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Fv mutant Y(B 101)F (vh domain) of mouse monoclonal antibody D1.3 complexed with hen egg white lysozyme

Analyse Fv mutant Y(B 101)F (vh domain) of mouse monoclonal antibody D1.3 complexed… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1KIQ
Type: protein
Length: 352 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Monoclonal antibody D1.3; Lysozyme
EC: 3.2.1.17
UniProt: P00698
Pockets: 2 · best druggability 0.68

Structure

x-ray diffraction · 3 distinct chains · 16% helix, 36% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Monoclonal antibody D1.3	protein	107	3% helix, 50% strand	—
B	Monoclonal antibody D1.3	protein	116	5% helix, 52% strand	—
C	Lysozyme (EC 3.2.1.17)	protein	129	36% helix, 11% strand	P00698

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	98	0.68	0.92	24	empty
2	91	0.34	0.74	18	empty

Interfaces

3 interfaces between chains.

A–B · 828 Å² buried · 11 hydrogen bonds · protein-protein
B–C · 418 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 361 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide (disulfide).

Compared structures

1KIQ · Fv mutant Y(B 101)F (vh domain) of mouse monoclonal antibody D1.3 complexed with hen egg… · the same entry in another collection · chain A 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 P00698
Elsewhere: RCSB PDB 1KIQ · PDBe 1KIQ · UniProt P00698

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