MolNFT v1 · #133875 · protein
Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with Z2856434912
5SDC: “Pandda analysis group deposition -- crystal structure of porphyromonas gingivalis in complex with Z2856434912”. X-ray diffraction, 2 ligands (LDV, CL). MolNFT v1 #133875 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5SDC
- Type
- protein
- Length
- 1,392 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- B2RID1
- Ligands
- LDV, CL
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 697 | — | B2RID1 |
| B | — | protein | 695 | — | B2RID1 |
Ligands and binding sites
- LDV · 3-[(4-methylpiperidin-1-yl)methyl]-1H-indole · ligand · 2 copies · chains A, B
- CL · Chloride ion · ion · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5SDC · PanDDA analysis group deposition -- Crystal Structure of Porphyromonas gingivalis in… · the same entry in another collection · chain A against A, TM-score 1.00
- B2RID1 · AlphaFold monomer V2.0 prediction for ASP/GLU-specific dipeptidyl- peptidase (B2RID1) · a predicted model of the same protein · chain B against A, TM-score 0.91
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 B2RID1
- Elsewhere: RCSB PDB 5SDC · PDBe 5SDC · UniProt B2RID1
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