Research workbench
TARP NATIVE
Analyse TARP NATIVE in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6H1J
- Type
- protein
- Length
- 938 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable ss-1,3-N-acetylglucosaminyltransferase
- UniProt
- A0A0H3JNB0
- Ligands
- MG, CL
- Pockets
- 8 · best druggability 0.63
Structure
x-ray diffraction · 3 distinct chains · 46% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable ss-1,3-N-acetylglucosaminyltransferase | protein | 312 | 47% helix, 15% strand | A0A0H3JNB0 |
| B | Probable ss-1,3-N-acetylglucosaminyltransferase | protein | 313 | 45% helix, 15% strand | A0A0H3JNB0 |
| C | Probable ss-1,3-N-acetylglucosaminyltransferase | protein | 313 | 46% helix, 14% strand | A0A0H3JNB0 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains B, A, C
- CL · Chloride ion · ion · 10 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 159 | 0.63 | 0.85 | 23 | empty |
| 2 | 165 | 0.61 | 0.84 | 22 | empty |
| 3 | 187 | 0.59 | 0.82 | 23 | empty |
| 4 | 207 | 0.46 | 0.74 | 35 | CL |
| 5 | 146 | 0.43 | 0.75 | 29 | CL |
Interfaces
3 interfaces between chains.
- B–C · 469 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 457 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 456 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6H1J · TarP native · 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 A0A0H3JNB0
- Elsewhere: RCSB PDB 6H1J · PDBe 6H1J · UniProt A0A0H3JNB0
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