3QY0
Crystal structure of dethiobiotin synthetase (BioD) from Helicobacter pylori complexed with GDP
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Dethiobiotin synthetase | polymer | 242 | 27148.1 | 1 | UniProt (O24872) Pfam (PF13500) | Helicobacter pylori (Campylobacter pylori) | DTB synthetase, DTBS, Dethiobiotin synthase |
| 2 | B (A) | GUANOSINE-5'-DIPHOSPHATE | non-polymer | 443.2 | 1 | Chemie (GDP) PubChem (136073927) PubChem (135398619) PubChem (135402030) PubChem (135431654) PubChem (135566337) PubChem (135760556) PubChem (136026707) PubChem (136053418) PubChem (136663964) PubChem (136664748) PubChem (136759848) PubChem (136759849) PubChem (136759850) PubChem (136836636) PubChem (136847074) PubChem (172898537) | |||
| 3 | C (A) | PHOSPHATE ION | non-polymer | 95.0 | 1 | Chemie (PO4) PubChem (1061) | |||
| 4 | D, E (A) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) PubChem (888) | |||
| 5 | F, G, H, I, J... (A) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 16 | Chemie (EDO) | |||
| 6 | V (A) | water | water | 18.0 | 209 | Chemie (HOH) |
Sequence modifications
A: 1 - 218 (UniProt: O24872)
| PDB | External Database | Details |
|---|---|---|
| Met -21 | - | expression tag |
| Gly -20 | - | expression tag |
| Ser -19 | - | expression tag |
| Ser -18 | - | expression tag |
| His -17 | - | expression tag |
| His -16 | - | expression tag |
| His -15 | - | expression tag |
| His -14 | - | expression tag |
| His -13 | - | expression tag |
| His -12 | - | expression tag |
| Ser -11 | - | expression tag |
| Ser -10 | - | expression tag |
| Gly -9 | - | expression tag |
| Arg -8 | - | expression tag |
| Glu -7 | - | expression tag |
| Asn -6 | - | expression tag |
| Leu -5 | - | expression tag |
| Tyr -4 | - | expression tag |
| Phe -3 | - | expression tag |
| Gln -2 | - | expression tag |
| Gly -1 | - | expression tag |
| His 0 | - | expression tag |
| Gly 219 | - | expression tag |
| Ser 220 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 1 |
| Total formula weight | 27148.1 | |
| Non-Polymers* | Number of molecules | 20 |
| Total formula weight | 1579.9 | |
| All* | Total formula weight | 28728.0 |
