Research workbench
Immunoglobulin OPG2 Fab-peptide complex
Analyse Immunoglobulin OPG2 Fab-peptide complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1BM3
- Type
- protein
- Length
- 430 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Immunoglobulin OPG2 Fab, constant domain; Immunoglobulin OPG2 Fab, variable domain
- Pockets
- 6 · best druggability 0.53
Structure
x-ray diffraction · 2 distinct chains · 5% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Immunoglobulin OPG2 Fab, constant domain | protein | 214 | 7% helix, 50% strand | — |
| H | Immunoglobulin OPG2 Fab, variable domain | protein | 216 | 4% helix, 48% strand | — |
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 303 | 0.53 | 0.75 | 37 | empty |
| 2 | 155 | 0.46 | 0.76 | 21 | empty |
| 3 | 67 | 0.43 | 0.81 | 15 | empty |
| 4 | 154 | 0.42 | 0.74 | 26 | empty |
| 5 | 70 | 0.33 | 0.76 | 18 | empty |
Interfaces
1 interface between chains.
- L–H · 1786 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 1BM3 · Immunoglobulin OPG2 Fab-peptide complex · the same entry in another collection · chain L against L, 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
- Elsewhere: RCSB PDB 1BM3 · PDBe 1BM3
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