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Crystal structure of PDZ domain of synaptojanin-2 binding protein

Analyse Crystal structure of PDZ domain of synaptojanin-2 binding protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2JIK
Type: protein
Length: 199 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Synaptojanin-2 binding protein
UniProt: P57105
Pockets: 2 · best druggability 0.35

Structure

x-ray diffraction · 2 distinct chains · 17% helix, 38% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Synaptojanin-2 binding protein	protein	101	17% helix, 38% strand	P57105
B	Synaptojanin-2 binding protein	protein	98	17% helix, 39% strand	P57105

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	61	0.35	0.77	10	empty
2	65	0.33	0.76	9	empty

Interfaces

1 interface between chains.

A–B · 470 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

2JIK · Crystal structure of PDZ domain of Synaptojanin-2 binding protein · the same entry in another collection · chain A against A, TM-score 1.00
P57105 · AlphaFold monomer V2.0 prediction for synaptojanin-2-binding protein (P57105) · a predicted model of the same protein · chain B against A, TM-score 0.89

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 P57105
Elsewhere: RCSB PDB 2JIK · PDBe 2JIK · UniProt P57105

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