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X-ray structure of the bacteriophage phikz lytic transglycosylase, GP144, in complex with chitotetraose, (NAG)4

Analyse X-ray structure of the bacteriophage phikz lytic transglycosylase, GP144, in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3BKV
Type: protein
Length: 268 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Lytic transglycosylase
UniProt: Q8SD18
Ligands: NAG, NI, SO4
Pockets: 2 · best druggability 0.38

Structure

x-ray diffraction · 1 distinct chain · 59% helix, 4% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Lytic transglycosylase	protein	268	59% helix, 4% strand	Q8SD18

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A
NI · Nickel (II) ion · metal · chains A
SO4 · Sulfate ion · ion · chains A

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

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	109	0.38	0.74	21	NAG
2	69	0.37	0.78	18	empty

Modifications

Observed in the structure: 8 modified (engineered).

Compared structures

3BKV · X-ray structure of the bacteriophage phiKZ lytic transglycosylase, gp144, in complex with… · 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 Q8SD18
Elsewhere: RCSB PDB 3BKV · PDBe 3BKV · UniProt Q8SD18

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