MolNFT v1 · #164732 · protein + DNA
Structure of two copies of human SOX11 transcription factor in complex with a nucleosome
6T7C · Histone H3.2: “Structure of two copies of human SOX11 transcription factor in complex with a nucleosome”. Electron microscopy, 20 pockets (best druggability 0.78). MolNFT v1 #164732 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6T7C
- Type
- protein + DNA
- Length
- 1,107 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone H3.2; Histone H4; Histone H2A type 1-B/E; Histone H2B type 1-K; DNA (147-mer)…
- UniProt
- Q71DI3, P62805, P04908, O60814, P35716
- Pockets
- 20 · best druggability 0.78
Structure
electron microscopy · 10 distinct chains · 61% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone H3.2 | protein | 98 | 62% helix, 4% strand | Q71DI3 |
| B | Histone H4 | protein | 84 | 58% helix, 7% strand | P62805 |
| C, G | Histone H2A type 1-B/E | protein | 106 | 48% helix, 6% strand | P04908 |
| D, H | Histone H2B type 1-K | protein | 95 | 72% helix, 4% strand | O60814 |
| E | Histone H3.2 | protein | 97 | 63% helix, 2% strand | Q71DI3 |
| F | Histone H4 | protein | 87 | 55% helix, 5% strand | P62805 |
| I | DNA (147-mer) | dna | 95 | — | — |
| J | DNA (147-mer) | dna | 95 | — | — |
| K | Transcription factor sox-11 | protein | 77 | 65% helix, 0% strand | P35716 |
| L | Transcription factor sox-11 | protein | 72 | 69% helix, 0% strand | P35716 |
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 | 606 | 0.78 | 0.84 | 46 | empty |
| 2 | 382 | 0.77 | 0.87 | 50 | empty |
| 3 | 377 | 0.76 | 0.86 | 42 | empty |
| 4 | 791 | 0.69 | 0.77 | 74 | empty |
| 5 | 303 | 0.66 | 0.82 | 30 | empty |
Interfaces
42 interfaces between chains.
- I–J · 4128 Ų buried · 307 hydrogen bonds · nucleic-nucleic
- A–B · 2663 Ų buried · 24 hydrogen bonds · protein-protein
- C–D · 2639 Ų buried · 19 hydrogen bonds · protein-protein
- G–H · 2607 Ų buried · 15 hydrogen bonds · protein-protein
- E–F · 2478 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 6T7C · Structure of two copies of human Sox11 transcription factor in complex with a nucleosome · 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 Q71DI3
- Every structure of UniProt P62805
- Every structure of UniProt P04908
- Every structure of UniProt O60814
- Every structure of UniProt P35716
- Elsewhere: RCSB PDB 6T7C · PDBe 6T7C · UniProt Q71DI3 · UniProt P62805 · UniProt P04908 · UniProt O60814 · UniProt P35716
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