MolNFT v2 · #125947 · protein + DNA
Cryo-EM structure of RecBCD+DNA complex revealing activated nuclease domain
5LD2: “Cryo-EM structure of RecBCD+DNA complex revealing activated nuclease domain”. Electron microscopy at 3.83, 2 ligands (ANP, MG). MolNFT v2 #125947 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LD2
- Type
- protein + DNA
- Length
- 2,928 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.83
- Source
- Escherichia coli (strain K12); SYNTHETIC CONSTRUCT
- UniProt
- P08394, P07648, P04993
- Ligands
- ANP, MG
Structure
electron microscopy · resolution 3.83 · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | — | protein | 1151 | — | P08394 |
| C | — | protein | 1121 | — | P07648 |
| D | — | protein | 605 | — | P04993 |
| X | — | dna | 51 | — | — |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains B
- MG · Magnesium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5LD2 · Cryo-EM structure of RECBCD+DNA complex revealing activated nuclease domain · the same entry in another collection · chain B against B, 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 P08394
- Every structure of UniProt P07648
- Every structure of UniProt P04993
- Elsewhere: RCSB PDB 5LD2 · PDBe 5LD2 · UniProt P08394 · UniProt P07648 · UniProt P04993
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