MolNFT v1 · #112063 · protein
Crystal structure of human GGT1
4Z9O · Gamma-glutamyltranspeptidase 1: “Crystal structure of human GGT1”. X-ray diffraction, 3 ligands (NAG, NA, CL), 4 pockets (best druggability 0.74). MolNFT v1 #112063 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4Z9O
- Type
- protein
- Length
- 531 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gamma-glutamyltranspeptidase 1
- EC
- 2.3.2.2, 3.4.19.13, 3.4.19.14
- UniProt
- P19440
- Ligands
- NAG, NA, CL
- Pockets
- 4 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gamma-glutamyltranspeptidase 1 (EC 2.3.2.2, 3.4.19.13, 3.4.19.14) | protein | 342 | 51% helix, 13% strand | P19440 |
| B | Gamma-glutamyltranspeptidase 1 (EC 2.3.2.2, 3.4.19.13, 3.4.19.14) | protein | 189 | 21% helix, 29% strand | P19440 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A, B
- NA · Sodium ion · metal · chains A, B
- CL · Chloride ion · ion · 2 copies · chains A, B
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 577 | 0.74 | 0.81 | 61 | MES |
| 2 | 72 | 0.36 | 0.77 | 21 | empty |
| 3 | 78 | 0.36 | 0.76 | 18 | empty |
| 4 | 71 | 0.35 | 0.76 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 6195 Ų buried · 98 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 glycan, 2 disulfide (N-glycosylation, disulfide).
Compared structures
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 P19440
- Elsewhere: RCSB PDB 4Z9O · PDBe 4Z9O · UniProt P19440
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