1rdv: Difference between revisions
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'''RUBREDOXIN FROM DESULFOVIBRIO VULGARIS MIYAZAKI F, TRIGONAL CRYSTAL FORM''' | {{Structure | ||
|PDB= 1rdv |SIZE=350|CAPTION= <scene name='initialview01'>1rdv</scene>, resolution 2.0Å | |||
|SITE= <scene name='pdbsite=FE:Fe+Coordination+Site'>FE</scene> | |||
|LIGAND= <scene name='pdbligand=FE:FE (III) ION'>FE</scene> | |||
|ACTIVITY= | |||
|GENE= | |||
}} | |||
'''RUBREDOXIN FROM DESULFOVIBRIO VULGARIS MIYAZAKI F, TRIGONAL CRYSTAL FORM''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1RDV is a [ | 1RDV is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RDV OCA]. | ||
==Reference== | ==Reference== | ||
Structure determination of rubredoxin from Desulfovibrio vulgaris Miyazaki F in two crystal forms., Misaki S, Morimoto Y, Ogata M, Yagi T, Higuchi Y, Yasuoka N, Acta Crystallogr D Biol Crystallogr. 1999 Feb;55(Pt 2):408-13. PMID:[http:// | Structure determination of rubredoxin from Desulfovibrio vulgaris Miyazaki F in two crystal forms., Misaki S, Morimoto Y, Ogata M, Yagi T, Higuchi Y, Yasuoka N, Acta Crystallogr D Biol Crystallogr. 1999 Feb;55(Pt 2):408-13. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10089348 10089348] | ||
[[Category: Desulfovibrio vulgaris]] | [[Category: Desulfovibrio vulgaris]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: sulfate-reducing bacterium]] | [[Category: sulfate-reducing bacterium]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 13:50:16 2008'' | ||
Revision as of 11:50, 20 March 2008
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| 1rdv, resolution 2.0Å | |||||||||||||
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| Sites: | FE | ||||||||||||
| Ligands: | FE | ||||||||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||||||||
RUBREDOXIN FROM DESULFOVIBRIO VULGARIS MIYAZAKI F, TRIGONAL CRYSTAL FORM
Overview
The structures of two crystal forms (form I, P3221, a = b = 43.7, c = 50.7 A; form II, P21, a = 27.3, b = 44.9, c = 51.2 A and beta = 90. 6 degrees ) of the rubredoxin from Desulfovibrio vulgaris Miyazaki F have been solved by the molecular-replacement method. Form I has been refined at a resolution of 2.0 A to an R value of 20.8% and includes 32 water molecules. Form II includes 86 water molecules and has been refined at 1.9 A resolution to an R value of 17.5%. In form II, there are three molecules in the asymmetric unit with the molecules related by a non-crystallographic 32 symmetry axis. In both crystal forms, it was found that only a few residues effectively participate in the formation of intermolecular contacts along both the crystallographic (form I) and the non-crystallographic (form II) 32 axes. The crystal structure of the form II crystal is compared with those of other rubredoxin molecules from anaerobic bacteria. From this comparison, a similarity in the core region, which is composed of aromatic residues and includes the active centre, has been revealed.
About this Structure
1RDV is a Single protein structure of sequence from Desulfovibrio vulgaris. Full crystallographic information is available from OCA.
Reference
Structure determination of rubredoxin from Desulfovibrio vulgaris Miyazaki F in two crystal forms., Misaki S, Morimoto Y, Ogata M, Yagi T, Higuchi Y, Yasuoka N, Acta Crystallogr D Biol Crystallogr. 1999 Feb;55(Pt 2):408-13. PMID:10089348
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