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
Ec: 3.4.21.92
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
crystal
cell
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
ligand
enzyme Hydrolase E.C.3.4.21.92 BRENDA
Gene SAOUHSC
Gene
Ontology
ChainFunctionProcessComponent
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.

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