5DQZ Hydrolase Dna date Sep 15, 2015
title Crystal Structure Of Cas-Dna-Pam Complex
authors J.Wang, J.Li, H.Zhao, G.Sheng, M.Wang, M.Yin, Y.Wang
compound source
Molecule: Crispr-Associated Endonuclease Cas1
Chain: D, C, A, B
Ec: 3.1.-.-
Engineered: Yes
Organism_scientific: Escherichia Coli K12
Organism_taxid: 83333
Strain: K12
Gene: Ygbt, Cas1, B2755, Jw2725
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid

Molecule: Dna (36-Mer)
Chain: G
Engineered: Yes
Other_details: Dna-Pam-F

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Dna (36-Mer)
Chain: H
Engineered: Yes
Other_details: Dna-Pam-R

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Crispr-Associated Endoribonuclease Cas2
Chain: F, E
Ec: 3.1.-.-
Engineered: Yes

Organism_scientific: Escherichia Coli K12
Organism_taxid: 83333
Strain: K12
Gene: Ygbf, Cas2, B2754, Jw5438
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: P 21 21 21
R_factor 0.197 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.771 193.380 193.230 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand MG enzyme Hydrolase E.C.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • nuclease activity
  • endonuclease activity


  • F, E
  • nuclease activity
  • endonuclease activity


  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (509 Kb) [Save to disk]
  • Biological Unit Coordinates (5dqz.pdb1.gz) 497 Kb
  • LPC: Ligand-Protein Contacts for 5DQZ
  • CSU: Contacts of Structural Units for 5DQZ
  • Structure Factors (1157 Kb)
  • Retrieve 5DQZ in mmCIF format [Save to disk]
  • Re-refined 5dqz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5DQZ 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 5DQZ
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5dqz from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dqz_H] [5dqz_A] [5dqz_F] [5dqz_E] [5dqz_C] [5dqz_D] [5dqz_G] [5dqz_B] [5dqz]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5DQZ
  • Community annotation for 5DQZ at PDBWiki (http://pdbwiki.org)

  • 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