Research workbench
Crystal structure of human 4E10 Fab crystalized in the presence of phosphatidylcholine (06:0 pc); C2 space group
Analyse Crystal structure of human 4E10 Fab crystalized in the presence of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4XCE
- Type
- protein
- Length
- 1,312 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 4E10 Fab light chain; 4E10 Fab heavy chain
- Pockets
- 15 · best druggability 0.81
Structure
x-ray diffraction · 5 distinct chains · 6% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | 4E10 Fab light chain | protein | 212 | 5% helix, 50% strand | — |
| H | 4E10 Fab heavy chain | protein | 223 | 7% helix, 52% strand | — |
| B, D | 4E10 Fab light chain | protein | 214 | 7% helix, 50% strand | — |
| A | 4E10 Fab heavy chain | protein | 225 | 7% helix, 51% strand | — |
| C | 4E10 Fab heavy chain | protein | 224 | 5% helix, 50% strand | — |
Pockets
15 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1049 | 0.81 | 0.82 | 107 | empty |
| 2 | 559 | 0.63 | 0.75 | 66 | empty |
| 3 | 473 | 0.59 | 0.74 | 52 | empty |
| 4 | 414 | 0.56 | 0.74 | 55 | empty |
| 5 | 127 | 0.55 | 0.83 | 36 | empty |
Interfaces
9 interfaces between chains.
- D–C · 1614 Ų buried · 11 hydrogen bonds · protein-protein
- B–A · 1584 Ų buried · 7 hydrogen bonds · protein-protein
- L–H · 1435 Ų buried · 6 hydrogen bonds · protein-protein
- H–C · 260 Ų buried · 3 hydrogen bonds · protein-protein
- H–A · 250 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 4XCE · Crystal structure of human 4E10 Fab crystalized in the presence of Phosphatidylcholine… · 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 4XCE · PDBe 4XCE
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