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Crystal structure of the complex between il-13 and M1295 Fab

Analyse Crystal structure of the complex between il-13 and M1295 Fab in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4PS4
Type: protein
Length: 513 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: M1295 light chain; M1295 heavy chain; Interleukin-13
UniProt: P35225
Pockets: 5 · best druggability 0.61

Structure

x-ray diffraction · 3 distinct chains · 13% helix, 43% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
L	M1295 light chain	protein	213	6% helix, 51% strand	—
H	M1295 heavy chain	protein	224	5% helix, 50% strand	—
A	Interleukin-13	protein	76	59% helix, 0% strand	P35225

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	524	0.61	0.75	60	empty
2	54	0.53	0.89	22	empty
3	218	0.50	0.75	38	empty
4	93	0.40	0.77	23	empty
5	86	0.32	0.74	18	empty

Interfaces

3 interfaces between chains.

L–H · 1850 Å² buried · 13 hydrogen bonds · protein-protein
H–A · 478 Å² buried · 9 hydrogen bonds · protein-protein
L–A · 206 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide, 1 modified (disulfide, cyclization).

Compared structures

4PS4 · Crystal structure of the complex between IL-13 and M1295 FAB · the same entry in another collection · chain L against L, TM-score 1.00
P35225 · AlphaFold monomer V2.0 prediction for interleukin-13 (P35225) · a predicted model of the same protein · chain A against A, TM-score 0.94

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 P35225
Elsewhere: RCSB PDB 4PS4 · PDBe 4PS4 · UniProt P35225

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