MolNFT v1 · #60825 · protein

Bacteriophage lambda lysozyme complexed with a chitohexasaccharide

3D3D: “Bacteriophage lambda lysozyme complexed with a chitohexasaccharide”. X-ray diffraction, 2 ligands (NAG, SO4), 3 pockets (best druggability 0.66). MolNFT v1 #60825 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3D3D
Type: protein
Length: 308 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Lysozyme
EC: 3.2.1.17
UniProt: P03706
Ligands: NAG, SO4
Pockets: 3 · best druggability 0.66

Structure

x-ray diffraction · 1 distinct chain · 39% helix, 8% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Lysozyme (EC 3.2.1.17)	protein	154	39% helix, 8% strand	P03706

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 12 copies · chains A, B
SO4 · Sulfate ion · ion · 4 copies · chains A, B

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

Pockets

3 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	439	0.66	0.78	35	NAG
2	237	0.52	0.76	34	NAG
3	50	0.28	0.75	13	empty

Interfaces

1 interface between chains.

A–B · 368 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

3D3D · Bacteriophage lambda lysozyme complexed with a chitohexasaccharide · 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 P03706
Elsewhere: RCSB PDB 3D3D · PDBe 3D3D · UniProt P03706

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