MolNFT v1 · #185184 · protein + DNA
Structure of the human ccan cenp-a alpha-satellite complex
7PII · Histone H3-like centromeric protein a: “Structure of the human ccan cenp-a alpha-satellite complex”. Electron microscopy, 20 pockets (best druggability 0.83). MolNFT v1 #185184 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 7PII
- Type
- protein + DNA
- Length
- 1,024 residues
- Chains
- 12
- 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, P62807, Q03188
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 11 distinct chains · 59% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone H3-like centromeric protein a | protein | 99 | 68% helix, 4% strand | P49450 |
| B | Histone H4 | protein | 78 | 59% helix, 8% strand | P62805 |
| C | Histone H2A type 1-C | protein | 98 | 59% helix, 5% strand | Q93077 |
| D, H | Histone H2B type 1-C/E/F/G/I | protein | 92 | 75% helix, 3% strand | P62807 |
| E | Histone H3-like centromeric protein a | protein | 94 | 65% helix, 4% strand | P49450 |
| F | Histone H4 | protein | 80 | 60% helix, 8% strand | P62805 |
| G | Histone H2A type 1-C | protein | 103 | 54% helix, 6% strand | Q93077 |
| I | DNA (122-mer) | dna | 122 | — | — |
| J | DNA (123-mer) | dna | 123 | — | — |
| K | Centromere protein C | protein | 21 | 0% helix, 10% strand | Q03188 |
| L | Centromere protein C | protein | 22 | 0% helix, 18% strand | Q03188 |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 797 | 0.83 | 0.86 | 81 | empty |
| 2 | 690 | 0.82 | 0.87 | 60 | empty |
| 3 | 502 | 0.82 | 0.89 | 54 | empty |
| 4 | 155 | 0.65 | 0.86 | 25 | empty |
| 5 | 608 | 0.64 | 0.76 | 49 | empty |
Interfaces
45 interfaces between chains.
- I–J · 5223 Ų buried · 409 hydrogen bonds · nucleic-nucleic
- E–F · 2602 Ų buried · 17 hydrogen bonds · protein-protein
- G–H · 2562 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 2562 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 2536 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 7PII · Structure of the human CCAN CENP-A alpha-satellite complex · the same entry in another collection · chain L against L, 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 P62807
- Every structure of UniProt Q03188
- Elsewhere: RCSB PDB 7PII · PDBe 7PII · UniProt P49450 · UniProt P62805 · UniProt Q93077 · UniProt P62807 · UniProt Q03188
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