MolNFT v1 · #157301 · protein + DNA
Cenp-a nucleosome bound by two copies of cenp-C(CD) and two copies cenp-N(NT)
6MUP · Histone H3-like centromeric protein a: “Cenp-a nucleosome bound by two copies of cenp-C(CD) and two copies cenp-N(NT)”. Electron microscopy, 20 pockets (best druggability 0.85). MolNFT v1 #157301 on GenesisL1: 3D structure, binding…
- PDB
- 6MUP
- Type
- protein + DNA
- Length
- 1,518 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone H3-like centromeric protein a; Histone H4; Histone H2A type 1-C; Histone H2B type…
- UniProt
- P49450, P62805, Q93077, Q5QNW6, Q03188, Q96H22
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 11 distinct chains · 44% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone H3-like centromeric protein a | protein | 102 | 50% helix, 3% strand | P49450 |
| B, F | Histone H4 | protein | 90 | 48% helix, 4% strand | P62805 |
| C | Histone H2A type 1-C | protein | 103 | 51% helix, 6% strand | Q93077 |
| D, H | Histone H2B type 2-F | protein | 92 | 57% helix, 4% strand | Q5QNW6 |
| E | Histone H3-like centromeric protein a | protein | 101 | 43% helix, 3% strand | P49450 |
| G | Histone H2A type 1-C | protein | 105 | 49% helix, 5% strand | Q93077 |
| I | DNA (147-mer) | dna | 147 | — | — |
| J | DNA (147-mer) | dna | 147 | — | — |
| K | Centromere protein C | protein | 20 | 0% helix, 0% strand | Q03188 |
| L | Centromere protein C | protein | 19 | 0% helix, 0% strand | Q03188 |
| M, N | Centromere protein N | protein | 205 | 38% helix, 11% strand | Q96H22 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 893 | 0.85 | 0.87 | 106 | empty |
| 2 | 1114 | 0.83 | 0.85 | 96 | empty |
| 3 | 1172 | 0.83 | 0.85 | 96 | empty |
| 4 | 649 | 0.82 | 0.87 | 67 | empty |
| 5 | 559 | 0.81 | 0.87 | 49 | empty |
Interfaces
57 interfaces between chains.
- I–J · 6408 Ų buried · 525 hydrogen bonds · nucleic-nucleic
- E–F · 2645 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 2622 Ų buried · 16 hydrogen bonds · protein-protein
- G–H · 2580 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 2575 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 6MUP · CENP-A nucleosome bound by two copies of CENP-C(CD) and two copies CENP-N(NT) · the same entry in another collection · chain N against N, 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 P49450
- Every structure of UniProt P62805
- Every structure of UniProt Q93077
- Every structure of UniProt Q5QNW6
- Every structure of UniProt Q03188
- Every structure of UniProt Q96H22
- Elsewhere: RCSB PDB 6MUP · PDBe 6MUP · UniProt P49450 · UniProt P62805 · UniProt Q93077 · UniProt Q5QNW6 · UniProt Q03188 · UniProt Q96H22
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