4H7D Crystal structure of haloalkane dehalogenase LinB T81A mutant from Sphingobium sp. MI1205 date 2012-09-20
authors Okai, M., Ohtsuka, J., Imai, L.F., Mase, T., Moriuchi, R., Tsuda, M., Nagata, K., Nagata, Y., Tanokura, M.
compound source
symmetry
R_factor
R_Free 0.21022
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.95
ligand CA, CL, GOL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal Structure and Site-Directed Mutagenesis Analyses of Haloalkane Dehalogenase LinB from Sphingobium sp. Strain MI1205., Okai M, Ohtsuka J, Imai LF, Mase T, Moriuchi R, Tsuda M, Nagata K, Nagata Y, Tanokura M, J Bacteriol. 2013 Jun;195(11):2642-51. doi: 10.1128/JB.02020-12. Epub 2013 Apr 5. PMID:23564170
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (4h7d.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 4H7D
  • CSU: Contacts of Structural Units for 4H7D
  • Structure Factors (280 Kb)
  • Retrieve 4H7D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4H7D from S2C, [Save to disk]
  • Re-refined 4h7d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4H7D 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 4H7D
  • 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 4H7D, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4h7d] [4h7d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4H7D
  • Community annotation for 4H7D at PDBWiki (http://pdbwiki.org)

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