MolNFT v1 · #136866 · protein
Crystal structure of cell division protein ftsz from mycobacterium tuberculosis bounded via the T9 loop
5V68: “Crystal structure of cell division protein ftsz from mycobacterium tuberculosis bounded via the T9 loop”. X-ray diffraction, 2 ligands (GDP, PO4), 20 pockets (best druggability 0.81). MolNFT v1 #136866 on GenesisL1: 3D structure…
- PDB
- 5V68
- Type
- protein
- Length
- 1,671 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cell division protein ftsz
- UniProt
- A5U4H7
- Ligands
- GDP, PO4
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 6 distinct chains · 38% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cell division protein ftsz | protein | 263 | 29% helix, 6% strand | A5U4H7 |
| B | Cell division protein ftsz | protein | 301 | 44% helix, 18% strand | A5U4H7 |
| C | Cell division protein ftsz | protein | 297 | 36% helix, 19% strand | A5U4H7 |
| D | Cell division protein ftsz | protein | 212 | 31% helix, 16% strand | A5U4H7 |
| E | Cell division protein ftsz | protein | 298 | 42% helix, 17% strand | A5U4H7 |
| F | Cell division protein ftsz | protein | 300 | 43% helix, 17% strand | A5U4H7 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains B, E
- PO4 · Phosphate ion · ion · 2 copies · chains C, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 284 | 0.81 | 0.93 | 48 | PO4 |
| 2 | 317 | 0.80 | 0.91 | 50 | PO4 |
| 3 | 61 | 0.72 | 0.98 | 21 | empty |
| 4 | 461 | 0.62 | 0.76 | 57 | empty |
| 5 | 187 | 0.62 | 0.83 | 25 | empty |
Interfaces
7 interfaces between chains.
- B–C · 1171 Ų buried · 15 hydrogen bonds · protein-protein
- E–F · 1052 Ų buried · 11 hydrogen bonds · protein-protein
- D–E · 722 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 598 Ų buried · 3 hydrogen bonds · protein-protein
- B–F · 248 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5V68 · Crystal structure of cell division protein FtsZ from Mycobacterium tuberculosis bounded… · the same entry in another collection · chain F against F, TM-score 1.00
- A5U4H7 · AlphaFold monomer V2.0 prediction for cell division protein ftsz (A5U4H7) · a predicted model of the same protein · chain E against A, TM-score 0.98
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 A5U4H7
- Elsewhere: RCSB PDB 5V68 · PDBe 5V68 · UniProt A5U4H7
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