MolNFT v1 · #188667 · protein + DNA
Cryoem structure of cenp-N promoted nucleosome stacks with cenp-a and palindromic alpha satellite DNA sequence
7U47 · Histone H3-like centromeric protein a: “Cryoem structure of cenp-N promoted nucleosome stacks with cenp-a and palindromic alpha satellite DNA sequence”. Electron microscopy, 20 pockets (best druggability 0.82). MolNFT v1 #188667 on…
- PDB
- 7U47
- Type
- protein + DNA
- Length
- 2,430 residues
- Chains
- 22
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone H3-like centromeric protein a; Histone H4; Histone H2A; Histone H2B type…
- UniProt
- P49450, P62805, Q93077, P62807, Q96H22
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 10 distinct chains · 59% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, L | Histone H3-like centromeric protein a | protein | 89 | 69% helix, 4% strand | P49450 |
| B, M | Histone H4 | protein | 79 | 58% helix, 8% strand | P62805 |
| C, N | Histone H2A | protein | 99 | 54% helix, 6% strand | Q93077 |
| D, H, O, S | Histone H2B type 1-C/E/F/G/I | protein | 92 | 74% helix, 4% strand | P62807 |
| E, P | Histone H3-like centromeric protein a | protein | 91 | 68% helix, 4% strand | P49450 |
| F, Q | Histone H4 | protein | 78 | 60% helix, 8% strand | P62805 |
| G, R | Histone H2A | protein | 100 | 56% helix, 6% strand | Q93077 |
| I, T | DNA (147-mer) | dna | 145 | — | — |
| J, U | DNA (147-mer) | dna | 145 | — | — |
| K, V | Centromere protein N | protein | 205 | 47% helix, 20% 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 | 978 | 0.82 | 0.84 | 75 | empty |
| 2 | 569 | 0.78 | 0.85 | 52 | empty |
| 3 | 675 | 0.77 | 0.82 | 80 | empty |
| 4 | 592 | 0.77 | 0.83 | 59 | empty |
| 5 | 479 | 0.76 | 0.84 | 55 | empty |
Interfaces
86 interfaces between chains.
- I–J · 6491 Ų buried · 478 hydrogen bonds · nucleic-nucleic
- T–U · 6468 Ų buried · 478 hydrogen bonds · nucleic-nucleic
- N–O · 2576 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 2574 Ų buried · 14 hydrogen bonds · protein-protein
- G–H · 2552 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 7U47 · CryoEM structure of CENP-N promoted nucleosome stacks with CENP-A and palindromic alpha… · the same entry in another collection · chain K against K, 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 Q96H22
- Elsewhere: RCSB PDB 7U47 · PDBe 7U47 · UniProt P49450 · UniProt P62805 · UniProt Q93077 · UniProt P62807 · UniProt Q96H22
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