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Yorodumi- PDB-4ucz: X-ray structure and activities of an essential Mononegavirales L-... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4ucz | ||||||
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Title | X-ray structure and activities of an essential Mononegavirales L- protein domain | ||||||
Components | RNA-DIRECTED RNA POLYMERASE L | ||||||
Keywords | TRANSFERASE / CAPPING / L PROTEIN / ROSSMANN / TRIPHOSPHATASE | ||||||
Function / homology | Function and homology information NNS virus cap methyltransferase / GDP polyribonucleotidyltransferase / mRNA 5'-cap (guanine-N7-)-methyltransferase activity / host cell cytoplasm / hydrolase activity / RNA-directed RNA polymerase / RNA-dependent RNA polymerase activity / GTP binding / ATP binding / metal ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | HUMAN METAPNEUMOVIRUS | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.99 Å | ||||||
Authors | Paesen, G.C. / Collet, A. / Sallamand, C. / Debart, F. / Vasseur, J.J. / Canard, B. / Decroly, E. / Grimes, J.M. | ||||||
Citation | Journal: Nat.Commun. / Year: 2015 Title: X-Ray Structure and Activities of an Essential Mononegavirales L-Protein Domain. Authors: Paesen, G.C. / Collet, A. / Sallamand, C. / Debart, F. / Vasseur, J.J. / Canard, B. / Decroly, E. / Grimes, J.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4ucz.cif.gz | 163.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4ucz.ent.gz | 133.8 KB | Display | PDB format |
PDBx/mmJSON format | 4ucz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uc/4ucz ftp://data.pdbj.org/pub/pdb/validation_reports/uc/4ucz | HTTPS FTP |
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-Related structure data
Related structure data | 4uciC 4ucjC 4uckC 4uclC 4ucyC 4ud0C 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: 47661.152 Da / Num. of mol.: 2 / Fragment: METHYLTRANSFERASE DOMAIN, RESIDUES 1600-2005 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HUMAN METAPNEUMOVIRUS / Plasmid: POPIN_E / Cell line (production host): Sf21 / Production host: SPODOPTERA FRUGIPERDA (fall armyworm) / References: UniProt: Q91L20 #2: Chemical | #3: Chemical | ChemComp-GTP / | #4: Chemical | ChemComp-GMP / | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.16 Å3/Da / Density % sol: 61.07 % / Description: NONE |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I02 / Wavelength: 0.9795 |
Detector | Type: DECTRIS PIXEL / Detector: PIXEL / Date: Oct 20, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 2.99→78.8 Å / Num. obs: 25194 / % possible obs: 100 % / Observed criterion σ(I): 0 / Redundancy: 21.5 % / Biso Wilson estimate: 109.18 Å2 / Rmerge(I) obs: 0.06 / Net I/σ(I): 45.2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.99→76.1 Å / Cor.coef. Fo:Fc: 0.9286 / Cor.coef. Fo:Fc free: 0.9177 / Cross valid method: THROUGHOUT / σ(F): 0 / SU Rfree Blow DPI: 0.353
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Displacement parameters | Biso mean: 99.64 Å2
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Refine analyze | Luzzati coordinate error obs: 0.468 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.99→76.1 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.99→3.12 Å / Total num. of bins used: 12
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