Research workbench
Human RAD51 post-synaptic complexes mutant (V273P, D274G)
Analyse Human RAD51 post-synaptic complexes mutant (V273P, D274G) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7C9A
- Type
- protein + DNA
- Length
- 951 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA repair protein RAD51 homolog 1; DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*T)-3'); DNA…
- UniProt
- Q06609
- Ligands
- ANP, CA
- Pockets
- 16 · best druggability 0.83
Structure
electron microscopy · 3 distinct chains · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | DNA repair protein RAD51 homolog 1 | protein | 311 | 40% helix, 17% strand | Q06609 |
| D | DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*T)-3') | dna | 9 | — | — |
| E | DNA (5'-D(P*AP*AP*AP*AP*AP*AP*AP*AP*A)-3') | dna | 9 | — | — |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · 3 copies · chains A, B, C
- CA · Calcium ion · metal · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1124 | 0.83 | 0.84 | 119 | CA, ANP |
| 2 | 759 | 0.80 | 0.84 | 81 | CA, ANP |
| 3 | 359 | 0.75 | 0.86 | 40 | empty |
| 4 | 360 | 0.61 | 0.77 | 36 | empty |
| 5 | 354 | 0.60 | 0.77 | 38 | empty |
Interfaces
9 interfaces between chains.
- B–C · 1903 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1903 Ų buried · 20 hydrogen bonds · protein-protein
- B–D · 640 Ų buried · 5 hydrogen bonds · protein-nucleic
- A–D · 529 Ų buried · 4 hydrogen bonds · protein-nucleic
- C–D · 524 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 7C9A · Human RAD51 post-synaptic complexes mutant (V273P, D274G) · the same entry in another collection · chain A against A, TM-score 1.00
- Q06609 · AlphaFold monomer V2.0 prediction for DNA repair protein RAD51 homolog 1 (Q06609) · 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 Q06609
- Elsewhere: RCSB PDB 7C9A · PDBe 7C9A · UniProt Q06609
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