Research workbench
Crystal structure of the MDC1 brct repeat in complex with the histone tail of gamma-H2AX
Analyse Crystal structure of the MDC1 brct repeat in complex with the histone tail of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2AZM
- Type
- protein
- Length
- 398 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mediator of DNA damage checkpoint protein 1; Gamma-H2AX histone
- UniProt
- Q14676
- Pockets
- 1 · best druggability 0.48
Structure
x-ray diffraction · 3 distinct chains · 41% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mediator of DNA damage checkpoint protein 1 | protein | 193 | 44% helix, 14% strand | Q14676 |
| B | Mediator of DNA damage checkpoint protein 1 | protein | 195 | 40% helix, 13% strand | Q14676 |
| C, D | Gamma-H2AX histone | protein | 5 | 0% helix, 20% strand | — |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 127 | 0.48 | 0.79 | 27 | empty |
Interfaces
3 interfaces between chains.
- A–B · 406 Ų buried · 6 hydrogen bonds · protein-protein
- B–D · 371 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 371 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered, phosphorylation).
Compared structures
- 2AZM · Crystal structure of the MDC1 brct repeat in complex with the histone tail of gamma-H2AX · the same entry in another collection · chain A against A, TM-score 1.00
- Q14676 · AlphaFold monomer V2.0 prediction for mediator of DNA damage checkpoint protein 1 (Q14676) · 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 Q14676
- Elsewhere: RCSB PDB 2AZM · PDBe 2AZM · UniProt Q14676
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