Research workbench
Crystal structure of the dtdp-QUI3N N-formyltransferase from helicobacter canadensis, apo form
Analyse Crystal structure of the dtdp-QUI3N N-formyltransferase from helicobacter… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7N7A
- Type
- protein
- Length
- 539 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- FORMYL_TRANS_N domain-containing protein
- UniProt
- C5ZW02
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 27% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | FORMYL_TRANS_N domain-containing protein | protein | 269 | 27% helix, 28% strand | C5ZW02 |
| B | FORMYL_TRANS_N domain-containing protein | protein | 270 | 27% helix, 27% strand | C5ZW02 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 7 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 488 | 0.74 | 0.83 | 43 | EDO |
| 2 | 719 | 0.73 | 0.79 | 62 | empty |
| 3 | 481 | 0.70 | 0.80 | 47 | EDO |
| 4 | 65 | 0.43 | 0.82 | 15 | empty |
| 5 | 67 | 0.34 | 0.76 | 15 | EDO |
Interfaces
1 interface between chains.
- A–B · 1209 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 7N7A · crystal structure of the dTDP-Qui3N N-formyltransferase from Helicobacter canadensis, apo… · 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 C5ZW02
- Elsewhere: RCSB PDB 7N7A · PDBe 7N7A · UniProt C5ZW02
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