Research workbench
Neutrophil activating peptide-2 variant form M6L with five additional amino terminal residues (dsdly)
Analyse Neutrophil activating peptide-2 variant form M6L with five additional amino… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1TVX
- Type
- protein
- Length
- 270 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neutrophil activating peptide 2 variant
- UniProt
- P02775
- Pockets
- 4 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 22% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Neutrophil activating peptide 2 variant | protein | 64 | 23% helix, 31% strand | P02775 |
| B, D | Neutrophil activating peptide 2 variant | protein | 71 | 21% helix, 31% strand | P02775 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 348 | 0.83 | 0.92 | 57 | empty |
| 2 | 114 | 0.39 | 0.75 | 24 | empty |
| 3 | 77 | 0.38 | 0.78 | 20 | empty |
| 4 | 68 | 0.35 | 0.77 | 21 | empty |
Interfaces
6 interfaces between chains.
- B–D · 1043 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 854 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 828 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 796 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 112 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 1TVX · Neutrophil activating peptide-2 variant form M6L with five additional amino terminal… · the same entry in another collection · chain D against D, TM-score 1.00
- P02775 · AlphaFold monomer V2.0 prediction for platelet basic protein (P02775) · a predicted model of the same protein · chain C against A, TM-score 0.92
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 P02775
- Elsewhere: RCSB PDB 1TVX · PDBe 1TVX · UniProt P02775
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