Research workbench
Crystal structure of human stromal antigen 2 (SA2) in complex with sister chromatid cohesion protein 1 (SCC1) with bound mes, native proteins
Analyse Crystal structure of human stromal antigen 2 (SA2) in complex with sister… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4PK7
- Type
- protein
- Length
- 979 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cohesin subunit sa-2; Double-strand-break repair protein RAD21 homolog
- UniProt
- Q8N3U4, O60216
- Pockets
- 9 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 70% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cohesin subunit sa-2 | protein | 903 | 72% helix, 0% strand | Q8N3U4 |
| B | Double-strand-break repair protein RAD21 homolog | protein | 76 | 43% helix, 5% strand | O60216 |
Ligands and binding sites
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 932 | 0.77 | 0.79 | 77 | empty |
| 2 | 99 | 0.53 | 0.83 | 23 | empty |
| 3 | 76 | 0.36 | 0.76 | 22 | empty |
| 4 | 64 | 0.35 | 0.77 | 15 | empty |
| 5 | 65 | 0.35 | 0.77 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 3707 Ų buried · 48 hydrogen bonds · protein-protein
Compared structures
- 4PK7 · crystal structure of human Stromal Antigen 2 (SA2) in complex with Sister Chromatid… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8N3U4 · AlphaFold monomer V2.0 prediction for cohesin subunit sa-2 (Q8N3U4) · a predicted model of the same protein · chain A against A, TM-score 0.99
- O60216 · AlphaFold monomer V2.0 prediction for double-strand-break repair protein RAD21 homolog… · a predicted model of the same protein · chain B against A, TM-score 0.85
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 Q8N3U4
- Every structure of UniProt O60216
- Elsewhere: RCSB PDB 4PK7 · PDBe 4PK7 · UniProt Q8N3U4 · UniProt O60216
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