MolNFT v1 · #160721 · protein
Crystal structure of the complex between periplasmic domains of antiholin ri and holin T from T4 phage, in P6522
6PSK: “Crystal structure of the complex between periplasmic domains of antiholin ri and holin T from T4 phage, in…”. X-ray diffraction, 2 ligands (SO4, CL), 3 pockets (best druggability 0.44). MolNFT v1 #160721 on GenesisL1: 3D structure…
- PDB
- 6PSK
- Type
- protein
- Length
- 216 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antiholin; Holin
- UniProt
- I7AU04, A0A2U8QQK7
- Ligands
- SO4, CL
- Pockets
- 3 · best druggability 0.44
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | Antiholin | protein | 72 | 71% helix, 0% strand | I7AU04 |
| T | Holin | protein | 144 | 26% helix, 27% strand | A0A2U8QQK7 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 3 copies · chains R, T
- CL · Chloride ion · ion · chains T
- EDO · 1,2-ethanediol · additive · 4 copies · chains R, T
- BTB · 2-[bis-(2-hydroxy-ethyl)-amino]-2-hydroxymethyl-propane-1,3-diol · additive · chains T
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 111 | 0.44 | 0.78 | 24 | EDO |
| 2 | 94 | 0.40 | 0.77 | 19 | SO4 |
| 3 | 86 | 0.34 | 0.75 | 20 | empty |
Interfaces
1 interface between chains.
- R–T · 689 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 modified, 2 disulfide (engineered, disulfide).
Compared structures
- 6PSK · Crystal structure of the complex between periplasmic domains of antiholin RI and holin T… · the same entry in another collection · chain R against R, 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 I7AU04
- Every structure of UniProt A0A2U8QQK7
- Elsewhere: RCSB PDB 6PSK · PDBe 6PSK · UniProt I7AU04 · UniProt A0A2U8QQK7
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