Research workbench
Crystal structure of human carbonic anhydrase isozyme xiii with 2- (cyclooctylamino)-3,5,6-trifluoro-4-[(2-hydroxyethyl) THIO]BENZENESULFONAMIDE
Analyse Crystal structure of human carbonic anhydrase isozyme xiii with 2… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5OGJ
- Type
- protein
- Length
- 522 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Carbonic anhydrase 13
- EC
- 4.2.1.1
- UniProt
- Q8N1Q1
- Ligands
- V90, ZN
- Pockets
- 5 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 16% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Carbonic anhydrase 13 (EC 4.2.1.1) | protein | 263 | 15% helix, 31% strand | Q8N1Q1 |
| A | Carbonic anhydrase 13 (EC 4.2.1.1) | protein | 259 | 16% helix, 31% strand | Q8N1Q1 |
Ligands and binding sites
- V90 · 2-(cyclooctylamino)-3,5,6-trifluoro-4-[(2-hydroxyethyl)sulfanyl]benzenesulfonamide · ligand · 2 copies · chains B, A
- ZN · Zinc ion · metal · 2 copies · chains B, A
- EDO · 1,2-ethanediol · additive · 5 copies · chains B, A
- CIT · Citric acid · additive · 4 copies · chains B, A
- ACT · Acetate ion · additive · 2 copies · chains B, A
- PEG · Di(hydroxyethyl)ether · additive · chains 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 | 324 | 0.70 | 0.83 | 52 | empty |
| 2 | 212 | 0.60 | 0.81 | 28 | ACT, V90 |
| 3 | 219 | 0.57 | 0.79 | 28 | ACT, V90 |
| 4 | 50 | 0.37 | 0.80 | 17 | empty |
| 5 | 86 | 0.35 | 0.75 | 24 | empty |
Interfaces
1 interface between chains.
- B–A · 748 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
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 Q8N1Q1
- Elsewhere: RCSB PDB 5OGJ · PDBe 5OGJ · UniProt Q8N1Q1
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