Research workbench
Catabolic ornithine carbamoyltransferases (otcs) from psychrobacter sp. pamc 21119
Analyse Catabolic ornithine carbamoyltransferases (otcs) from psychrobacter sp. pamc… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7XJT
- Type
- protein
- Length
- 1,312 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ornithine carbamoyltransferases
- Ligands
- SO4
- Pockets
- 17 · best druggability 0.74
Structure
x-ray diffraction · 4 distinct chains · 45% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ornithine carbamoyltransferases | protein | 329 | 48% helix, 13% strand | — |
| B | Ornithine carbamoyltransferases | protein | 330 | 48% helix, 13% strand | — |
| C | Ornithine carbamoyltransferases | protein | 328 | 40% helix, 14% strand | — |
| D | Ornithine carbamoyltransferases | protein | 325 | 44% helix, 13% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 413 | 0.74 | 0.84 | 53 | empty |
| 2 | 329 | 0.64 | 0.80 | 36 | empty |
| 3 | 284 | 0.62 | 0.80 | 33 | empty |
| 4 | 249 | 0.59 | 0.79 | 34 | empty |
| 5 | 388 | 0.55 | 0.74 | 32 | empty |
Interfaces
4 interfaces between chains.
- B–C · 1376 Ų buried · 13 hydrogen bonds · protein-protein
- B–D · 1342 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 1293 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 412 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 7XJT · Catabolic ornithine carbamoyltransferases (OTCs) from Psychrobacter sp. PAMC 21119 · 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
- Elsewhere: RCSB PDB 7XJT · PDBe 7XJT
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