+Open data
-Basic information
Entry | Database: PDB / ID: 3cfc | ||||||
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Title | High-resolution structure of blue fluorescent antibody EP2-19G2 | ||||||
Components |
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Keywords | IMMUNE SYSTEM / IMMUNOGLOBULIN / BLUE-FLUORESCENT ANTIBODY / HAPTEN COMPLEX / ELECTRON TRANSFER | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta Function and homology information | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.7 Å | ||||||
Authors | Debler, E.W. / Wilson, I.A. | ||||||
Citation | Journal: Science / Year: 2008 Title: Deeply inverted electron-hole recombination in a luminescent antibody-stilbene complex. Authors: Debler, E.W. / Kaufmann, G.F. / Meijler, M.M. / Heine, A. / Mee, J.M. / Pljevaljcic, G. / Di Bilio, A.J. / Schultz, P.G. / Millar, D.P. / Janda, K.D. / Wilson, I.A. / Gray, H.B. / Lerner, R.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3cfc.cif.gz | 104.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3cfc.ent.gz | 79.1 KB | Display | PDB format |
PDBx/mmJSON format | 3cfc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cf/3cfc ftp://data.pdbj.org/pub/pdb/validation_reports/cf/3cfc | HTTPS FTP |
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-Related structure data
Related structure data | 3cfbC 3cfdC 3cfeC 1fl3S 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 on special symmetry positions |
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-Components
#1: Antibody | Mass: 22746.715 Da / Num. of mol.: 1 / Fragment: FAB / Source method: isolated from a natural source / Details: PURIFIED FROM ASCITIC FLUID / Source: (natural) Mus musculus (house mouse) Cell: HYBRIDOMA CELLS FROM 129GIX+ SPLEEN CELLS FUSED WITH BALB/C MYELOMA CELLS |
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#2: Antibody | Mass: 24082.723 Da / Num. of mol.: 1 / Fragment: FAB / Source method: isolated from a natural source / Details: PURIFIED FROM ASCITIC FLUID / Source: (natural) Mus musculus (house mouse) Cell: HYBRIDOMA CELLS FROM 129GIX+ SPLEEN CELLS FUSED WITH BALB/C MYELOMA CELLS |
#3: Chemical | ChemComp-GOL / |
#4: 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: 2.35 Å3/Da / Density % sol: 47.7 % |
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Crystal grow | pH: 4.5 Details: 18% PEG 8000, 0.1M ACETATE, PH 4.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K, pH 4.50 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL9-2 / Wavelength: 0.97915 |
Detector | Type: MARMOSAIC 325 mm CCD / Detector: CCD / Date: Jun 24, 2005 / Details: FLAT COLLIMATING MIRROR, TOROID FOCUSING MIRROR |
Radiation | Monochromator: DOUBLE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97915 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→50 Å / Num. obs: 49748 / % possible obs: 99.9 % / Observed criterion σ(I): 0 / Redundancy: 7.5 % / Biso Wilson estimate: 25.7 Å2 / Rsym value: 0.05 / Net I/σ(I): 45.4 |
Reflection shell | Resolution: 1.7→1.76 Å / Redundancy: 7.3 % / Mean I/σ(I) obs: 2.8 / Rsym value: 0.772 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1FL3 Resolution: 1.7→28.76 Å / Cor.coef. Fo:Fc: 0.962 / Cor.coef. Fo:Fc free: 0.941 / SU B: 4.634 / SU ML: 0.078 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.112 / ESU R Free: 0.112 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 33.16 Å2
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Refinement step | Cycle: LAST / Resolution: 1.7→28.76 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.7→1.75 Å / Total num. of bins used: 20
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