Research workbench

Ptprg CNTN4 complex

Analyse Ptprg CNTN4 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3KLD
Type: protein
Length: 638 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Contactin 4; Receptor-type tyrosine-protein phosphatase gamma
EC: 3.1.3.48
UniProt: Q14BL8, Q05909
Ligands: NAG
Pockets: 4 · best druggability 0.52

Structure

x-ray diffraction · 2 distinct chains · 9% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Contactin 4	protein	376	3% helix, 58% strand	Q14BL8
B	Receptor-type tyrosine-protein phosphatase gamma (EC 3.1.3.48)	protein	262	16% helix, 32% strand	Q05909

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 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	219	0.52	0.76	27	empty
2	136	0.49	0.79	30	empty
3	78	0.36	0.77	13	empty
4	61	0.27	0.73	14	empty

Interfaces

1 interface between chains.

A–B · 927 Å² buried · 18 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide, 4 glycan (disulfide, N-glycosylation).

Compared structures

3KLD · PTPRG CNTN4 complex · the same entry in another collection · chain A against A, TM-score 1.00
Q05909 · AlphaFold monomer V2.0 prediction for receptor-type tyrosine-protein phosphatase gamma… · a predicted model of the same protein · chain B against A, TM-score 0.99

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 Q14BL8
Every structure of UniProt Q05909
Elsewhere: RCSB PDB 3KLD · PDBe 3KLD · UniProt Q14BL8 · UniProt Q05909

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