+Open data
-Basic information
Entry | Database: PDB / ID: 7win | ||||||
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Title | Crystal structure of BAZ2B TAM domain | ||||||
Components | Bromodomain adjacent to zinc finger domain protein 2B | ||||||
Keywords | DNA BINDING PROTEIN / TAM domain / BAZ2B | ||||||
Function / homology | Function and homology information chromatin remodeling / regulation of transcription by RNA polymerase II / DNA binding / metal ion binding / nucleus Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.95 Å | ||||||
Authors | Feng, Y.Y. / Liu, K. / Min, J.R. | ||||||
Funding support | China, 1items
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Citation | Journal: Heliyon / Year: 2022 Title: Crystal structure of the BAZ2B TAM domain. Authors: Feng, Y. / Chen, S. / Zhou, M. / Zhang, J. / Min, J. / Liu, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7win.cif.gz | 56.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7win.ent.gz | 39 KB | Display | PDB format |
PDBx/mmJSON format | 7win.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wi/7win ftp://data.pdbj.org/pub/pdb/validation_reports/wi/7win | HTTPS FTP |
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-Related structure data
Related structure data | 7mwhC 7mwlS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 13267.171 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: BAZ2B, KIAA1476 / Production host: Escherichia coli BL21 (bacteria) / References: UniProt: Q9UIF8 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.85 Å3/Da / Density % sol: 33.68 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop Details: 30% w/v PEG 400, 0.2 M Sodium citrate tribasic dihydrate, and 0.1 M Tris pH 8.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU MICROMAX-007 HF / Wavelength: 1.54187 Å |
Detector | Type: DECTRIS PILATUS 200K / Detector: PIXEL / Date: Jul 23, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54187 Å / Relative weight: 1 |
Reflection | Resolution: 1.95→50 Å / Num. obs: 13884 / % possible obs: 97.1 % / Redundancy: 3.1 % / CC1/2: 0.998 / CC star: 0.999 / Rrim(I) all: 0.061 / Net I/σ(I): 24.38 |
Reflection shell | Resolution: 1.95→1.98 Å / Num. unique obs: 493 / CC1/2: 0.883 / CC star: 0.969 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 7MWL Resolution: 1.95→34.19 Å / Cor.coef. Fo:Fc: 0.949 / Cor.coef. Fo:Fc free: 0.931 / SU B: 4.718 / SU ML: 0.134 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.211 / ESU R Free: 0.179 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 85.95 Å2 / Biso mean: 32.095 Å2 / Biso min: 16.18 Å2
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Refinement step | Cycle: final / Resolution: 1.95→34.19 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.953→2.004 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
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