4DD8 ADAM-8 metalloproteinase domain with bound batimastat date 2012-01-18
authors Hall, T., Shieh, H.S., Day, J.E., Caspers, N., Chrencik, J.E., Williams, J.M., Pegg, L.E., Pauley, A.M., Moon, A.F., Krahn, J.M., Fischer, D.H., Kiefer, J.R., Tomasselli, A.G., Zack, M.D.
compound source
symmetry
R_factor
R_Free 0.2550
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.10
ligand BAT, CA, CL, K, NA, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructure of human ADAM-8 catalytic domain complexed with batimastat., Hall T, Shieh HS, Day JE, Caspers N, Chrencik JE, Williams JM, Pegg LE, Pauley AM, Moon AF, Krahn JM, Fischer DH, Kiefer JR, Tomasselli AG, Zack MD, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Jun 1;68(Pt 6):616-21., Epub 2012 May 22. PMID:22684055
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (146 Kb) [Save to disk]
  • Biological Unit Coordinates (4dd8.pdb1.gz) 37 Kb
  • Biological Unit Coordinates (4dd8.pdb2.gz) 38 Kb
  • Biological Unit Coordinates (4dd8.pdb3.gz) 37 Kb
  • Biological Unit Coordinates (4dd8.pdb4.gz) 38 Kb
  • LPC: Ligand-Protein Contacts for 4DD8
  • CSU: Contacts of Structural Units for 4DD8
  • Structure Factors (481 Kb)
  • Retrieve 4DD8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4DD8 from S2C, [Save to disk]
  • Re-refined 4dd8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4DD8 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4DD8
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4DD8, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4dd8_A] [4dd8] [4dd8_B] [4dd8_D] [4dd8_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4DD8
  • Community annotation for 4DD8 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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