MolNFT v1 · #160462 · protein
Structural coordination of polymerization and crosslinking by a peptidoglycan synthase complex
6PL5 · Peptidoglycan glycosyltransferase roda: “Structural coordination of polymerization and crosslinking by a peptidoglycan synthase complex”. X-ray diffraction, 11 pockets (best druggability 0.73). MolNFT v1 #160462 on GenesisL1: 3D…
- PDB
- 6PL5
- Type
- protein
- Length
- 924 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peptidoglycan glycosyltransferase roda; Penicillin-binding protein 2/CELL division…
- EC
- 2.4.1.129
- UniProt
- Q5SIX3, Q5SJ23
- Pockets
- 11 · best druggability 0.73
Structure
x-ray diffraction · 3 distinct chains · 48% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peptidoglycan glycosyltransferase roda (EC 2.4.1.129) | protein | 336 | 71% helix, 1% strand | Q5SIX3 |
| B | Penicillin-binding protein 2/CELL division protein ftsi | protein | 577 | 35% helix, 19% strand | Q5SJ23 |
| D | Unknown peptide | protein | 11 | 0% helix, 0% strand | — |
Pockets
11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 863 | 0.73 | 0.78 | 93 | empty |
| 2 | 266 | 0.67 | 0.83 | 40 | empty |
| 3 | 60 | 0.64 | 0.93 | 21 | empty |
| 4 | 249 | 0.58 | 0.79 | 31 | empty |
| 5 | 244 | 0.51 | 0.75 | 23 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1711 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 373 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6PL5 · Structural coordination of polymerization and crosslinking by a peptidoglycan synthase… · 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 Q5SIX3
- Every structure of UniProt Q5SJ23
- Elsewhere: RCSB PDB 6PL5 · PDBe 6PL5 · UniProt Q5SIX3 · UniProt Q5SJ23
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.