Thermus caldophilus
| Assembly | Physical composition | Protein state | Molecular copy count | Associated components | Data consistency |
|---|---|---|---|---|---|
| 1 | Protein homooligomer | Homooligomer | Protein 2 | water × 2 | Consistent with protein count |
| UniProt name | Q3T920_THECA |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A； PDBConstruct 4–322； UniProt 1–319 |
The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.
| Entry ID entry_id | 2fb9 |
| Deposition date deposition_date | 2005-12-08 |
| Structure title title | Crystal structure of the Apo form of D-alanine: D-alanine ligase (Ddl) from Thermus caldophilus: a basis for the substrate-induced conformational changes |
| Keywords keywords | ligase; LIGASE |
| Experimental Method method | X-RAY DIFFRACTION |
This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.
Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)
| Rg（Guinier） | 27.09 Å |
| Rg (electron density) | 26.14 Å |
| Total Rg | 26.88 Å |
| Atom count | 4962 |
| Residues | 644 |
| Excluded volume | 89336 ų |
| Maximum q | 0.500 Å⁻¹ |
| Domain ID domain_id | d2fb9a1 |
| Class class | c — Alpha and beta proteins (a/b) |
| Fold Fold fold | c.30 — PreATP-grasp domain |
| Superfamily Superfamily superfamily | c.30.1 — PreATP-grasp domain |
| Family Family family | c.30.1.0 — automated matches |
| Domain ID domain_id | d2fb9a2 |
| Class class | d — Alpha and beta proteins (a+b) |
| Fold Fold fold | d.142 — ATP-grasp |
| Superfamily Superfamily superfamily | d.142.1 — Glutathione synthetase ATP-binding domain-like |
| Family Family family | d.142.1.0 — automated matches |
| Domain ID domain_id | d2fb9a3 |
| Class class | l — Artifacts |
| Fold Fold fold | l.1 — Tags |
| Superfamily Superfamily superfamily | l.1.1 — Tags |
| Family Family family | l.1.1.1 — Tags |
| Domain ID domain_id | 2fb9A01 |
| Class class | 3 — Alpha Beta |
| Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| Topology topology | 50 — Rossmann fold |
| Homologous superfamily homologous superfamily | 20 — |
| Domain ID domain_id | 2fb9A02 |
| Class class | 3 — Alpha Beta |
| Architecture architecture | 30 — 2-Layer Sandwich |
| Topology topology | 470 — D-amino Acid Aminotransferase; Chain A, domain 1 |
| Homologous superfamily homologous superfamily | 20 — ATP-grasp fold, B domain |
| Domain ID domain_id | 2fb9A03 |
| Class class | 3 — Alpha Beta |
| Architecture architecture | 30 — 2-Layer Sandwich |
| Topology topology | 1490 — Dna Ligase; domain 1 |
| Homologous superfamily homologous superfamily | 20 — ATP-grasp fold, A domain |