3V5I Hydrolase date Dec 16, 2011
title The Crystal Structure Of The Mutant Clpp S98a (Staphylococcu
authors A.List, M.Gersch, M.Groll, S.Sieber
compound source
Molecule: Atp-Dependent Clp Protease Proteolytic Subunit
Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R V, W, X, Y, Z, A, B;
Synonym: Endopeptidase Clp
Engineered: Yes
Mutation: Yes
Organism_scientific: Staphylococcus Aureus Subsp. Aureus
Organism_taxid: 93061
Strain: Nctc 8325
Gene: Clpp, Saouhsc_00790
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmide
Expression_system_plasmid: Pet301
symmetry Space Group: P 1
R_factor 0.216 R_Free 0.242
length a length b length c angle alpha angle beta angle gamma
97.550 109.730 171.410 73.10 78.68 71.46
method X-Ray Diffractionresolution 2.80 Å
enzyme Hydrolase E.C. BRENDA
S, F, T, N, K, Y, E, V, Z, Q, M, C, L, A, J, O, W, X, P, B, H, D, R, I, G, U

a, b

Primary referenceInsights into structural network responsible for oligomerization and activity of bacterial virulence regulator caseinolytic protease P (ClpP) protein., Gersch M, List A, Groll M, Sieber SA, J Biol Chem. 2012 Mar 16;287(12):9484-94. Epub 2012 Jan 30. PMID:22291011
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1715 Kb) [Save to disk]
  • Biological Unit Coordinates (3v5i.pdb1.gz) 847 Kb
  • Biological Unit Coordinates (3v5i.pdb2.gz) 850 Kb
  • CSU: Contacts of Structural Units for 3V5I
  • Structure Factors (1203 Kb)
  • Retrieve 3V5I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V5I from S2C, [Save to disk]
  • Re-refined 3v5i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3V5I 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 3V5I
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3V5I, from MSDmotif at EBI
  • Fold representative 3v5i from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v5i_A] [3v5i_b] [3v5i_U] [3v5i_R] [3v5i_S] [3v5i_I] [3v5i_M] [3v5i_V] [3v5i_G] [3v5i_Q] [3v5i_K] [3v5i_D] [3v5i_a] [3v5i_T] [3v5i_X] [3v5i_Z] [3v5i] [3v5i_P] [3v5i_F] [3v5i_O] [3v5i_L] [3v5i_C] [3v5i_W] [3v5i_J] [3v5i_B] [3v5i_H] [3v5i_N] [3v5i_E] [3v5i_Y]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3V5I
  • Community annotation for 3V5I at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science