Research workbench
Crystal structure of porb from neisseria meningitidis in complex with cesium ion, space group P63
Analyse Crystal structure of porb from neisseria meningitidis in complex with cesium… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3VY8
- Type
- protein
- Length
- 341 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Outer membrane protein
- Ligands
- CS
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 59% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Outer membrane protein | protein | 341 | 6% helix, 59% strand | — |
Ligands and binding sites
- CS · Cesium ion · metal · 3 copies · chains X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 851 | 0.69 | 0.76 | 83 | CS |
| 2 | 124 | 0.65 | 0.88 | 24 | empty |
| 3 | 205 | 0.46 | 0.74 | 33 | empty |
| 4 | 118 | 0.38 | 0.74 | 18 | empty |
Compared structures
- 3VY8 · Crystal Structure of PorB from Neisseria meningitidis in complex with Cesium ion, space… · the same entry in another collection · chain X against X, 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
- Elsewhere: RCSB PDB 3VY8 · PDBe 3VY8
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