+Open data
-Basic information
Entry | Database: PDB / ID: 1sav | ||||||
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Title | HUMAN ANNEXIN V WITH PROLINE SUBSTITUTION BY THIOPROLINE | ||||||
Components | ANNEXIN VAnnexin A5 | ||||||
Keywords | CALCIUM/PHOSPHOLIPID BINDING / THIOPROLINE / CALCIUM-PHOSPHOLIPID BINDING complex | ||||||
Function / homology | Function and homology information phospholipase inhibitor activity / endothelial microparticle / negative regulation of coagulation / calcium-dependent phospholipid binding / phosphatidylserine binding / : / phospholipid binding / sarcolemma / blood coagulation / Platelet degranulation ...phospholipase inhibitor activity / endothelial microparticle / negative regulation of coagulation / calcium-dependent phospholipid binding / phosphatidylserine binding / : / phospholipid binding / sarcolemma / blood coagulation / Platelet degranulation / collagen-containing extracellular matrix / external side of plasma membrane / focal adhesion / calcium ion binding / negative regulation of apoptotic process / signal transduction / extracellular exosome / extracellular region / membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.5 Å | ||||||
Authors | Medrano, F.J. / Minks, C. / Budisa, N. / Huber, R. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1992 Title: Crystal and molecular structure of human annexin V after refinement. Implications for structure, membrane binding and ion channel formation of the annexin family of proteins. Authors: Huber, R. / Berendes, R. / Burger, A. / Schneider, M. / Karshikov, A. / Luecke, H. / Romisch, J. / Paques, E. #1: Journal: Embo J. / Year: 1990 Title: The Crystal and Molecular Structure of Human Annexin V, an Anticoagulant Protein that Binds to Calcium and Membranes Authors: Huber, R. / Romisch, J. / Paques, E.P. #2: Journal: FEBS Lett. / Year: 1990 Title: The Calcium Binding Sites in Human Annexin V by Crystal Structure Analysis at 2.0 A Resolution. Implications for Membrane Binding and Calcium Channel Activity Authors: Huber, R. / Schneider, M. / Mayr, I. / Romisch, J. / Paques, E.P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1sav.cif.gz | 75.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1sav.ent.gz | 58.9 KB | Display | PDB format |
PDBx/mmJSON format | 1sav.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sa/1sav ftp://data.pdbj.org/pub/pdb/validation_reports/sa/1sav | HTTPS FTP |
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-Related structure data
Related structure data | 1avhC 1avrSC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 36070.902 Da / Num. of mol.: 1 Mutation: P13, P87, P119, P163, AND P248 SUBSTITUTED WITH THIOPROLINE (PRS) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli (E. coli) / References: UniProt: P08758 | ||
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#2: Chemical | ChemComp-CA / #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.57 Å3/Da / Density % sol: 52.1 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 8.5 Details: PROTEIN WAS CRYSTALLIZED FROM 2.1 M AMMONIUM SULFATE, 0.1 M TRIS-HCL, PH 8.5 | |||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7 / Method: vapor diffusion | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 280 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH2R / Wavelength: 1.5418 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Feb 1, 1997 |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→25 Å / Num. obs: 12532 / % possible obs: 99.3 % / Observed criterion σ(I): 2 / Redundancy: 4.5 % / Rmerge(I) obs: 0.049 / Net I/σ(I): 9.5 |
Reflection shell | Resolution: 2.5→2.55 Å / % possible all: 95.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1AVR Resolution: 2.5→8 Å / Data cutoff high absF: 1000000 / Data cutoff low absF: 0.001 / Cross valid method: THROUGHOUT / σ(F): 2
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Refinement step | Cycle: LAST / Resolution: 2.5→8 Å
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Refine LS restraints |
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