Research workbench
Cryo-EM structure of the yeast SWI/SNF complex in a nucleosome free state
Analyse Cryo-EM structure of the yeast SWI/SNF complex in a nucleosome free state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7C4J
- Type
- protein
- Length
- 3,660 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription regulatory protein SNF12; SWI/SNF complex subunit SWI3; Transcription…
- EC
- 3.6.4.-
- UniProt
- P53628, P32591, P18888, P43554, P18480, P22082, P09547, P53330, Q12406, Q05123
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 12 distinct chains · 50% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription regulatory protein SNF12 | protein | 374 | 50% helix, 16% strand | P53628 |
| B | SWI/SNF complex subunit SWI3 | protein | 395 | 56% helix, 3% strand | P32591 |
| C | Transcription regulatory protein SNF6 | protein | 154 | 52% helix, 6% strand | P18888 |
| D | SWI/SNF complex subunit SWI3 | protein | 421 | 61% helix, 1% strand | P32591 |
| E | SWI/SNF global transcription activator complex subunit SWP82 | protein | 288 | 45% helix, 3% strand | P43554 |
| F | SWI/SNF chromatin-remodeling complex subunit SNF5 | protein | 383 | 38% helix, 13% strand | P18480 |
| H | Transcription regulatory protein SNF2 (EC 3.6.4.-) | protein | 242 | 67% helix, 5% strand | P22082 |
| I | SWI/SNF chromatin-remodeling complex subunit SWI1 | protein | 524 | 63% helix, 3% strand | P09547 |
| G | Unkown | protein | 47 | 0% helix, 15% strand | — |
| J | Regulator of TY1 transposition protein 102 | protein | 53 | 13% helix, 28% strand | P53330 |
| K | Actin-related protein 7 | protein | 387 | 40% helix, 19% strand | Q12406 |
| L | Actin-like protein ARP9 | protein | 392 | 39% helix, 19% strand | Q05123 |
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 | 993 | 0.88 | 0.89 | 136 | empty |
| 2 | 764 | 0.87 | 0.90 | 103 | empty |
| 3 | 579 | 0.85 | 0.91 | 82 | empty |
| 4 | 1083 | 0.85 | 0.86 | 100 | empty |
| 5 | 800 | 0.81 | 0.84 | 84 | empty |
Interfaces
36 interfaces between chains.
- B–D · 5678 Ų buried · 43 hydrogen bonds · protein-protein
- D–F · 3853 Ų buried · 40 hydrogen bonds · protein-protein
- A–B · 3563 Ų buried · 23 hydrogen bonds · protein-protein
- H–I · 3051 Ų buried · 31 hydrogen bonds · protein-protein
- A–D · 2986 Ų buried · 26 hydrogen bonds · protein-protein
Compared structures
- 7C4J · Cryo-EM structure of the yeast Swi/Snf complex in a nucleosome free state · 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 P53628
- Every structure of UniProt P32591
- Every structure of UniProt P18888
- Every structure of UniProt P43554
- Every structure of UniProt P18480
- Every structure of UniProt P22082
- Every structure of UniProt P09547
- Every structure of UniProt P53330
- Every structure of UniProt Q12406
- Every structure of UniProt Q05123
- Elsewhere: RCSB PDB 7C4J · PDBe 7C4J · UniProt P53628 · UniProt P32591 · UniProt P18888 · UniProt P43554 · UniProt P18480 · UniProt P22082 · UniProt P09547 · UniProt P53330 · UniProt Q12406 · UniProt Q05123
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