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- PDB-1up8: Recombinant vanadium-dependent bromoperoxidase from red algae Cor... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1up8 | ||||||
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Title | Recombinant vanadium-dependent bromoperoxidase from red algae Corallina pilulifera | ||||||
![]() | VANADIUM-DEPENDENT BROMOPEROXIDASE 1 | ||||||
![]() | HALOPEROXIDASE / VANADATE | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Garcia-Rodriguez, E. / Isupov, M. / Ohshiro, T. / Izumi, Y. / Littlechild, J.A. | ||||||
![]() | ![]() Title: Enhancing Effect of Calcium and Vanadium Ions on Thermal Stability of Bromoperoxidase from Corallina Pilulifera. Authors: Garcia-Rodriguez, E. / Ohshiro, T. / Aibara, T. / Izumi, Y. / Littlechild, J. #1: Journal: Protein Sci. / Year: 2004 Title: Modification of Halogen Specificity of a Vanadium-Dependent Bromoperoxidase. Authors: Ohshiro, T. / Littlechild, J. / Garcia-Rodriguez, E. / Isupov, M.N. / Iida, Y. / Kobayashi, T. / Izumi, Y. #2: ![]() Title: Structural Studies on the Dodecameric Vanadium Bromoperoxidase from Corallina Species Authors: Littlechild, J. / Garcia-Rodriguez, E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 506.9 KB | Display | ![]() |
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PDB format | ![]() | 416 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 466.7 KB | Display | ![]() |
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Full document | ![]() | 483.1 KB | Display | |
Data in XML | ![]() | 101.6 KB | Display | |
Data in CIF | ![]() | 154.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1qhbS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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Components
#1: Protein | Mass: 65343.949 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-PO4 / #3: Chemical | ChemComp-CA / #4: Water | ChemComp-HOH / | Sequence details | PROLINE 422 HAS BEEN PROVED TO BE ALANINE | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.1 Å3/Da / Density % sol: 60 % | ||||||||||||||||||||||||
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Crystal grow | pH: 4 / Details: 0.1M TRIS/H2SO4, 2M NH4H2PO4, pH 4.00 | ||||||||||||||||||||||||
Crystal grow | *PLUS pH: 3.8 / Method: vapor diffusion | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Nov 15, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.87 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→22 Å / Num. obs: 178580 / % possible obs: 98.5 % / Redundancy: 3.4 % / Rmerge(I) obs: 0.123 / Net I/σ(I): 10.5 |
Reflection shell | Resolution: 2.2→2.24 Å / Redundancy: 3.1 % / Rmerge(I) obs: 0.403 / Mean I/σ(I) obs: 2.3 / % possible all: 98 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1QHB Resolution: 2.2→22 Å / SU B: 4.82 / SU ML: 0.12 / Cross valid method: THROUGHOUT / ESU R: 0.2 / ESU R Free: 0.19
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Displacement parameters | Biso mean: 27.9 Å2
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Refinement step | Cycle: LAST / Resolution: 2.2→22 Å
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