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Crystal structure of a complex between human serum albumin and the antibody Fab SL335
Analyse Crystal structure of a complex between human serum albumin and the antibody Fab… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6M58
- Type
- protein
- Length
- 1,956 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.95
- Source
- Homo sapiens; SYNTHETIC CONSTRUCT
- Molecule
- Serum albumin; Heavy chain of the SL335 antibody fab; Light chain of the SL335 antibody…
- UniProt
- P02768
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · resolution 2.95 · 5 distinct chains · 49% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Serum albumin | protein | 561 | 74% helix, 0% strand | P02768 |
| H | Heavy chain of the SL335 antibody fab | protein | 212 | 6% helix, 53% strand | — |
| L, D | Light chain of the SL335 antibody Fab | protein | 211 | 7% helix, 50% strand | — |
| B | Serum albumin | protein | 550 | 73% helix, 0% strand | P02768 |
| C | Heavy chain of the SL335 antibody fab | protein | 211 | 7% helix, 53% strand | — |
Pockets
20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 646 | 0.84 | 0.88 | 66 | empty |
| 2 | 1189 | 0.84 | 0.84 | 118 | empty |
| 3 | 1112 | 0.82 | 0.84 | 139 | empty |
| 4 | 92 | 0.77 | 0.98 | 24 | empty |
| 5 | 94 | 0.76 | 0.98 | 26 | empty |
Interfaces
10 interfaces between chains.
- C–D · 1629 Ų buried · 16 hydrogen bonds · protein-protein
- H–L · 1596 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 823 Ų buried · 9 hydrogen bonds · protein-protein
- A–H · 780 Ų buried · 9 hydrogen bonds · protein-protein
- L–B · 580 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 36 disulfide (disulfide).
Compared structures
- 6M58 · Crystal structure of a complex between human serum albumin and the antibody Fab SL335 · the same entry in another collection · chain L against L, TM-score 1.00
- P02768 · AlphaFold monomer V2.0 prediction for albumin (P02768) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P02768
- Elsewhere: RCSB PDB 6M58 · PDBe 6M58 · UniProt P02768
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