3B3S Crystal structure of the M180A mutant of the aminopeptidase from Vibrio proteolyticus in complex with leucine date
authors Ataie, N.J., Hoang, Q.Q., Petsko, G.A., Ringe, D.
compound source
R_Free 0.196
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.18
ligand LEU, NA, SCN, ZN enzyme
Primary referenceZinc coordination geometry and ligand binding affinity: the structural and kinetic analysis of the second-shell serine 228 residue and the methionine 180 residue of the aminopeptidase from Vibrio proteolyticus., Ataie NJ, Hoang QQ, Zahniser MP, Tu Y, Milne A, Petsko GA, Ringe D, Biochemistry. 2008 Jul 22;47(29):7673-83. Epub 2008 Jun 25. PMID:18576673
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (3b3s.pdb1.gz) 106 Kb
  • LPC: Ligand-Protein Contacts for 3B3S
  • CSU: Contacts of Structural Units for 3B3S
  • Likely Quarternary Molecular Structure file(s) for 3B3S
  • Structure Factors (796 Kb)
  • Retrieve 3B3S in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3B3S from S2C, [Save to disk]
  • Re-refined 3b3s structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3B3S 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 3B3S
  • 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 3B3S, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3b3s_A] [3b3s]
  • SWISS-PROT database: [Q01693]
  • Domain organization of [AMPX_VIBPR] by SWISSPFAM
  • Other resources with information on 3B3S
  • Community annotation for 3B3S at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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