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Yorodumi- PDB-1a2i: SOLUTION STRUCTURE OF DESULFOVIBRIO VULGARIS (HILDENBOROUGH) FERR... -
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-Basic information
Entry | Database: PDB / ID: 1a2i | ||||||
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Title | SOLUTION STRUCTURE OF DESULFOVIBRIO VULGARIS (HILDENBOROUGH) FERROCYTOCHROME C3, NMR, 20 STRUCTURES | ||||||
Components | CYTOCHROME C3 | ||||||
Keywords | ELECTRON TRANSPORT / HEMEPROTEIN / ELECTRON TRANSFER / REDOX-BOHR EFFECT / COOPERATIVITY / ENERGY TRANSDUCTION | ||||||
Function / homology | Function and homology information anaerobic respiration / electron transfer activity / periplasmic space / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough (bacteria) | ||||||
Method | SOLUTION NMR / RESTRAINED MOLECULAR DYNAMICS WITH SIMULATED ANNEALING | ||||||
Authors | Messias, A.C. / Kastrau, D.H.K. / Costa, H.S. / Legall, J. / Turner, D.L. / Santos, H. / Xavier, A.V. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1998 Title: Solution structure of Desulfovibrio vulgaris (Hildenborough) ferrocytochrome c3: structural basis for functional cooperativity. Authors: Messias, A.C. / Kastrau, D.H. / Costa, H.S. / LeGall, J. / Turner, D.L. / Santos, H. / Xavier, A.V. #1: Journal: To be Published Title: Refinement of the Three-Dimensional Structures of Cytochromes C3 from Desulfovibrio Vulgaris Hildenborough at 1.67 A Resolution and from Desulfovibrio Desulfuricans Atcc27774 at 1.6 A Resolution Authors: Simoes, P. / Matias, P.M. / Morais, J. / Wilson, K. / Dauter, Z. / Carrondo, M.A. #2: Journal: J.Biol.Inorg.Chem. / Year: 1997 Title: Redox-Bohr Effect in Electron/Proton Energy Transduction: Cytochrome C3 Coupled to Hydrogenase Works as a 'Proton Thruster' in Desulfovibrio Vulgaris Authors: Louro, R.O. / Catarino, T. / Legall, J. / Xavier, A.V. #3: Journal: Eur.J.Biochem. / Year: 1996 Title: NMR Studies of Cooperativity in the Tetrahaem Cytochrome C3 from Desulfovibrio Vulgaris Authors: Turner, D.L. / Salgueiro, C.A. / Catarino, T. / Legall, J. / Xavier, A.V. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1a2i.cif.gz | 728 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1a2i.ent.gz | 632 KB | Display | PDB format |
PDBx/mmJSON format | 1a2i.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a2/1a2i ftp://data.pdbj.org/pub/pdb/validation_reports/a2/1a2i | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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NMR ensembles |
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-Components
#1: Protein | Mass: 11687.463 Da / Num. of mol.: 1 / Source method: isolated from a natural source Details: CLASS III OF C-TYPE CYTOCHROMES, FULLY REDUCED FORM Source: (natural) Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough (bacteria) Cellular location: PERIPLASM / Species: Desulfovibrio vulgaris / Strain: HILDENBOROUGH / References: UniProt: P00131 |
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#2: Chemical | ChemComp-HEC / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: 2D-1H-NOESY 2D-1H-TOCSY 2D-1H-COSY |
-Sample preparation
Sample conditions | pH: 8.5 / Temperature: 303 K |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Bruker AMX500 / Manufacturer: Bruker / Model: AMX500 / Field strength: 500 MHz |
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-Processing
Software |
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NMR software |
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Refinement | Method: RESTRAINED MOLECULAR DYNAMICS WITH SIMULATED ANNEALING Software ordinal: 1 Details: REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. | ||||||||||||
NMR ensemble | Conformer selection criteria: LEAST RESTRAINT VIOLATION / Conformers calculated total number: 600 / Conformers submitted total number: 20 |