Research workbench
Complex of the guanine exchange factor SEC2P and the rab GTPase SEC4P
Analyse Complex of the guanine exchange factor SEC2P and the rab GTPase SEC4P in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OCY
- Type
- protein
- Length
- 445 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rab guanine nucleotide exchange factor SEC2; RAS-related protein SEC4
- UniProt
- P17065, P07560
- Pockets
- 3 · best druggability 0.32
Structure
x-ray diffraction · 2 distinct chains · 63% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Rab guanine nucleotide exchange factor SEC2 | protein | 149 | 91% helix, 0% strand | P17065 |
| C | RAS-related protein SEC4 | protein | 147 | 33% helix, 16% strand | P07560 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 56 | 0.32 | 0.76 | 12 | empty |
| 2 | 56 | 0.31 | 0.76 | 15 | empty |
| 3 | 59 | 0.26 | 0.73 | 13 | empty |
Interfaces
3 interfaces between chains.
- A–B · 3843 Ų buried · 24 hydrogen bonds · protein-protein
- B–C · 683 Ų buried · 2 hydrogen bonds · protein-protein
- A–C · 508 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 2OCY · Complex of the guanine exchange factor Sec2p and the Rab GTPase Sec4p · the same entry in another collection · chain A against A, TM-score 1.00
- P07560 · AlphaFold monomer V2.0 prediction for RAS-related protein SEC4 (P07560) · a predicted model of the same protein · chain C against A, TM-score 0.84
- P17065 · AlphaFold monomer V2.0 prediction for rab guanine nucleotide exchange factor SEC2 (P17065) · a predicted model of the same protein · chain A against A, TM-score 0.54
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 P17065
- Every structure of UniProt P07560
- Elsewhere: RCSB PDB 2OCY · PDBe 2OCY · UniProt P17065 · UniProt P07560
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