHIC STRUCTURE OF A SUBSTRATE BOUND BLUE COPPER NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS
Overview
Copper-containing nitrite reductases (NiR's) have been conveniently subdivided into blue and green NiR's which are thought to be redox partners of azurins and pseudo-azurins, respectively. Crystal structures of two green NiR's have recently been determined. Alcaligenes xylosoxidans has been shown to have a blue-copper nitrite reductase (AxNiR) and two azurins with 67% homology both of which donate electrons to it effectively. The first crystal structure of a blue NiR (AxNiR) in its oxidized and nitrite-bound forms, with particular emphasis to the Cu sites, is presented. The Cu-Smet distance is the same as those in the green NiR's. Thus, the length of this interaction is unlikely to be responsible for differences in colour. Crystallographic data presented here taken together with structural data of other single Cu type-1 proteins and their mutants suggest that the displacement of Cu from the strong ligand plane is perhaps the cause for the differences in colour observed for otherwise 'classical' blue Cu centre. Nitrite is observed binding to the catalytic Cu in a bidentate fashion displacing the water molecule, offering a neat rationalization for the XAFS observation that the type-2 Cu-ligand distances increase on nitrite binding as a result of increased coordination. These results are discussed in terms of enzyme mechanism.
About this Structure
1NDS is a Single protein structure of sequence from Achromobacter xylosoxidans. Full crystallographic information is available from OCA.
Reference
Structures of a blue-copper nitrite reductase and its substrate-bound complex., Dodd FE, Hasnain SS, Abraham ZH, Eady RR, Smith BE, Acta Crystallogr D Biol Crystallogr. 1997 Jul 1;53(Pt 4):406-18. PMID:15299906
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