Research workbench

Structure of full-length tigar from danio rerio

Analyse Structure of full-length tigar from danio rerio in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3E9D
Type: protein
Length: 490 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: ZGC:56074
UniProt: Q7ZVE3
Ligands: K, PO4
Pockets: 5 · best druggability 0.64

Structure

x-ray diffraction · 2 distinct chains · 36% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	ZGC:56074	protein	250	36% helix, 22% strand	Q7ZVE3
B	ZGC:56074	protein	240	37% helix, 23% strand	Q7ZVE3

Ligands and binding sites

K · Potassium ion · metal · 2 copies · chains A, B
PO4 · Phosphate ion · ion · 4 copies · chains A, B

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

Pockets

5 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	388	0.64	0.78	44	PO4
2	347	0.61	0.78	39	PO4
3	291	0.54	0.76	44	empty
4	84	0.32	0.73	16	empty
5	74	0.32	0.74	19	empty

Interfaces

1 interface between chains.

A–B · 873 Å² buried · 22 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

3E9D · Structure of full-length TIGAR from Danio rerio · the same entry in another collection · chain A against A, TM-score 1.00
Q7ZVE3 · AlphaFold monomer V2.0 prediction for fructose-2,6-bisphosphatase tigar B (Q7ZVE3) · a predicted model of the same protein · 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 Q7ZVE3
Elsewhere: RCSB PDB 3E9D · PDBe 3E9D · UniProt Q7ZVE3

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