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Open data
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Basic information
Entry | Database: PDB / ID: 2i39 | ||||||
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Title | Crystal structure of Vaccinia virus N1L protein | ||||||
![]() | Protein N1 | ||||||
![]() | VIRAL PROTEIN / All Alpha | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Aoyagi, M. / Aleshin, A.E. / Stec, B. / Liddington, R.C. | ||||||
![]() | ![]() Title: Vaccinia virus N1L protein resembles a B cell lymphoma-2 (Bcl-2) family protein. Authors: Aoyagi, M. / Zhai, D. / Jin, C. / Aleshin, A.E. / Stec, B. / Reed, J.C. / Liddington, R.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 158.9 KB | Display | ![]() |
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PDB format | ![]() | 127.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 503.4 KB | Display | ![]() |
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Full document | ![]() | 514.5 KB | Display | |
Data in XML | ![]() | 30.2 KB | Display | |
Data in CIF | ![]() | 42.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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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3 | ![]()
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Unit cell |
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Details | The asymmetric unit contains three dimers (A/B, C/D & E/F), which likely represent the biological assembly. |
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Components
#1: Protein | Mass: 16149.409 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.53 Å3/Da / Density % sol: 51.41 % |
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 10% PEG 4K, 0.1 M Tris HCl, 0.1 M sodium-potassium tartrate, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 290K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Dec 17, 2005 |
Radiation | Monochromator: Si 111 Channel / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.12 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→30 Å / Num. all: 49469 / Num. obs: 47333 / % possible obs: 95.7 % / Observed criterion σ(I): 4 / Redundancy: 2.8 % / Biso Wilson estimate: 27.2 Å2 / Rsym value: 0.05 / Net I/σ(I): 12.7 |
Reflection shell | Resolution: 2.2→2.28 Å / Redundancy: 1.9 % / Mean I/σ(I) obs: 2.1 / Num. unique all: 3874 / Rsym value: 0.282 / % possible all: 79.3 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 31.3715 Å2 / ksol: 0.304499 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 40.864 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.017 / Total num. of bins used: 6
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Xplor file |
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