Research workbench
Condensin complex from S.CEREVISIAE ATP-free apo bridged state
Analyse Condensin complex from S.CEREVISIAE ATP-free apo bridged state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YVV
- Type
- protein
- Length
- 2,037 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Structural maintenance of chromosomes protein 2,STRUCTURAL maintenance of chromosomes…
- UniProt
- P38989, Q12267, P38170, Q06156
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 4 distinct chains · 57% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Structural maintenance of chromosomes protein 2,STRUCTURAL maintenance of chromosomes protein 2 | protein | 465 | 51% helix, 12% strand | P38989 |
| B | Structural maintenance of chromosomes protein 4 | protein | 480 | 48% helix, 17% strand | Q12267 |
| C | Condensin complex subunit 2,BRN1 | protein | 226 | 44% helix, 6% strand | P38170 |
| D | Condensin complex subunit 1,YCS4 | protein | 866 | 69% helix, 0% strand | Q06156 |
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 | 1178 | 0.84 | 0.85 | 138 | empty |
| 2 | 256 | 0.84 | 0.95 | 40 | empty |
| 3 | 705 | 0.83 | 0.87 | 85 | empty |
| 4 | 431 | 0.82 | 0.90 | 66 | empty |
| 5 | 272 | 0.81 | 0.92 | 38 | empty |
Interfaces
5 interfaces between chains.
- C–D · 2147 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 1648 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 1152 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 465 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 305 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6YVV · Condensin complex from S.cerevisiae ATP-free apo bridged state · the same entry in another collection · chain D against D, TM-score 1.00
- Q06156 · AlphaFold monomer V2.0 prediction for condensin complex subunit 1 (Q06156) · a predicted model of the same protein · chain D against A, TM-score 0.92
- Q12267 · AlphaFold monomer V2.0 prediction for structural maintenance of chromosomes protein 4… · a predicted model of the same protein · chain B against A, TM-score 0.86
- P38989 · AlphaFold monomer V2.0 prediction for structural maintenance of chromosomes protein 2… · a predicted model of the same protein · chain A against A, TM-score 0.68
- P38170 · AlphaFold monomer V2.0 prediction for condensin complex subunit 2 (P38170) · a predicted model of the same protein · chain C against A, TM-score 0.34
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 P38989
- Every structure of UniProt Q12267
- Every structure of UniProt P38170
- Every structure of UniProt Q06156
- Elsewhere: RCSB PDB 6YVV · PDBe 6YVV · UniProt P38989 · UniProt Q12267 · UniProt P38170 · UniProt Q06156
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