5B5Q Hydrolase date May 13, 2016
title 1.7 Angstroms Structure Of Chladub1 From Chlamydia Trachomat
authors Y.A.Ramirez, C.Kisker, F.Sauer
compound source
Molecule: Membrane Thiol Protease
Chain: A
Fragment: Unp Residues 159-401
Ec: 3.4.22.-
Engineered: Yes
Other_details: Chlamydia Trachomatis Deubiquitinase 1
Organism_scientific: Chlamydia Trachomatis
Organism_taxid: 813
Gene: Cdu1, Ers066953_00737
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Membrane Thiol Protease
Chain: B
Fragment: Unp Residues 155-401
Engineered: Yes

Organism_scientific: Chlamydia Trachomatis
Organism_taxid: 813
Gene: Ct868
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768
symmetry Space Group: P 1 21 1
R_factor 0.165 R_Free 0.213
length a length b length c angle alpha angle beta angle gamma
39.100 77.573 68.948 90.00 96.43 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand CL enzyme Hydrolase E.C.3.4.22 BRENDA
Gene ERS066953
A, B

Primary referenceChlamydia trachomatis-containing vacuole serves as deubiquitination platform to stabilize Mcl-1 and to interfere with host defense., Fischer A, Harrison KS, Ramirez Y, Auer D, Chowdhury SR, Prusty BK, Sauer F, Dimond Z, Kisker C, Scott Hefty P, Rudel T, Elife. 2017 Mar 28;6. pii: e21465. doi: 10.7554/eLife.21465. PMID:28347402
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (254 Kb) [Save to disk]
  • Biological Unit Coordinates (5b5q.pdb1.gz) 124 Kb
  • Biological Unit Coordinates (5b5q.pdb2.gz) 125 Kb
  • LPC: Ligand-Protein Contacts for 5B5Q
  • CSU: Contacts of Structural Units for 5B5Q
  • Structure Factors (924 Kb)
  • Retrieve 5B5Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5B5Q from S2C, [Save to disk]
  • Re-refined 5b5q structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5B5Q 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 5B5Q
  • 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
  • Fold representative 5b5q from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5b5q_A] [5b5q_B] [5b5q]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5B5Q
  • Community annotation for 5B5Q at PDBWiki (http://pdbwiki.org)

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