Research workbench
AP2 bound to the apa domain of sgip in the presence of heparin
Analyse AP2 bound to the apa domain of sgip in the presence of heparin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RWB
- Type
- protein
- Length
- 3,408 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ap-2 complex subunit alpha-2; Ap-2 complex subunit beta; Ap-2 complex subunit mu; Ap-2…
- UniProt
- P17427, Q9DBG3, P84091, P62743
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 4 distinct chains · 54% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, a | Ap-2 complex subunit alpha-2 | protein | 612 | 71% helix, 1% strand | P17427 |
| B, b | Ap-2 complex subunit beta | protein | 557 | 65% helix, 0% strand | Q9DBG3 |
| M, m | Ap-2 complex subunit mu | protein | 393 | 16% helix, 43% strand | P84091 |
| S, s | Ap-2 complex subunit sigma | protein | 142 | 43% helix, 25% strand | P62743 |
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 | 1188 | 0.82 | 0.83 | 151 | empty |
| 2 | 558 | 0.80 | 0.86 | 70 | empty |
| 3 | 678 | 0.79 | 0.83 | 77 | empty |
| 4 | 409 | 0.76 | 0.85 | 63 | empty |
| 5 | 497 | 0.74 | 0.82 | 60 | empty |
Interfaces
15 interfaces between chains.
- A–S · 2444 Ų buried · 22 hydrogen bonds · protein-protein
- a–s · 2443 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 1823 Ų buried · 19 hydrogen bonds · protein-protein
- a–b · 1823 Ų buried · 19 hydrogen bonds · protein-protein
- B–M · 1659 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 7RWB · AP2 bound to the APA domain of SGIP in the presence of heparin · the same entry in another collection · chain m against m, TM-score 1.00
- P62743 · AlphaFold monomer V2.0 prediction for ap-2 complex subunit sigma (P62743) · a predicted model of the same protein · chain S against A, TM-score 0.97
- P17427 · AlphaFold monomer V2.0 prediction for ap-2 complex subunit alpha-2 (P17427) · a predicted model of the same protein · chain a against A, TM-score 0.96
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 P17427
- Every structure of UniProt Q9DBG3
- Every structure of UniProt P84091
- Every structure of UniProt P62743
- Elsewhere: RCSB PDB 7RWB · PDBe 7RWB · UniProt P17427 · UniProt Q9DBG3 · UniProt P84091 · UniProt P62743
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