MolNFT v1 · #38060 · protein + DNA

Five-finger GLI/DNA complex

2GLI · DNA (5'- D(*TP*TP*TP*CP*GP*TP*CP*TP*TP*GP*GP*GP*TP*GP*GP*TP*…: “Five-finger GLI/DNA complex”. X-ray diffraction, 1 ligand (CO), 2 pockets (best druggability 0.80). MolNFT v1 #38060 on GenesisL1: 3D structure, binding sites and…

PDB: 2GLI
Type: protein + DNA
Length: 197 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'- D(*TP*TP*TP*CP*GP*TP*CP*TP*TP*GP*GP*GP*TP*GP*GP*TP*CP*CP*AP *CP*G)-3'); DNA (5'…
UniProt: P08151
Ligands: CO
Pockets: 2 · best druggability 0.80

Structure

x-ray diffraction · 3 distinct chains · 31% helix, 8% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	DNA (5'- D(TPTPTPCPGPTPCPTPTPGPGPGPTPGPGPTPCPCPAP CP*G)-3')	dna	21	—	—
D	DNA (5'- D(APCPGPTPGPGPAPCPCPAPCPCPCPAPAPGPAPCPGP AP*A)-3')	dna	21	—	—
A	Protein (five-finger gli)	protein	155	31% helix, 8% strand	P08151

Ligands and binding sites

CO · Cobalt (II) ion · metal · 5 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	378	0.80	0.89	47	empty
2	138	0.44	0.76	20	empty

Interfaces

3 interfaces between chains.

D–A · 1080 Å² buried · 19 hydrogen bonds · protein-nucleic
C–D · 974 Å² buried · 124 hydrogen bonds · nucleic-nucleic
C–A · 672 Å² buried · 14 hydrogen bonds · protein-nucleic

Compared structures

2GLI · Five-finger GLI/DNA complex · the same entry in another collection · chain C against C, TM-score 1.00
P08151 · AlphaFold monomer V2.0 prediction for zinc finger protein GLI1 (P08151) · a predicted model of the same protein · chain A against A, TM-score 0.92

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 P08151
Elsewhere: RCSB PDB 2GLI · PDBe 2GLI · UniProt P08151

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