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- PDB-1smq: Structure of the Ribonucleotide Reductase Rnr2 Homodimer from Sac... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1smq | ||||||
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Title | Structure of the Ribonucleotide Reductase Rnr2 Homodimer from Saccharomyces cerevisiae | ||||||
![]() | Ribonucleoside-diphosphate reductase small chain 1 | ||||||
![]() | OXIDOREDUCTASE | ||||||
Function / homology | ![]() Interconversion of nucleotide di- and triphosphates / ribonucleoside-diphosphate reductase complex / ribonucleoside-diphosphate reductase / ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor / deoxyribonucleotide biosynthetic process / ferrous iron binding / molecular adaptor activity / protein heterodimerization activity / zinc ion binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Sommerhalter, M. / Voegtli, W.C. / Perlstein, D.L. / Ge, J. / Stubbe, J. / Rosenzweig, A.C. | ||||||
![]() | ![]() Title: Structures of the yeast ribonucleotide reductase Rnr2 and Rnr4 homodimers. Authors: Sommerhalter, M. / Voegtli, W.C. / Perlstein, D.L. / Ge, J. / Stubbe, J. / Rosenzweig, A.C. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 244.6 KB | Display | ![]() |
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PDB format | ![]() | 202.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 397.6 KB | Display | ![]() |
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Full document | ![]() | 454.1 KB | Display | |
Data in XML | ![]() | 33.2 KB | Display | |
Data in CIF | ![]() | 47.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1smsC ![]() 1jk0S S: Starting model for refinement C: citing same article ( |
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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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 46207.297 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: RNR2, YJL026W, J1271 / Production host: ![]() ![]() References: UniProt: P09938, ribonucleoside-diphosphate reductase |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.82 Å3/Da / Density % sol: 56.43 % |
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Crystal grow | Temperature: 287 K / Method: vapor diffusion, hanging drop / pH: 4.8 Details: Succinate, PEG3350, lithium acetate, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 287K |
-Data collection
Diffraction | Mean temperature: 113 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3.1→87 Å / Num. obs: 168766 / % possible obs: 94.6 % / Rsym value: 0.059 / Net I/σ(I): 7.2 |
Reflection shell | Resolution: 3.1→3.27 Å / Mean I/σ(I) obs: 2.5 / Rsym value: 0.294 / % possible all: 96 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 1JK0 subunit Y2 Resolution: 3.1→25 Å / Cross valid method: THROUGHOUT
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Refinement step | Cycle: LAST / Resolution: 3.1→25 Å
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Refine LS restraints |
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