MolNFT v1 · #111789 · protein

Crystal structure of human pd-L1

4Z18 · Programmed cell death 1 ligand 1: “Crystal structure of human pd-L1”. X-ray diffraction, 1 ligand (CL), 4 pockets (best druggability 0.71). MolNFT v1 #111789 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4Z18
Type: protein
Length: 422 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Programmed cell death 1 ligand 1
UniProt: Q9NZQ7
Ligands: CL
Pockets: 4 · best druggability 0.71

Structure

x-ray diffraction · 2 distinct chains · 6% helix, 55% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Programmed cell death 1 ligand 1	protein	212	7% helix, 55% strand	Q9NZQ7
B	Programmed cell death 1 ligand 1	protein	210	5% helix, 55% strand	Q9NZQ7

Ligands and binding sites

CL · Chloride ion · ion · 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, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	473	0.71	0.81	48	empty
2	347	0.58	0.76	31	empty
3	158	0.46	0.76	30	empty
4	86	0.33	0.74	16	empty

Interfaces

1 interface between chains.

A–B · 1021 Å² buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

4Z18 · Crystal structure of human pd-L1 · 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 Q9NZQ7
Elsewhere: RCSB PDB 4Z18 · PDBe 4Z18 · UniProt Q9NZQ7

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