Research workbench
Crystal structure of RECJCDC45 from methanothermobacter thermoautotroficus in complex with dctp
Analyse Crystal structure of RECJCDC45 from methanothermobacter thermoautotroficus in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7BMF
- Type
- protein
- Length
- 888 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Conserved protein
- UniProt
- O27473
- Ligands
- CTP, MN, NO3
- Pockets
- 3 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Conserved protein | protein | 444 | 49% helix, 15% strand | O27473 |
| B | Conserved protein | protein | 444 | 49% helix, 16% strand | O27473 |
Ligands and binding sites
- CTP · Cytidine-5'-triphosphate · ligand · 2 copies · chains A, B
- MN · Manganese (II) ion · metal · 4 copies · chains A, B
- NO3 · Nitrate ion · ion · 6 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1050 | 0.85 | 0.86 | 105 | PEG, CTP |
| 2 | 1159 | 0.84 | 0.85 | 111 | CTP |
| 3 | 311 | 0.71 | 0.84 | 44 | PEG |
Interfaces
1 interface between chains.
- A–B · 486 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7BMF · Crystal structure of RecJCdc45 from Methanothermobacter thermoautotroficus in complex… · the same entry in another collection · chain A against A, TM-score 1.00
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 O27473
- Elsewhere: RCSB PDB 7BMF · PDBe 7BMF · UniProt O27473
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