6OPM Hydrolase Dna date Apr 25, 2019
title Casposase Bound To Integration Product
authors F.Dyda, A.B.Hickman, S.Kailasan
compound source
Molecule: Crispr-Associated Endonuclease Cas1
Chain: A, B, C, D
Synonym: Casposase
Ec: 3.1.-.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Methanosarcina Mazei
Organism_taxid: 2209
Gene: Cas1, Du30_01425, Du33_00735, Du42_16395, Du43_06520, Du45_00060, Du52_05410, Du56_00015, Du57_15540, Du59_17660, Du64_01200, Du66_03140, Du67_00910, Du68_00045, Du71_17290, Du72_02185, Du87_01695;
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna 21-Mer
Chain: E, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Methanosarcina Mazei
Organism_taxid: 2209

Molecule: Unknown
Chain: H, J
Engineered: Yes

Organism_scientific: Methanosarcina Mazei
Organism_taxid: 2209
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 43 21 2
R_factor 0.198 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.390 106.390 423.360 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand CA, MSE enzyme Hydrolase E.C.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • nuclease activity
  • endonuclease activity


  • Primary referenceCasposase structure and the mechanistic link between DNA transposition and spacer acquisition by CRISPR-Cas., Hickman AB, Kailasan S, Genzor P, Haase AD, Dyda F, Elife. 2020 Jan 8;9. pii: 50004. doi: 10.7554/eLife.50004. PMID:31913120
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (543 Kb) [Save to disk]
  • Biological Unit Coordinates (6opm.pdb1.gz) 528 Kb
  • Biological Unit Coordinates (6opm.pdb2.gz) 6 Kb
  • Biological Unit Coordinates (6opm.pdb3.gz) 6 Kb
  • LPC: Ligand-Protein Contacts for 6OPM
  • CSU: Contacts of Structural Units for 6OPM
  • Structure Factors (2656 Kb)
  • Retrieve 6OPM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6OPM from S2C, [Save to disk]
  • View 6OPM 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 6OPM
  • 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 6opm from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6opm_B] [6opm_A] [6opm_H] [6opm_C] [6opm_J] [6opm_D] [6opm_E] [6opm_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6OPM
  • Community annotation for 6OPM at PDBWiki (http://pdbwiki.org)

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