Research workbench
TBIB1 in complex with the TBIA(BETA) leader peptide
Analyse TBIB1 in complex with the TBIA(BETA) leader peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5V1U
- Type
- protein
- Length
- 404 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TBIB1; TBIA(BETA) thr(-5)GLU leader
- UniProt
- D1CIZ5, D1CIY7
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 8 distinct chains · 39% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | TBIB1 | protein | 84 | 46% helix, 27% strand | D1CIZ5 |
| B | TBIB1 | protein | 86 | 45% helix, 27% strand | D1CIZ5 |
| C | TBIB1 | protein | 85 | 46% helix, 25% strand | D1CIZ5 |
| D | TBIB1 | protein | 83 | 47% helix, 25% strand | D1CIZ5 |
| E | TBIA(BETA) thr(-5)GLU leader | protein | 16 | 0% helix, 50% strand | D1CIY7 |
| F | TBIA(BETA) thr(-5)GLU leader | protein | 17 | 0% helix, 47% strand | D1CIY7 |
| G | TBIA(BETA) thr(-5)GLU leader | protein | 16 | 0% helix, 38% strand | D1CIY7 |
| H | TBIA(BETA) thr(-5)GLU leader | protein | 17 | 0% helix, 35% strand | D1CIY7 |
Ligands and binding sites
- ZN · Zinc ion · metal · 11 copies · chains A, B, C, D, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 747 | 0.66 | 0.74 | 49 | empty |
| 2 | 635 | 0.65 | 0.75 | 40 | empty |
| 3 | 101 | 0.46 | 0.80 | 21 | empty |
| 4 | 52 | 0.30 | 0.76 | 16 | empty |
Interfaces
14 interfaces between chains.
- B–F · 907 Ų buried · 13 hydrogen bonds · protein-protein
- A–E · 891 Ų buried · 13 hydrogen bonds · protein-protein
- C–G · 866 Ų buried · 11 hydrogen bonds · protein-protein
- D–H · 776 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 330 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 5V1U · TbiB1 in Complex with the TbiA(beta) Leader Peptide · the same entry in another collection · chain A against A, TM-score 1.00
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 D1CIZ5
- Every structure of UniProt D1CIY7
- Elsewhere: RCSB PDB 5V1U · PDBe 5V1U · UniProt D1CIZ5 · UniProt D1CIY7
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