MolNFT v1 · #128324 · protein

Human neurturin (97-197)

5NMZ: “Human neurturin (97-197)”. X-ray diffraction, 4 pockets (best druggability 0.62). MolNFT v1 #128324 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5NMZ
Type: protein
Length: 400 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Neurturin
UniProt: Q99748
Pockets: 4 · best druggability 0.62

Structure

x-ray diffraction · 2 distinct chains · 16% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	Neurturin	protein	101	15% helix, 40% strand	Q99748
B, D	Neurturin	protein	99	17% helix, 41% strand	Q99748

Ligands and binding sites

GOL · Glycerol · additive · chains B, C, D

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

Pockets

4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	411	0.62	0.77	49	GOL
2	332	0.56	0.75	46	empty
3	151	0.52	0.80	34	empty
4	53	0.33	0.78	17	empty

Interfaces

6 interfaces between chains.

C–D · 2128 Å² buried · 44 hydrogen bonds · protein-protein
A–B · 2088 Å² buried · 41 hydrogen bonds · protein-protein
A–C · 428 Å² buried · 8 hydrogen bonds · protein-protein
A–D · 360 Å² buried · 2 hydrogen bonds · protein-protein
B–D · 200 Å² buried · 3 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 14 disulfide (disulfide).

Compared structures

5NMZ · human Neurturin (97-197) · the same entry in another collection · chain A against A, TM-score 1.00
Q99748 · AlphaFold monomer V2.0 prediction for neurturin (Q99748) · a predicted model of the same protein · chain B against A, TM-score 0.83

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 Q99748
Elsewhere: RCSB PDB 5NMZ · PDBe 5NMZ · UniProt Q99748

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