MolNFT v1 · #150941 · protein + DNA
Structural basis for SCC3-dependent cohesin recruitment to chromatin
6H8Q · Cohesin subunit SCC3: “Structural basis for SCC3-dependent cohesin recruitment to chromatin”. X-ray diffraction, 20 pockets (best druggability 0.84). MolNFT v1 #150941 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6H8Q
- Type
- protein + DNA
- Length
- 1,885 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cohesin subunit SCC3; Sister chromatid cohesion protein 1; DNA (5'…
- UniProt
- P40541, Q12158
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 8 distinct chains · 63% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cohesin subunit SCC3 | protein | 879 | 64% helix, 0% strand | P40541 |
| B | Cohesin subunit SCC3 | protein | 873 | 63% helix, 0% strand | P40541 |
| G | Sister chromatid cohesion protein 1 | protein | 30 | 50% helix, 0% strand | Q12158 |
| H | Sister chromatid cohesion protein 1 | protein | 27 | 56% helix, 0% strand | Q12158 |
| E | DNA (5'- D(P*CP*TP*TP*TP*CP*GP*TP*TP*TP*CP*CP*TP*TP*GP*AP*AP*AP*AP*A)-3') | dna | 19 | — | — |
| F | DNA (5'- D(P*CP*TP*TP*TP*CP*GP*TP*TP*TP*CP*CP*TP*TP*GP*AP*AP*AP*AP*A)-3') | dna | 19 | — | — |
| C | DNA (5'- D(P*TP*TP*TP*TP*TP*CP*AP*AP*GP*GP*AP*AP*AP*CP*GP*AP*AP*AP*G)-3') | dna | 19 | — | — |
| D | DNA (5'- D(P*CP*TP*TP*TP*CP*GP*TP*TP*TP*CP*CP*TP*TP*GP*AP*AP*AP*AP*A)-3') | dna | 19 | — | — |
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 | 366 | 0.84 | 0.93 | 52 | empty |
| 2 | 292 | 0.82 | 0.92 | 45 | empty |
| 3 | 863 | 0.80 | 0.82 | 93 | empty |
| 4 | 778 | 0.76 | 0.81 | 72 | empty |
| 5 | 520 | 0.75 | 0.83 | 41 | empty |
Interfaces
11 interfaces between chains.
- A–G · 1104 Ų buried · 4 hydrogen bonds · protein-protein
- B–H · 1033 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 850 Ų buried · 64 hydrogen bonds · nucleic-nucleic
- E–F · 832 Ų buried · 59 hydrogen bonds · nucleic-nucleic
- A–B · 569 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 6H8Q · Structural basis for Scc3-dependent cohesin recruitment to chromatin · the same entry in another collection · chain D against D, TM-score 1.00
- P40541 · AlphaFold monomer V2.0 prediction for cohesin subunit SCC3 (P40541) · a predicted model of the same protein · chain B against A, TM-score 0.96
- Q12158 · AlphaFold monomer V2.0 prediction for sister chromatid cohesion protein 1 (Q12158) · a predicted model of the same protein · chain H against A, TM-score 0.55
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 P40541
- Every structure of UniProt Q12158
- Elsewhere: RCSB PDB 6H8Q · PDBe 6H8Q · UniProt P40541 · UniProt Q12158
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