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Yorodumi- PDB-1baf: 2.9 ANGSTROMS RESOLUTION STRUCTURE OF AN ANTI-DINITROPHENYL-SPIN-... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1baf | ||||||
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Title | 2.9 ANGSTROMS RESOLUTION STRUCTURE OF AN ANTI-DINITROPHENYL-SPIN-LABEL MONOCLONAL ANTIBODY FAB FRAGMENT WITH BOUND HAPTEN | ||||||
Components |
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Keywords | IMMUNE SYSTEM / IMMUNOGLOBULIN | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta / Chem-NPP / : / : Function and homology information | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.9 Å | ||||||
Authors | Leahy, D.J. / Brunger, A.T. / Fox, R.O. / Hynes, T.R. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1991 Title: 2.9 A resolution structure of an anti-dinitrophenyl-spin-label monoclonal antibody Fab fragment with bound hapten. Authors: Brunger, A.T. / Leahy, D.J. / Hynes, T.R. / Fox, R.O. #1: Journal: J.Mol.Biol. / Year: 1988 Title: Crystallization of an Anti-2,2,6, 6-Tetramethyl-1-Piperidinyloxy-Dinitrophenyl Monoclonal Antibody Fab Fragment with and without Bound Hapten Authors: Leahy, D.J. / Hynes, T.R. / Mcconnell, H.M. / Fox, R.O. #2: Journal: Proc.Natl.Acad.Sci.USA / Year: 1988 Title: Sequences of 12 Monoclonal Anti-Dinitrophenyl Spin-Label Antibodies for NMR Studies Authors: Leahy, D.J. / Rule, G.S. / Whittaker, M.M. / Mcconnell, H.M. #3: Journal: Biochim.Biophys.Acta / Year: 1982 Title: Monoclonal Antibodies to a Nitroxide Lipid Hapten Authors: Balakrishnan, K. / Hsu, F.J. / Hafeman, D.G. / Mcconnell, H.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1baf.cif.gz | 112.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1baf.ent.gz | 86.6 KB | Display | PDB format |
PDBx/mmJSON format | 1baf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1baf_validation.pdf.gz | 468.3 KB | Display | wwPDB validaton report |
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Full document | 1baf_full_validation.pdf.gz | 481.8 KB | Display | |
Data in XML | 1baf_validation.xml.gz | 11.4 KB | Display | |
Data in CIF | 1baf_validation.cif.gz | 16.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ba/1baf ftp://data.pdbj.org/pub/pdb/validation_reports/ba/1baf | HTTPS FTP |
-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: CIS PROLINE - PRO L 8 2: CIS PROLINE - PRO L 95 RESIDUES TYR L 93 - PRO L 95 DISPLAYED UNINTERPRETABLE DENSITY AND ARE CONSIDERED DISORDERED IN THIS STRUCTURE. 3: CIS PROLINE - PRO L 141 / 4: CIS PROLINE - PRO H 101 / 5: CIS PROLINE - PRO H 149 / 6: CIS PROLINE - PRO H 151 / 7: CIS PROLINE - PRO H 191 8: RESIDUES LEU H 126 - ASN H 135 DISPLAYED UNINTERPRETABLE DENSITY AND ARE CONSIDERED DISORDERED IN THIS STRUCTURE. |
-Components
#1: Antibody | Mass: 23582.121 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / References: GenBank: 437099 |
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#2: Antibody | Mass: 23635.443 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / References: GenBank: 1513182 |
#3: Chemical | ChemComp-NPP / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.06 Å3/Da / Density % sol: 59.83 % | ||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7.4 / Method: microdialysis | ||||||||||||||||||||||||||||||
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: 2.9 Å / Num. obs: 12775 / Num. measured all: 70064 / Rmerge(I) obs: 0.14 |
-Processing
Software |
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Refinement | Resolution: 2.9→8 Å / Rfactor Rwork: 0.195 / Rfactor obs: 0.195 / σ(F): 0 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.9→8 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.9 Å / Lowest resolution: 8 Å / σ(F): 0 / Rfactor all: 0.195 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 3.1 |