MolNFT v1 · #101838 · protein

Zymogen hgf-BETA/MET with zymogen activator peptide ZAP2.3

4O3U · Hepatocyte growth factor: “Zymogen hgf-BETA/MET with zymogen activator peptide ZAP2.3”. X-ray diffraction, 12 pockets (best druggability 0.73). MolNFT v1 #101838 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4O3U
Type: protein
Length: 733 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Hepatocyte growth factor; Hepatocyte growth factor receptor; Zap 2.3
EC: 2.7.10.1
UniProt: P14210, P08581
Pockets: 12 · best druggability 0.73

Structure

x-ray diffraction · 3 distinct chains · 9% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Hepatocyte growth factor	protein	219	11% helix, 37% strand	P14210
B	Hepatocyte growth factor receptor (EC 2.7.10.1)	protein	500	7% helix, 43% strand	P08581
P	Zap 2.3	protein	14	21% helix, 21% strand	—

Pockets

12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	136	0.73	0.92	34	empty
2	865	0.72	0.76	61	empty
3	676	0.71	0.78	47	empty
4	317	0.59	0.77	43	empty
5	181	0.55	0.80	34	empty

Interfaces

3 interfaces between chains.

A–B · 979 Å² buried · 20 hydrogen bonds · protein-protein
A–P · 749 Å² buried · 16 hydrogen bonds · protein-protein
B–P · 11 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 15 disulfide (disulfide).

Compared structures

4O3U · Zymogen HGF-beta/MET with Zymogen Activator Peptide ZAP2.3 · the same entry in another collection · chain B against B, TM-score 1.00
P14210 · AlphaFold monomer V2.0 prediction for hepatocyte growth factor (P14210) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P14210
Every structure of UniProt P08581
Elsewhere: RCSB PDB 4O3U · PDBe 4O3U · UniProt P14210 · UniProt P08581

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