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Open data
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Basic information
| Entry | Database: PDB / ID: 2j1k | ||||||
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| Title | CAV-2 fibre head in complex with CAR D1 | ||||||
 Components | 
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 Keywords | VIRUS/RECEPTOR / VIRUS-RECEPTOR COMPLEX / COMPLEX / MEMBRANE / RECEPTOR / PALMITATE / DOMAIN D1 / IMMUNOGLOBULIN DOMAIN / HOST-VIRUS INTERACTION / GLYCOPROTEIN / FIBER PROTEIN / CELL ADHESION / PHOSPHORYLATION / TRANSMEMBRANE / TIGHT JUNCTION / COXSACKIEVIRUS / FIBER HEAD / ADENOVIRUS / FIBRE HEAD / LIPOPROTEIN / CAR / KNOB / FIBER / FIBRE / CAV-2 / CANINE | ||||||
| Function / homology |  Function and homology informationAV node cell-bundle of His cell adhesion involved in cell communication / cell adhesive protein binding involved in AV node cell-bundle of His cell communication / AV node cell to bundle of His cell communication / homotypic cell-cell adhesion / epithelial structure maintenance / regulation of AV node cell action potential / gamma-delta T cell activation / apicolateral plasma membrane / germ cell migration / connexin binding ...AV node cell-bundle of His cell adhesion involved in cell communication / cell adhesive protein binding involved in AV node cell-bundle of His cell communication / AV node cell to bundle of His cell communication / homotypic cell-cell adhesion / epithelial structure maintenance / regulation of AV node cell action potential / gamma-delta T cell activation / apicolateral plasma membrane / germ cell migration / connexin binding / transepithelial transport / cell-cell junction organization / adhesion receptor-mediated virion attachment to host cell / cardiac muscle cell development / heterophilic cell-cell adhesion / intercalated disc / bicellular tight junction / cell adhesion molecule binding / neutrophil chemotaxis / acrosomal vesicle / Cell surface interactions at the vascular wall / mitochondrion organization / filopodium / adherens junction / PDZ domain binding / neuromuscular junction / beta-catenin binding / integrin binding / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / cell-cell junction / cell junction / viral capsid / heart development / cell body / growth cone / virus receptor activity / actin cytoskeleton organization / basolateral plasma membrane / defense response to virus / cell adhesion / neuron projection / membrane raft / signaling receptor binding / symbiont entry into host cell / host cell nucleus / protein-containing complex / extracellular space / extracellular region / nucleoplasm / identical protein binding / plasma membrane / cytoplasm Similarity search - Function  | ||||||
| Biological species |  HOMO SAPIENS (human) CANINE ADENOVIRUS 2 | ||||||
| Method |  X-RAY DIFFRACTION /  SYNCHROTRON /  MOLECULAR REPLACEMENT / Resolution: 2.3 Å  | ||||||
 Authors | Seiradake, E. / Lortat-Jacob, H. / Billet, O. / Kremer, E.J. / Cusack, S. | ||||||
 Citation |  Journal: J.Biol.Chem. / Year: 2006Title: Structural and Mutational Analysis of Human Ad37 and Canine Adenovirus 2 Fiber Heads in Complex with the D1 Domain of Coxsackie and Adenovirus Receptor. Authors: Seiradake, E. / Lortat-Jacob, H. / Billet, O. / Kremer, E.J. / Cusack, S.  | ||||||
| History | 
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| Remark 700 | SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN ... SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. | 
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Structure visualization
| Structure viewer | Molecule:  Molmil Jmol/JSmol | 
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Downloads & links
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Download
| PDBx/mmCIF format |  2j1k.cif.gz | 720 KB | Display |  PDBx/mmCIF format | 
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| PDB format |  pdb2j1k.ent.gz | 596.8 KB | Display |  PDB format | 
| PDBx/mmJSON format |  2j1k.json.gz | Tree view |  PDBx/mmJSON format | |
| Others |  Other downloads | 
-Validation report
| Summary document |  2j1k_validation.pdf.gz | 600.7 KB | Display |  wwPDB validaton report | 
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| Full document |  2j1k_full_validation.pdf.gz | 646.3 KB | Display | |
| Data in XML |  2j1k_validation.xml.gz | 139.4 KB | Display | |
| Data in CIF |  2j1k_validation.cif.gz | 197.9 KB | Display | |
| Arichive directory |  https://data.pdbj.org/pub/pdb/validation_reports/j1/2j1k ftp://data.pdbj.org/pub/pdb/validation_reports/j1/2j1k | HTTPS FTP  | 
-Related structure data
| Related structure data | ![]() 2j12C ![]() 2j2jC ![]() 1kacS S: Starting model for refinement C: citing same article (  | 
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| Similar structure data | 
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Links
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Assembly
| Deposited unit | ![]() 
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| Unit cell | 
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| Noncrystallographic symmetry (NCS) | NCS domain: 
 NCS domain segments: 
 NCS oper: 
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Components
| #1: Protein | Mass: 14251.245 Da / Num. of mol.: 12 / Fragment: D1 DOMAIN, RESIDUES 15-140 Source method: isolated from a genetically manipulated source Source: (gene. exp.)  HOMO SAPIENS (human) / Plasmid: PAB3 / Production host: ![]() #2: Protein | Mass: 21685.541 Da / Num. of mol.: 12 / Fragment: FIBRE HEAD DOMAIN, RESIDUES 358-542 Source method: isolated from a genetically manipulated source Source: (gene. exp.)  CANINE ADENOVIRUS 2 / Plasmid: PQE / Production host: ![]() #3: Water |  ChemComp-HOH /  | Has protein modification | Y | Sequence details | CONTAINS N-TERMINAL 6XHIS TAG |  | 
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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: 2.8 Å3/Da / Density % sol: 56 % | 
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-Data collection
| Diffraction | Mean temperature: 100 K | 
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| Diffraction source | Source:  SYNCHROTRON / Site:  ESRF   / Beamline: ID14-2 / Wavelength: 0.933  | 
| Detector | Type: ADSC CCD / Detector: CCD | 
| Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | 
| Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 | 
| Reflection | Resolution: 2.3→47.7 Å / Num. obs: 200033 / % possible obs: 96 % / Redundancy: 3.8 % / Rmerge(I) obs: 0.01 / Net I/σ(I): 13.37 | 
| Reflection shell | Resolution: 2.3→2.38 Å / Redundancy: 3.75 % / Rmerge(I) obs: 0.47 / Mean I/σ(I) obs: 3.1 / % possible all: 93 | 
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Processing
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| Refinement | Method to determine structure:  MOLECULAR REPLACEMENTStarting model: PDB ENTRY 1KAC Resolution: 2.3→192.45 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.931 / SU B: 10.615 / SU ML: 0.14 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R: 0.27 / ESU R Free: 0.208 / 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: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Displacement parameters | Biso  mean: 27.18 Å2
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| Refinement step | Cycle: LAST / Resolution: 2.3→192.45 Å
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| Refine LS restraints | 
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Movie
Controller
About Yorodumi




HOMO SAPIENS (human)
CANINE ADENOVIRUS 2
X-RAY DIFFRACTION
Citation













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