+Open data
-Basic information
Entry | Database: PDB / ID: 2cam | ||||||
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Title | AVIDIN MUTANT (K3E,K9E,R26D,R124L) | ||||||
Components | AVIDIN | ||||||
Keywords | GLYCOPROTEIN / AVIDIN / BIOTIN BINDING PROTEIN / CALYCINS / UP-AND-DOWN BETA BARREL | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Rosano, C. / Arosio, P. / Bolognesi, M. | ||||||
Citation | Journal: Eur.J.Biochem. / Year: 1998 Title: Biochemical characterization and crystal structure of a recombinant hen avidin and its acidic mutant expressed in Escherichia coli. Authors: Nardone, E. / Rosano, C. / Santambrogio, P. / Curnis, F. / Corti, A. / Magni, F. / Siccardi, A.G. / Paganelli, G. / Losso, R. / Apreda, B. / Bolognesi, M. / Sidoli, A. / Arosio, P. #1: Journal: J.Mol.Biol. / Year: 1994 Title: Crystal Structure of Apo-Avidin from Hen Egg-White Authors: Pugliese, L. / Malcovati, M. / Coda, A. / Bolognesi, M. #2: Journal: Proc.Natl.Acad.Sci.USA / Year: 1993 Title: Three-Dimensional Structures of Avidin and the Avidin-Biotin Complex Authors: Livnah, O. / Bayer, E.A. / Wilchek, M. / Sussman, J.L. #3: Journal: J.Mol.Biol. / Year: 1993 Title: Three-Dimensional Structure of the Tetragonal Crystal Form of Egg-White Avidin in its Functional Complex with Biotin at 2.7 A Resolution Authors: Pugliese, L. / Coda, A. / Malcovati, M. / Bolognesi, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2cam.cif.gz | 60.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2cam.ent.gz | 47 KB | Display | PDB format |
PDBx/mmJSON format | 2cam.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2cam_validation.pdf.gz | 425.7 KB | Display | wwPDB validaton report |
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Full document | 2cam_full_validation.pdf.gz | 435.9 KB | Display | |
Data in XML | 2cam_validation.xml.gz | 12.8 KB | Display | |
Data in CIF | 2cam_validation.cif.gz | 17.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ca/2cam ftp://data.pdbj.org/pub/pdb/validation_reports/ca/2cam | HTTPS FTP |
-Related structure data
Related structure data | 1ravC 1aveS 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: 14204.784 Da / Num. of mol.: 2 / Mutation: K3E, K9E, R26D, R124L Source method: isolated from a genetically manipulated source Source: (gene. exp.) Gallus gallus (chicken) / Cell: EGG / Cell line: BL21 / Cellular location: CYTOPLASM (WHITE) / Plasmid: BL21 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: P02701 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.5 Å3/Da / Density % sol: 50.8 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 295 K / Method: vapor diffusion / pH: 5.7 Details: RECOMBINANT AVIDIN WAS CRYSTALLIZED FROM AMMONIUM SULFATE 2M. PH 5.7 0.05 M PHOSPHATE BUFFER AT 22 C BY VAPOUR DIFFUSION TECHNIQUES., vapor diffusion, temperature 295K | ||||||||||||||||||||||||||||||||||||
Crystal | *PLUS | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 22 ℃ / Method: vapor diffusion / pH: 7.2 | ||||||||||||||||||||||||||||||||||||
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 RUH2R / Wavelength: 1.5418 |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: Dec 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: 2.2→22 Å / Num. obs: 13827 / % possible obs: 95 % / Observed criterion σ(I): 0 / Redundancy: 3.6 % / Rmerge(I) obs: 0.045 / Net I/σ(I): 15 |
Reflection shell | Resolution: 2.2→2.7 Å / % possible all: 93.2 |
Reflection | *PLUS Num. measured all: 49395 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1AVE Resolution: 2.2→20.2 Å / Isotropic thermal model: TNT BCORREL / σ(F): 0 / Stereochemistry target values: TNT PROTGEO
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Solvent computation | Solvent model: TNT / Bsol: 150 Å2 / ksol: 0.78 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→20.2 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Version: 5E / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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