Research workbench
Crystal structure of the second tetrahedral intermediates of sgpb at pH 4.2
Analyse Crystal structure of the second tetrahedral intermediates of sgpb at pH 4.2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2QA9
- Type
- protein
- Length
- 189 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Streptogrisin-B; 4-mer peptide daiy
- EC
- 3.4.21.81
- UniProt
- P00777
- Ligands
- CL, SO4
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Streptogrisin-B (EC 3.4.21.81) | protein | 185 | 6% helix, 52% strand | P00777 |
| I | 4-mer peptide daiy | protein | 4 | 0% helix, 50% strand | — |
Ligands and binding sites
- CL · Chloride ion · ion · 2 copies · chains E
- SO4 · Sulfate ion · ion · 2 copies · chains E
- EDO · 1,2-ethanediol · additive · 4 copies · chains E, I
- GOL · Glycerol · additive · chains E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- E–I · 411 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 2QA9 · Crystal structure of the second tetrahedral intermediates of SGPB at pH 4.2 · the same entry in another collection · chain E against E, TM-score 1.00
- P00777 · AlphaFold monomer V2.0 prediction for streptogrisin-B (P00777) · a predicted model of the same protein · chain E against A, TM-score 0.99
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 P00777
- Elsewhere: RCSB PDB 2QA9 · PDBe 2QA9 · UniProt P00777
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