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Yorodumi- PDB-1mcp: PHOSPHOCHOLINE BINDING IMMUNOGLOBULIN FAB MC/PC603. AN X-RAY DIFF... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1mcp | |||||||||
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Title | PHOSPHOCHOLINE BINDING IMMUNOGLOBULIN FAB MC/PC603. AN X-RAY DIFFRACTION STUDY AT 2.7 ANGSTROMS | |||||||||
Components |
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Keywords | IMMUNOGLOBULIN | |||||||||
Function / homology | Function and homology information immunoglobulin complex / immunoglobulin mediated immune response / antigen binding Similarity search - Function | |||||||||
Biological species | Mus musculus (house mouse) | |||||||||
Method | X-RAY DIFFRACTION / Resolution: 2.7 Å | |||||||||
Authors | Satow, Y. / Cohen, G.H. / Padlan, E.A. / Davies, D.R. | |||||||||
Citation | Journal: J.Mol.Biol. / Year: 1986 Title: Phosphocholine binding immunoglobulin Fab McPC603. An X-ray diffraction study at 2.7 A. Authors: Satow, Y. / Cohen, G.H. / Padlan, E.A. / Davies, D.R. #1: Journal: Mol.Immunol. / Year: 1981 Title: Kappa Chain Structure from a Crystallized Murine Fab(Prime). Role of Joining Segment in Hapten Binding Authors: Rudikoff, S. / Satow, Y. / Padlan, E. / Davies, D. / Potter, M. #2: Journal: Contemp.Top.Mol.Immunol. / Year: 1975 Title: Immunoglobulin Structures at High Resolution Authors: Davies, D.R. / Padlan, E.A. / Segal, D.M. #3: Journal: The Immune System. Genes,Receptors,Signals. Proceedings of the 1974 I.C.N.-U.C.L.A. Symposium on Molecular Biology Year: 1974 Title: The Three-Dimensional Structure of the Antigen Binding Site of Mc/Pc 603 Protein Authors: Padlan, E.A. / Segal, D.M. / Cohen, G.H. / Davies, D.R. / Rudikoff, S. / Potter, M. #4: Journal: Proc.Natl.Acad.Sci.USA / Year: 1974 Title: The Three-Dimensional Structure of a Phosphorylcholine-Binding Mouse Immunoglobulin Fab and the Nature of the Antigen Binding Site Authors: Segal, D.M. / Padlan, E.A. / Cohen, G.H. / Rudikoff, S. / Potter, M. / Davies, D.R. #5: Journal: Nature New Biol. / Year: 1973 Title: Structure at 4.5 Angstroms Resolution of a Phosphorylcholine-Binding Fab Authors: Padlan, E.A. / Segal, D.M. / Spande, T.F. / Davies, D.R. / Rudikoff, S. / Potter, M. #6: Journal: Proc.Natl.Acad.Sci.USA / Year: 1972 Title: Crystals of Phosphorylcholine-Binding Fab-Fragments from Mouse Myeloma Proteins. Preparation and X-Ray Analysis Authors: Rudikoff, S. / Potter, M. / Segal, D.M. / Padlan, E.A. / Davies, D.R. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1mcp.cif.gz | 98.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1mcp.ent.gz | 77.6 KB | Display | PDB format |
PDBx/mmJSON format | 1mcp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mc/1mcp ftp://data.pdbj.org/pub/pdb/validation_reports/mc/1mcp | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: FOR RESIDUES 28-37 AND 162-163 OF THE LIGHT CHAIN AND RESIDUE 202 OF THE HEAVY CHAIN, THE DENSITY WAS POOR. THESE RESIDUES WERE BUILT MAINLY BY STEREOCHEMISTRY. 2: RESIDUES PRO L 8, PRO L 101, PRO L 147, PRO H 143, PRO H 155 ARE CIS PROLINES. |
-Components
#1: Antibody | Mass: 24113.584 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / References: GenBank: 208622 |
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#2: Antibody | Mass: 24319.266 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / References: UniProt: P01789 |
#3: Chemical | ChemComp-SO4 / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 4.78 Å3/Da / Density % sol: 74.25 % | |||||||||||||||
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Crystal grow | *PLUS pH: 7 / Method: vapor diffusion | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.7 Å / Lowest resolution: 10 Å / Num. obs: 24235 / Num. measured all: 147706 |
-Processing
Refinement | Rfactor Rwork: 0.225 / Highest resolution: 2.7 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement step | Cycle: LAST / Highest resolution: 2.7 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.7 Å / Lowest resolution: 8 Å / Num. reflection obs: 23737 / Rfactor obs: 0.225 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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