Research workbench
Porphyromonas gingivalis gingipain K (kgp) in complex with inhibitor kyt-36
Analyse Porphyromonas gingivalis gingipain K (kgp) in complex with inhibitor kyt-36 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6I9A
- Type
- protein
- Length
- 908 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q51817
- Ligands
- DTV, NA, CA, UNX
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | — | protein | 454 | — | Q51817 |
Ligands and binding sites
- DTV · (2S,3S)-1,4-dimercaptobutane-2,3-diol · ligand · chains B
- NA · Sodium ion · metal · 4 copies · chains A, B
- CA · Calcium ion · metal · 4 copies · chains A, B
- UNX · Unknown atom or ion · ion · 4 copies · chains A, B
- GOL · Glycerol · additive · 6 copies · chains A, B
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6I9A · Porphyromonas gingivalis gingipain K (Kgp) in complex with inhibitor KYT-36 · the same entry in another collection · chain A against A, TM-score 1.00
- Q51817 · AlphaFold monomer V2.0 prediction for lys-gingipain W83 (Q51817) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q51817
- Elsewhere: RCSB PDB 6I9A · PDBe 6I9A · UniProt Q51817
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