Research workbench
Crystal structure of GTPase domain of human septin 2/SEPTIN 6 heterocomplex
Analyse Crystal structure of GTPase domain of human septin 2/SEPTIN 6 heterocomplex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6UPA
- Type
- protein
- Length
- 508 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Septin-6; Septin-2
- UniProt
- Q14141, Q15019
- Ligands
- GTP, GDP, MG
- Pockets
- 3 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Septin-6 | protein | 258 | 40% helix, 21% strand | Q14141 |
| A | Septin-2 | protein | 250 | 38% helix, 16% strand | Q15019 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · chains B, A
- GDP · Guanosine-5'-diphosphate · ligand · chains B, A
- MG · Magnesium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 131 | 0.79 | 0.97 | 40 | empty |
| 2 | 434 | 0.70 | 0.81 | 58 | GDP |
| 3 | 432 | 0.69 | 0.80 | 54 | GTP, MG |
Interfaces
1 interface between chains.
- B–A · 1866 Ų buried · 23 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6UPA · Crystal Structure of GTPase Domain of Human Septin 2/Septin 6 Heterocomplex · the same entry in another collection · chain B against B, TM-score 1.00
- Q15019 · AlphaFold monomer V2.0 prediction for septin-2 (Q15019) · a predicted model of the same protein · chain A against A, TM-score 0.99
- Q14141 · AlphaFold monomer V2.0 prediction for septin-6 (Q14141) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 Q14141
- Every structure of UniProt Q15019
- Elsewhere: RCSB PDB 6UPA · PDBe 6UPA · UniProt Q14141 · UniProt Q15019
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