MolNFT v1 · #9954 · protein
Crystal structure of hyhel-10 fv MUTANT(HD32A99A)-hen lysozyme complex
1IC7 · Lysozyme binding ig kappa chain: “Crystal structure of hyhel-10 fv MUTANT(HD32A99A)-hen lysozyme complex”. X-ray diffraction, 3 pockets (best druggability 0.72). MolNFT v1 #9954 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 1IC7
- Type
- protein
- Length
- 350 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysozyme binding ig kappa chain; IGG1 Fab chain H; Lysozyme C
- EC
- 3.2.1.17
- UniProt
- P01642, P01823, P00698
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 18% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Lysozyme binding ig kappa chain | protein | 107 | 3% helix, 50% strand | P01642 |
| H | IGG1 Fab chain H | protein | 114 | 8% helix, 51% strand | P01823 |
| Y | Lysozyme C (EC 3.2.1.17) | protein | 129 | 40% helix, 11% strand | P00698 |
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 | 250 | 0.72 | 0.86 | 40 | empty |
| 2 | 70 | 0.33 | 0.75 | 14 | empty |
| 3 | 51 | 0.25 | 0.73 | 16 | empty |
Interfaces
3 interfaces between chains.
- L–H · 753 Ų buried · 5 hydrogen bonds · protein-protein
- H–Y · 560 Ų buried · 11 hydrogen bonds · protein-protein
- L–Y · 391 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1IC7 · Crystal structure of hyhel-10 fv MUTANT(HD32A99A)-hen lysozyme complex · the same entry in another collection · chain L against L, TM-score 1.00
- P01823 · AlphaFold monomer V2.0 prediction for ig heavy chain V region 36-60 (P01823) · a predicted model of the same protein · chain H against A, TM-score 0.96
- P01642 · AlphaFold monomer V2.0 prediction for ig kappa chain V-V region L7 (P01642) · a predicted model of the same protein · chain L against A, TM-score 0.87
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 P01642
- Every structure of UniProt P01823
- Every structure of UniProt P00698
- Elsewhere: RCSB PDB 1IC7 · PDBe 1IC7 · UniProt P01642 · UniProt P01823 · UniProt P00698
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