+Open data
-Basic information
Entry | Database: PDB / ID: 1a8a | |||||||||
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Title | RAT ANNEXIN V COMPLEXED WITH GLYCEROPHOSPHOSERINE | |||||||||
Components | ANNEXIN V | |||||||||
Keywords | PHOSPHOLIPID ANALOG / CALCIUM BINDING PROTEIN / MEMBRANE BINDING PROTEIN | |||||||||
Function / homology | Function and homology information negative regulation of prolactin secretion / cellular response to gonadotropin-releasing hormone / regulation of flagellated sperm motility / Platelet degranulation / endothelial microparticle / cellular response to lead ion / P-type calcium transporter activity / response to thyroid hormone / calcium-dependent phospholipid binding / negative regulation of blood coagulation ...negative regulation of prolactin secretion / cellular response to gonadotropin-releasing hormone / regulation of flagellated sperm motility / Platelet degranulation / endothelial microparticle / cellular response to lead ion / P-type calcium transporter activity / response to thyroid hormone / calcium-dependent phospholipid binding / negative regulation of blood coagulation / vesicle membrane / phosphatidylserine binding / peptide hormone binding / : / intercalated disc / axon terminus / cell projection / response to calcium ion / sarcolemma / receptor tyrosine kinase binding / synaptic vesicle membrane / Z disc / blood coagulation / synaptic vesicle / perikaryon / positive regulation of apoptotic process / external side of plasma membrane / neuronal cell body / dendrite / calcium ion binding / extracellular space / identical protein binding / cytoplasm Similarity search - Function | |||||||||
Biological species | Rattus norvegicus (Norway rat) | |||||||||
Method | X-RAY DIFFRACTION / DIFFERENCE FOURIER / Resolution: 1.9 Å | |||||||||
Authors | Swairjo, M.A. / Concha, N.O. / Kaetzel, M.A. / Dedman, J.R. / Seaton, B.A. | |||||||||
Citation | Journal: Nat.Struct.Biol. / Year: 1995 Title: Ca(2+)-bridging mechanism and phospholipid head group recognition in the membrane-binding protein annexin V. Authors: Swairjo, M.A. / Concha, N.O. / Kaetzel, M.A. / Dedman, J.R. / Seaton, B.A. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1a8a.cif.gz | 82.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1a8a.ent.gz | 60.5 KB | Display | PDB format |
PDBx/mmJSON format | 1a8a.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1a8a_validation.pdf.gz | 869.1 KB | Display | wwPDB validaton report |
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Full document | 1a8a_full_validation.pdf.gz | 877.4 KB | Display | |
Data in XML | 1a8a_validation.xml.gz | 15.8 KB | Display | |
Data in CIF | 1a8a_validation.cif.gz | 21.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a8/1a8a ftp://data.pdbj.org/pub/pdb/validation_reports/a8/1a8a | HTTPS FTP |
-Related 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: 35683.301 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Rattus norvegicus (Norway rat) / Organ: KIDNEY / References: UniProt: P14668 | ||||||
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#2: Chemical | ChemComp-CA / #3: Chemical | ChemComp-GSE / | #4: Water | ChemComp-HOH / | Sequence details | IN THE NATIVE PROTEIN THE N-TERMINAL ALANINE IS ACETYLATED, BUT NO DENSITY IS SEEN FOR THE ...IN THE NATIVE PROTEIN THE N-TERMINAL ALANINE IS ACETYLATED | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.5 Å3/Da / Density % sol: 50.79 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 7.1 Details: PROTEIN CRYSTALLIZED FROM AMMONIUM SULFATE, 20MM CACL2, 50MM HEPES, PH 8.2; SOAKED IN 20% PEG, 20MM CACL2, 80MM GSE, PH 7.1 | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 8.2 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH3R / Wavelength: 1.5418 |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Aug 1, 1994 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→44.7 Å / Num. obs: 20264 / % possible obs: 74 % / Observed criterion σ(I): 2 / Redundancy: 3.1 % / Rmerge(I) obs: 0.124 / Rsym value: 0.043 |
Reflection | *PLUS Num. measured all: 62628 |
-Processing
Software |
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Refinement | Method to determine structure: DIFFERENCE FOURIER / Resolution: 1.9→10 Å / σ(F): 2
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Displacement parameters | Biso mean: 20.7 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→10 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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