Research workbench
Crystal structure of recj in complex with MN2+ from thermus thermophilus HB8
Analyse Crystal structure of recj in complex with MN2+ from thermus thermophilus HB8 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ZXP
- Type
- protein
- Length
- 648 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Single-stranded DNA specific exonuclease recj
- EC
- 3.1.11.-
- UniProt
- Q5SJ47
- Ligands
- MN
- Pockets
- 6 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 42% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Single-stranded DNA specific exonuclease recj (EC 3.1.11.-) | protein | 648 | 42% helix, 18% strand | Q5SJ47 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 294 | 0.65 | 0.81 | 35 | empty |
| 2 | 728 | 0.64 | 0.74 | 76 | empty |
| 3 | 159 | 0.54 | 0.80 | 27 | empty |
| 4 | 96 | 0.39 | 0.76 | 20 | empty |
| 5 | 67 | 0.31 | 0.75 | 14 | empty |
Compared structures
- 2ZXP · Crystal structure of RecJ in complex with Mn2+ from Thermus thermophilus HB8 · the same entry in another collection · chain A against A, TM-score 1.00
- Q5SJ47 · AlphaFold monomer V2.0 prediction for single-stranded-DNA-specific exonuclease recj… · a predicted model of the same protein · chain A against A, TM-score 0.98
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q5SJ47
- Elsewhere: RCSB PDB 2ZXP · PDBe 2ZXP · UniProt Q5SJ47
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