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BT_4244 metallopeptidase in complex with tn antigen.

Analyse BT_4244 metallopeptidase in complex with tn antigen. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5KD8
Type: protein
Length: 537 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Metallopeptidase
UniProt: Q89ZX7
Ligands: SER, A2G, NI, NA, ZN
Pockets: 4 · best druggability 0.44

Structure

x-ray diffraction · 1 distinct chain · 34% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Metallopeptidase	protein	537	34% helix, 22% strand	Q89ZX7

Ligands and binding sites

SER · Serine · ligand · chains A
A2G · 2-acetamido-2-deoxy-alpha-D-galactopyranose · sugar · chains A
NI · Nickel (II) ion · metal · 2 copies · chains A
NA · Sodium ion · metal · 2 copies · chains A
ZN · Zinc ion · metal · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	143	0.44	0.76	20	NA
2	70	0.32	0.75	22	empty
3	53	0.30	0.75	12	empty
4	58	0.29	0.74	14	empty

Compared structures

5KD8 · BT_4244 metallopeptidase in complex with Tn antigen. · 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 Q89ZX7
Elsewhere: RCSB PDB 5KD8 · PDBe 5KD8 · UniProt Q89ZX7

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