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Yorodumi- PDB-2lao: THREE-DIMENSIONAL STRUCTURES OF THE PERIPLASMIC LYSINE-, ARGININE... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2lao | ||||||
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Title | THREE-DIMENSIONAL STRUCTURES OF THE PERIPLASMIC LYSINE-, ARGININE-, ORNITHINE-BINDING PROTEIN WITH AND WITHOUT A LIGAND | ||||||
Components | LYSINE, ARGININE, ORNITHINE-BINDING PROTEIN | ||||||
Keywords | AMINO-ACID BINDING PROTEIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Salmonella typhimurium (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.9 Å | ||||||
Authors | Kim, S.-H. / Oh, B.-H. / Kang, C.-H. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 1993 Title: Three-dimensional structures of the periplasmic lysine/arginine/ornithine-binding protein with and without a ligand. Authors: Oh, B.H. / Pandit, J. / Kang, C.H. / Nikaido, K. / Gokcen, S. / Ames, G.F. / Kim, S.H. #1: Journal: J.Biol.Chem. / Year: 1992 Title: Crystal Structure of the Lysine-,Arginine-, Ornithine-Binding Protein from Salmonella Typhimurium at 2.7 Angstroms Resolution Authors: Kang, C.-H. / Shin, W.-C. / Yamagata, Y. / Gokcen, S. / Ames, G.F.-L. / Kim, S.-H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2lao.cif.gz | 54.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2lao.ent.gz | 43.2 KB | Display | PDB format |
PDBx/mmJSON format | 2lao.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2lao_validation.pdf.gz | 368.7 KB | Display | wwPDB validaton report |
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Full document | 2lao_full_validation.pdf.gz | 374.2 KB | Display | |
Data in XML | 2lao_validation.xml.gz | 6.4 KB | Display | |
Data in CIF | 2lao_validation.cif.gz | 9.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/la/2lao ftp://data.pdbj.org/pub/pdb/validation_reports/la/2lao | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: CIS PROLINE - PRO 16 |
-Components
#1: Protein | Mass: 26058.314 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (bacteria) / References: UniProt: P02911 |
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#2: Water | ChemComp-HOH / |
Sequence details | SEQUENCE ADVISORY NOTICE: DIFFERENCE BETWEEN SWISS-PROT AND PDB SEQUENCE. SWISS-PROT ENTRY NAME: ...SEQUENCE ADVISORY NOTICE: DIFFERENCE |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.79 Å3/Da / Density % sol: 55.91 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 6.5 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 1.9 Å / Num. obs: 22643 / % possible obs: 92.5 % / Observed criterion σ(F): 1 / Num. measured all: 95114 / Rmerge(I) obs: 0.0626 |
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-Processing
Software |
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Refinement | Resolution: 1.9→6 Å / σ(F): 1 /
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Refinement step | Cycle: LAST / Resolution: 1.9→6 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.197 / Rfactor Rwork: 0.197 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 29.6 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 2.76 |