MolNFT v1 · #76540 · protein
Orthorhombic form of IGG1 Fab fragment (in complex with antigenic tubulin peptide) sharing same fv as IgA
3QNZ · Fab fragment of immunoglobulin G1 light chain: “Orthorhombic form of IGG1 Fab fragment (in complex with antigenic tubulin peptide) sharing same fv as IgA”. X-ray diffraction, 3 pockets (best druggability 0.65). MolNFT v1 #76540 on…
- PDB
- 3QNZ
- Type
- protein
- Length
- 430 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab fragment of immunoglobulin G1 light chain; Fab fragment of immunoglobulin G1 heavy…
- UniProt
- P07437
- Pockets
- 3 · best druggability 0.65
Structure
x-ray diffraction · 3 distinct chains · 8% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fab fragment of immunoglobulin G1 light chain | protein | 219 | 6% helix, 50% strand | — |
| B | Fab fragment of immunoglobulin G1 heavy chain | protein | 208 | 10% helix, 51% strand | — |
| C | Peptide from tubulin beta chain | protein | 3 | 0% helix, 0% strand | P07437 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 648 | 0.65 | 0.75 | 71 | empty |
| 2 | 155 | 0.43 | 0.74 | 23 | empty |
| 3 | 81 | 0.33 | 0.75 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1508 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 171 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 160 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 3QNZ · Orthorhombic form of IgG1 Fab fragment (in complex with antigenic tubulin peptide)… · the same entry in another collection · chain A against A, TM-score 1.00
- P07437 · AlphaFold monomer V2.0 prediction for tubulin beta chain (P07437) · a predicted model of the same protein · chain C 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 P07437
- Elsewhere: RCSB PDB 3QNZ · PDBe 3QNZ · UniProt P07437
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