MolNFT v1 · #149959 · protein
Structure of RIP2 card domain fused to crystallisable mbp tag
6GFJ · Sugar ABC transporter substrate-binding PROTEIN,RECEPTOR…: “Structure of RIP2 card domain fused to crystallisable mbp tag”. X-ray diffraction, 1 ligand (GLC), 20 pockets (best druggability 0.75). MolNFT v1 #149959 on GenesisL1: 3D…
- PDB
- 6GFJ
- Type
- protein
- Length
- 1,822 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sugar ABC transporter substrate-binding PROTEIN,RECEPTOR- interacting…
- EC
- 2.7.11.1, 2.7.10.2
- UniProt
- A0A0F8NYV9, O43353
- Ligands
- GLC
- Pockets
- 20 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 52% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Sugar ABC transporter substrate-binding PROTEIN,RECEPTOR- interacting SERINE/THREONINE-protein kinase 2 (EC 2.7.11.1, 2.7.10.2) | protein | 457 | 52% helix, 14% strand | A0A0F8NYV9, O43353 |
| C | Sugar ABC transporter substrate-binding PROTEIN,RECEPTOR- interacting SERINE/THREONINE-protein kinase 2 (EC 2.7.11.1, 2.7.10.2) | protein | 456 | 52% helix, 14% strand | A0A0F8NYV9, O43353 |
| D | Sugar ABC transporter substrate-binding PROTEIN,RECEPTOR- interacting SERINE/THREONINE-protein kinase 2 (EC 2.7.11.1, 2.7.10.2) | protein | 452 | 52% helix, 14% strand | A0A0F8NYV9, O43353 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 8 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 607 | 0.75 | 0.81 | 48 | GLC |
| 2 | 437 | 0.71 | 0.81 | 37 | GLC |
| 3 | 588 | 0.71 | 0.79 | 61 | GLC |
| 4 | 340 | 0.71 | 0.83 | 31 | GLC |
| 5 | 505 | 0.61 | 0.74 | 45 | empty |
Interfaces
5 interfaces between chains.
- A–D · 296 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 284 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 220 Ų buried · 0 hydrogen bonds · protein-protein
- C–D · 214 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 139 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6GFJ · Structure of RIP2 CARD domain fused to crystallisable MBP tag · 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 A0A0F8NYV9
- Every structure of UniProt O43353
- Elsewhere: RCSB PDB 6GFJ · PDBe 6GFJ · UniProt A0A0F8NYV9 · UniProt O43353
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