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Yorodumi- PDB-1bbc: STRUCTURE OF RECOMBINANT HUMAN RHEUMATOID ARTHRITIC SYNOVIAL FLUI... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1bbc | ||||||
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Title | STRUCTURE OF RECOMBINANT HUMAN RHEUMATOID ARTHRITIC SYNOVIAL FLUID PHOSPHOLIPASE A2 AT 2.2 ANGSTROMS RESOLUTION | ||||||
Components | PHOSPHOLIPASE A2 | ||||||
Keywords | HYDROLASE / CARBOXYLIC ESTER HYDROLASE | ||||||
Function / homology | Function and homology information regulation of neutrophil activation / phosphatidylethanolamine metabolic process / phosphatidic acid metabolic process / Acyl chain remodelling of PG / intestinal stem cell homeostasis / Acyl chain remodelling of PC / Acyl chain remodelling of PI / Acyl chain remodelling of PS / Acyl chain remodelling of PE / Synthesis of PA ...regulation of neutrophil activation / phosphatidylethanolamine metabolic process / phosphatidic acid metabolic process / Acyl chain remodelling of PG / intestinal stem cell homeostasis / Acyl chain remodelling of PC / Acyl chain remodelling of PI / Acyl chain remodelling of PS / Acyl chain remodelling of PE / Synthesis of PA / calcium-dependent phospholipase A2 activity / positive regulation of macrophage derived foam cell differentiation / phosphatidylcholine metabolic process / low-density lipoprotein particle remodeling / phospholipase A2 / phospholipase A2 activity / Antimicrobial peptides / arachidonic acid secretion / phospholipid metabolic process / lipid catabolic process / negative regulation of T cell proliferation / secretory granule / phospholipid binding / positive regulation of inflammatory response / killing of cells of another organism / mitochondrial outer membrane / positive regulation of ERK1 and ERK2 cascade / defense response to Gram-positive bacterium / inflammatory response / calcium ion binding / endoplasmic reticulum membrane / perinuclear region of cytoplasm / endoplasmic reticulum / extracellular space / extracellular exosome / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.2 Å | ||||||
Authors | Wery, J.-P. / Schevitz, R.W. / Clawson, D.K. / Bobbitt, J.L. / Dow, E.R. / Gamboa, G. / Goodsonjunior, T. / Hermann, R.B. / Kramer, R.M. / Mcclure, D.B. ...Wery, J.-P. / Schevitz, R.W. / Clawson, D.K. / Bobbitt, J.L. / Dow, E.R. / Gamboa, G. / Goodsonjunior, T. / Hermann, R.B. / Kramer, R.M. / Mcclure, D.B. / Mihelich, E.D. / Putnam, J.E. / Sharp, J.D. / Stark, D.H. / Teater, C. / Warrick, M.W. / Jones, N.D. | ||||||
Citation | Journal: Nature / Year: 1991 Title: Structure of recombinant human rheumatoid arthritic synovial fluid phospholipase A2 at 2.2 A resolution. Authors: Wery, J.P. / Schevitz, R.W. / Clawson, D.K. / Bobbitt, J.L. / Dow, E.R. / Gamboa, G. / Goodson Jr., T. / Hermann, R.B. / Kramer, R.M. / McClure, D.B. / Mihelich, E.D. / Putnam, J.E. / Sharp, ...Authors: Wery, J.P. / Schevitz, R.W. / Clawson, D.K. / Bobbitt, J.L. / Dow, E.R. / Gamboa, G. / Goodson Jr., T. / Hermann, R.B. / Kramer, R.M. / McClure, D.B. / Mihelich, E.D. / Putnam, J.E. / Sharp, J.D. / Stark, D.H. / Teater, C. / Warrick, M.W. / Jones, N.D. #1: Journal: J.Biol.Chem. / Year: 1989 Title: Structure and Properties of a Human Non-Pancreatic Phospholipase A2 Authors: Kramer, R.M. / Hession, C. / Johansen, B. / Hayes, G. / Mcgray, P. / Chow, E.P. / Tizard, R. / Pepinsky, R.B. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bbc.cif.gz | 34 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bbc.ent.gz | 25.8 KB | Display | PDB format |
PDBx/mmJSON format | 1bbc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bb/1bbc ftp://data.pdbj.org/pub/pdb/validation_reports/bb/1bbc | 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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-Components
#1: Protein | Mass: 13945.012 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / References: UniProt: P14555, phospholipase A2 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 1.92 Å3/Da / Density % sol: 35.98 % | ||||||||||||||||||||
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Crystal grow | *PLUS pH: 5.5 / 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: 2.2 Å / Rmerge(I) obs: 0.063 |
-Processing
Software |
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Refinement | Resolution: 2.2→6 Å / σ(F): 0 /
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Refinement step | Cycle: LAST / Resolution: 2.2→6 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.2 Å / Lowest resolution: 6 Å / Num. reflection all: 4114 / σ(F): 0 / Rfactor all: 0.178 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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