Research workbench
Crystal structure of cenp-C in complex with the nucleosome core particle
Analyse Crystal structure of cenp-C in complex with the nucleosome core particle in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4X23
- Type
- protein + DNA
- Length
- 2,103 residues
- Chains
- 24
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (147-mer); Histone H3; Histone H4; Histone H2A; Histone H2B; Cenp-C
- UniProt
- P02299, P84040, P84051, P02283, Q66LH7
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · 12 distinct chains · 60% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| I, S | DNA (147-mer) | dna | 146 | — | — |
| J, T | DNA (147-mer) | dna | 146 | — | — |
| A, K | Histone H3 | protein | 95 | 66% helix, 4% strand | P02299 |
| B, F, L, P | Histone H4 | protein | 79 | 61% helix, 9% strand | P84040 |
| C, G, M, Q | Histone H2A | protein | 102 | 51% helix, 6% strand | P84051 |
| D, H, N | Histone H2B | protein | 90 | 73% helix, 4% strand | P02283 |
| E, O | Histone H3 | protein | 98 | 66% helix, 4% strand | P02299 |
| V | Cenp-C | protein | 22 | 0% helix, 5% strand | Q66LH7 |
| U | Cenp-C | protein | 5 | 0% helix, 0% strand | Q66LH7 |
| R | Histone H2B | protein | 88 | 76% helix, 5% strand | P02283 |
| X | Cenp-C | protein | 21 | 0% helix, 5% strand | Q66LH7 |
| W | Cenp-C | protein | 3 | 0% helix, 0% strand | Q66LH7 |
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 | 860 | 0.85 | 0.88 | 96 | empty |
| 2 | 569 | 0.79 | 0.86 | 53 | empty |
| 3 | 484 | 0.77 | 0.85 | 50 | empty |
| 4 | 872 | 0.73 | 0.78 | 61 | empty |
| 5 | 795 | 0.72 | 0.78 | 62 | empty |
Interfaces
98 interfaces between chains.
- I–J · 6674 Ų buried · 612 hydrogen bonds · nucleic-nucleic
- S–T · 6656 Ų buried · 601 hydrogen bonds · nucleic-nucleic
- E–F · 2568 Ų buried · 23 hydrogen bonds · protein-protein
- G–H · 2559 Ų buried · 24 hydrogen bonds · protein-protein
- M–N · 2558 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 4X23 · Crystal structure of cenp-C in complex with the nucleosome core particle · the same entry in another collection · chain V against V, 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 P02299
- Every structure of UniProt P84040
- Every structure of UniProt P84051
- Every structure of UniProt P02283
- Every structure of UniProt Q66LH7
- Elsewhere: RCSB PDB 4X23 · PDBe 4X23 · UniProt P02299 · UniProt P84040 · UniProt P84051 · UniProt P02283 · UniProt Q66LH7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.