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Open data
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Basic information
Entry | Database: PDB / ID: 2ph7 | ||||||
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Title | Crystal structure of AF2093 from Archaeoglobus fulgidus | ||||||
![]() | Uncharacterized protein AF_2093 | ||||||
![]() | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / AF2093 / Archaeoglobus fulgidus / SOUTHEAST COLLABORATORY FOR STRUCTURAL GENOMICS / SECSG / PSI / Protein Structure Initiative | ||||||
Function / homology | ![]() af_2093 domain like fold / af_2093 domain like / af2093 domain / Af2093, N-terminal / Rossmann fold / Orthogonal Bundle / 3-Layer(aba) Sandwich / Mainly Alpha / Alpha Beta Similarity search - Domain/homology | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Chang, J.C. / Yang, H. / Hwang, J. / Zhu, J. / Chen, L. / Fu, Z.-Q. / Xu, H. / Rose, J.P. / Wang, B.-C. / Southeast Collaboratory for Structural Genomics (SECSG) | ||||||
![]() | ![]() Title: Crystal structure of AF2093 from Archaeoglobus fulgidus. Authors: Chang, J.C. / Yang, H. / Hwang, J. / Zhu, J. / Chen, L. / Fu, Z.-Q. / Xu, H. / Rose, J.P. / Wang, B.-C. | ||||||
History |
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Remark 999 | SEQUENCE THE TARGET SEQUENCE INFORMATION IS AVAILABLE AT PEPCDB WITH ACCESSION CODE GL2-223-001. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 97.9 KB | Display | ![]() |
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PDB format | ![]() | 81.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 431.7 KB | Display | ![]() |
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Full document | ![]() | 437 KB | Display | |
Data in XML | ![]() | 17.9 KB | Display | |
Data in CIF | ![]() | 24.6 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 28972.256 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Species: Archaeoglobus fulgidus / Strain: VC-16, DSM 4304, JCM 9628, NBRC 100126 / Gene: AF_2093 / Plasmid: pDest-527 / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.17 Å3/Da / Density % sol: 61.16 % |
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Crystal grow | Temperature: 291 K / Method: modified microbatch / pH: 4.9 Details: USING 1.0 MICROLITER DROPS CONTAINING EQUAL VOLUMES OF PROTEIN CONCENTRATE (12 mg/mL) AND SOLUTION CONTAINING 20% PEG 4000, 0.05M SODIUM CHLORIDE, 0.05M LITHIUM SULFATE, 0.1M SODIUM ACETATE ...Details: USING 1.0 MICROLITER DROPS CONTAINING EQUAL VOLUMES OF PROTEIN CONCENTRATE (12 mg/mL) AND SOLUTION CONTAINING 20% PEG 4000, 0.05M SODIUM CHLORIDE, 0.05M LITHIUM SULFATE, 0.1M SODIUM ACETATE pH 4.9, Modified Microbatch, temperature 291K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Jan 31, 2007 / Details: ROSENBAUM |
Radiation | Monochromator: SI CHANNEL 220 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9724 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→47.4 Å / Num. obs: 28734 / % possible obs: 99.9 % / Redundancy: 6.7 % / Rsym value: 0.066 / Net I/σ(I): 39.3 |
Reflection shell | Resolution: 2.4→2.49 Å / Redundancy: 5.2 % / Mean I/σ(I) obs: 2.08 / Num. unique all: 2858 / Rsym value: 0.535 / % possible all: 99.8 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 47.574 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→47.4 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.457 Å / Total num. of bins used: 20
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