+Open data
-Basic information
Entry | Database: PDB / ID: 1wz7 | ||||||
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Title | Crystal structure of enhancer of rudimentary homologue (ERH) | ||||||
Components | Enhancer of rudimentary homolog | ||||||
Keywords | TRANSCRIPTION / alpha/beta / Structural Genomics / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information methylosome / methyl-CpG binding / osteoblast differentiation / cell cycle / membrane / nucleus Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.1 Å | ||||||
Authors | Arai, R. / Kukimoto-Niino, M. / Uda-Tochio, H. / Morita, S. / Uchikubo-Kamo, T. / Kigawa, T. / Terada, T. / Shirouzu, M. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: Protein Sci. / Year: 2005 Title: Crystal structure of an enhancer of rudimentary homolog (ERH) at 2.1 Angstroms resolution. Authors: Arai, R. / Kukimoto-Niino, M. / Uda-Tochio, H. / Morita, S. / Uchikubo-Kamo, T. / Akasaka, R. / Etou, Y. / Hayashizaki, Y. / Kigawa, T. / Terada, T. / Shirouzu, M. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1wz7.cif.gz | 71 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1wz7.ent.gz | 58.1 KB | Display | PDB format |
PDBx/mmJSON format | 1wz7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1wz7_validation.pdf.gz | 446.5 KB | Display | wwPDB validaton report |
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Full document | 1wz7_full_validation.pdf.gz | 458.7 KB | Display | |
Data in XML | 1wz7_validation.xml.gz | 14.9 KB | Display | |
Data in CIF | 1wz7_validation.cif.gz | 19.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wz/1wz7 ftp://data.pdbj.org/pub/pdb/validation_reports/wz/1wz7 | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 13035.061 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Description: Cell-free protein expression system / Plasmid: pCR2.1 / References: UniProt: P84089 #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: 2.17 Å3/Da / Density % sol: 43.36 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 4.6 Details: 0.1M Bis-Tris, 22% PEG 3350, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: SPring-8 / Beamline: BL26B1 / Wavelength: 0.97904, 0.97939, 0.96000 | ||||||||||||
Detector | Type: RIGAKU JUPITER 210 / Detector: CCD / Date: Oct 28, 2004 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.1→50 Å / Num. obs: 19595 / % possible obs: 99.7 % / Redundancy: 3.6 % / Biso Wilson estimate: 15 Å2 / Rsym value: 0.087 / Net I/σ(I): 9.5 | ||||||||||||
Reflection shell | Resolution: 2.1→2.18 Å / Redundancy: 3.2 % / Mean I/σ(I) obs: 4.6 / Num. unique all: 1930 / Rsym value: 0.279 / % possible all: 99.2 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.1→24.73 Å / Rfactor Rfree error: 0.006 / Data cutoff high absF: 1284371.11 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 54.86 Å2 / ksol: 0.362602 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 46.4 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.1→24.73 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.1→2.23 Å / Rfactor Rfree error: 0.017 / Total num. of bins used: 6
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Xplor file |
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