› 2xm3

X-ray diffraction
2.3Å resolution

Deinococcus radiodurans ISDra2 Transposase Left end DNA complex

Released:
DOI: 10.2210/pdb2xm3/pdb
PDB entry 2xm3 coloured by chain, front view.
PDB entry 2xm3 coloured by chain, side view.
PDB entry 2xm3 coloured by chain, top view.
Source organisms:
Primary publication:
DNA recognition and the precleavage state during single-stranded DNA transposition in D. radiodurans.
Hickman AB, James JA, Barabas O, Pasternak C, Ton-Hoang B, Chandler M, Sommer S, Dyda F
EMBO J 29 3840-52 (2010)
PMID: 20890269

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115933 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
ISDra2 transposase TnpA Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 140 amino acids
Theoretical weight: 16.14 KDa
Source organism: Deinococcus radiodurans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q7DF83 (Residues: 1-140; Coverage: 100%)
Gene names: DR_0667, DR_0979, DR_1382, DR_1592, DR_1652, DR_1932, DR_2323, orf1, tnpA, tnpB
Sequence domains: Transposase IS200 like
Structure domains: Transposase IS200-like
DRA2 TRANSPOSASE BINDING ELEMENT Chains: G, I, K, M, O, Q
Molecule details ›
Chains: G, I, K, M, O, Q
Length: 27 nucleotides
Theoretical weight: 8.25 KDa
Source organism: synthetic construct
Expression system: Not provided
5'-D(*TP*TP*AP*GP*T)-3' Chains: H, J, L, N, P, R
Molecule details ›
Chains: H, J, L, N, P, R
Length: 5 nucleotides
Theoretical weight: 1.51 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand ACT 1 x ACT
Ligand MG 12 x MG
Ligand GOL 4 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P212121
Unit cell:
a: 104.583Å b: 128.384Å c: 140.222Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.218 0.218 0.249
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

8 review citations

Bacterial insertion sequences: their genomic impact and diversity.
Siguier et al. (2014)
7 more

2 mentions without citation

DNA recognition and the precleavage state during single-stranded DNA transposition in D. radiodurans.
Hickman et al. (2010)
1 more