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Crystal structure and subunit dynamics of the lysin dimer: egg envelopes dissociate dimers, the monomer is the active species

Analyse Crystal structure and subunit dynamics of the lysin dimer: egg envelopes… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1LYN
Type: protein
Length: 250 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sperm lysin
UniProt: P04552
Pockets: 3 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 74% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Sperm lysin	protein	125	74% helix, 0% strand	P04552

Pockets

3 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	88	0.78	0.98	18	empty
2	58	0.30	0.75	10	empty
3	52	0.29	0.75	17	empty

Interfaces

1 interface between chains.

A–B · 985 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

1LYN · Crystal structure and subunit dynamics of the lysin dimer: egg envelopes dissociate… · the same entry in another collection · chain A against A, TM-score 1.00
P04552 · AlphaFold monomer V2.0 prediction for egg-lysin (P04552) · a predicted model of the same protein · chain A against A, TM-score 0.96

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 P04552
Elsewhere: RCSB PDB 1LYN · PDBe 1LYN · UniProt P04552

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