Research workbench
Crystal structure of xenopus GCP2-N terminal domain and MZT2
Analyse Crystal structure of xenopus GCP2-N terminal domain and MZT2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7FAD
- Type
- protein
- Length
- 456 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gamma-tubulin complex component; Mitotic-spindle organizing protein 2B
- UniProt
- Q6DDJ4, Q28DB1
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 74% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gamma-tubulin complex component | protein | 102 | 75% helix, 0% strand | Q6DDJ4 |
| B, D, F | Mitotic-spindle organizing protein 2B | protein | 50 | 68% helix, 0% strand | Q28DB1 |
| C | Gamma-tubulin complex component | protein | 104 | 74% helix, 0% strand | Q6DDJ4 |
| E | Gamma-tubulin complex component | protein | 100 | 77% helix, 0% strand | Q6DDJ4 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1115 | 0.76 | 0.78 | 111 | empty |
| 2 | 110 | 0.36 | 0.74 | 15 | empty |
| 3 | 106 | 0.35 | 0.73 | 17 | empty |
| 4 | 59 | 0.28 | 0.73 | 13 | empty |
Interfaces
9 interfaces between chains.
- C–D · 2138 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 2122 Ų buried · 10 hydrogen bonds · protein-protein
- E–F · 2095 Ų buried · 8 hydrogen bonds · protein-protein
- C–E · 435 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 425 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7FAD · Crystal structure of Xenopus GCP2-N terminal domain and Mzt2 · the same entry in another collection · chain C against C, TM-score 1.00
- Q28DB1 · AlphaFold monomer V2.0 prediction for mitotic-spindle organizing protein 2B (Q28DB1) · 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 Q6DDJ4
- Every structure of UniProt Q28DB1
- Elsewhere: RCSB PDB 7FAD · PDBe 7FAD · UniProt Q6DDJ4 · UniProt Q28DB1
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