MolNFT v1 · #121098 · protein
1.93 ångström resolution crystal structure of a pullulanase-specific type II secretion system integral cytoplasmic membrane protein gspl (C-terminal fragment; residues 309-397) from klebsiella pneumoniae subsp. pneumoniae ntuh-K2044
5HL8 · Type II secretion system protein L: “1.93 ångström resolution crystal structure of a pullulanase-specific type II secretion system integral…”. X-ray diffraction, 3 pockets (best druggability 0.50). MolNFT v1 #121098 on GenesisL1: 3D…
- PDB
- 5HL8
- Type
- protein
- Length
- 309 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Type II secretion system protein L
- UniProt
- A0A060VDE2
- Pockets
- 3 · best druggability 0.50
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Type II secretion system protein L | protein | 81 | 28% helix, 46% strand | A0A060VDE2 |
| C | Type II secretion system protein L | protein | 79 | 28% helix, 42% strand | A0A060VDE2 |
| D | Type II secretion system protein L | protein | 68 | 34% helix, 37% strand | A0A060VDE2 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 175 | 0.50 | 0.77 | 26 | empty |
| 2 | 105 | 0.43 | 0.78 | 18 | empty |
| 3 | 70 | 0.33 | 0.75 | 17 | empty |
Interfaces
4 interfaces between chains.
- B–C · 731 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 551 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 429 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 125 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (engineered).
Compared structures
- 5HL8 · 1.93 Angstrom resolution crystal structure of a pullulanase-specific type II secretion… · 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 A0A060VDE2
- Elsewhere: RCSB PDB 5HL8 · PDBe 5HL8 · UniProt A0A060VDE2
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