Research workbench
Crystal structure of a NTF2-like protein (CHU_1428) from cytophaga hutchinsonii atcc 33406 at 1.60 a resolution
Analyse Crystal structure of a NTF2-like protein (CHU_1428) from cytophaga hutchinsonii… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2R4I
- Type
- protein
- Length
- 481 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein
- UniProt
- Q11V67
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 4 distinct chains · 27% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein | protein | 123 | 27% helix, 54% strand | Q11V67 |
| B | Uncharacterized protein | protein | 121 | 27% helix, 56% strand | Q11V67 |
| C | Uncharacterized protein | protein | 120 | 28% helix, 56% strand | Q11V67 |
| D | Uncharacterized protein | protein | 117 | 25% helix, 58% strand | Q11V67 |
Ligands and binding sites
- IPA · Isopropyl alcohol · additive · 8 copies · chains A, B, C, D
- GOL · Glycerol · additive · 2 copies · chains B, A
- CIT · Citric acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 319 | 0.72 | 0.84 | 34 | IPA |
| 2 | 213 | 0.72 | 0.87 | 30 | IPA, GOL |
| 3 | 204 | 0.70 | 0.86 | 32 | IPA |
| 4 | 758 | 0.69 | 0.76 | 61 | empty |
| 5 | 196 | 0.69 | 0.86 | 30 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1228 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 1213 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 243 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 47 Ų buried · 1 hydrogen bond · protein-protein
- A–D · 35 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 2R4I · Crystal structure of a NTF2-like protein (CHU_1428) from cytophaga hutchinsonii atcc… · 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 Q11V67
- Elsewhere: RCSB PDB 2R4I · PDBe 2R4I · UniProt Q11V67
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