MolNFT v1 · #146188 · protein
Crystal structure of the ttnd decarboxylase from the tautomycetin biosynthesis pathway of streptomyces griseochromogenes with apo form at 1.83 a resolution (I222)
6DA7 · Ubid-like decarboxylase: “Crystal structure of the ttnd decarboxylase from the tautomycetin biosynthesis pathway of streptomyces…”. X-ray diffraction, 2 ligands (UNL, NA), 4 pockets (best druggability 0.74). MolNFT v1 #146188 on…
- PDB
- 6DA7
- Type
- protein
- Length
- 463 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubid-like decarboxylase
- EC
- 4.1.1.-
- UniProt
- C6ZCR8
- Ligands
- UNL, NA
- Pockets
- 4 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubid-like decarboxylase (EC 4.1.1.-) | protein | 463 | 33% helix, 23% strand | C6ZCR8 |
Ligands and binding sites
- UNL · Unknown ligand · ligand · chains A
- NA · Sodium ion · metal · chains A
- GOL · Glycerol · additive · 18 copies · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A
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 | 499 | 0.74 | 0.82 | 47 | NA, EPE, GOL |
| 2 | 84 | 0.36 | 0.76 | 20 | GOL |
| 3 | 57 | 0.35 | 0.79 | 12 | GOL |
| 4 | 64 | 0.34 | 0.76 | 18 | GOL |
Compared structures
- 6DA7 · Crystal structure of the TtnD decarboxylase from the tautomycetin biosynthesis pathway of… · 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 C6ZCR8
- Elsewhere: RCSB PDB 6DA7 · PDBe 6DA7 · UniProt C6ZCR8
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