Research workbench
Archaellum periplasmic stator protein complex flaf and flag from sulfolobus acidocaldarius
Analyse Archaellum periplasmic stator protein complex flaf and flag from sulfolobus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6PBK
- Type
- protein
- Length
- 490 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Saci flag soluble domain; Conserved flagellar protein F
- UniProt
- Q4J9K7, Q4J9K8
- Ligands
- NA
- Pockets
- 4 · best druggability 0.45
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Saci flag soluble domain | protein | 115 | 3% helix, 46% strand | Q4J9K7 |
| B, D | Conserved flagellar protein F | protein | 130 | 14% helix, 51% strand | Q4J9K8 |
Ligands and binding sites
- NA · Sodium ion · metal · 3 copies · chains A, B, C
- PEG · Di(hydroxyethyl)ether · additive · 6 copies · chains A, B, D, C
- IMD · Imidazole · additive · 3 copies · chains D
- EDO · 1,2-ethanediol · additive · 2 copies · chains B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 149 | 0.45 | 0.76 | 24 | empty |
| 2 | 56 | 0.40 | 0.81 | 14 | PEG |
| 3 | 62 | 0.29 | 0.74 | 10 | empty |
| 4 | 52 | 0.29 | 0.75 | 15 | PEG, NA |
Interfaces
3 interfaces between chains.
- A–B · 881 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 296 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 229 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6PBK · Archaellum periplasmic stator protein complex FlaF and FlaG from Sulfolobus acidocaldarius · 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 Q4J9K7
- Every structure of UniProt Q4J9K8
- Elsewhere: RCSB PDB 6PBK · PDBe 6PBK · UniProt Q4J9K7 · UniProt Q4J9K8
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