Research workbench

Crystal structure of C-rel bound to DNA

Analyse Crystal structure of C-rel bound to DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1GJI
Type: protein + DNA
Length: 590 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Il-2 CD28RE DNA; C-rel proto-oncogene protein
UniProt: P16236
Pockets: 8 · best druggability 0.82

Structure

x-ray diffraction · 3 distinct chains · 9% helix, 40% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	Il-2 CD28RE DNA	dna	20	—	—
D	Il-2 CD28RE DNA	dna	20	—	—
A, B	C-rel proto-oncogene protein	protein	275	9% helix, 40% strand	P16236

Pockets

8 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	1153	0.82	0.84	99	empty
2	183	0.44	0.74	18	empty
3	112	0.40	0.76	15	empty
4	79	0.35	0.76	18	empty
5	115	0.35	0.73	15	empty

Interfaces

6 interfaces between chains.

C–D · 1041 Å² buried · 81 hydrogen bonds · nucleic-nucleic
A–B · 711 Å² buried · 11 hydrogen bonds · protein-protein
D–B · 658 Å² buried · 7 hydrogen bonds · protein-nucleic
C–A · 631 Å² buried · 8 hydrogen bonds · protein-nucleic
C–B · 274 Å² buried · 5 hydrogen bonds · protein-nucleic

Compared structures

1GJI · Crystal structure of c-Rel bound to DNA · the same entry in another collection · chain C against C, TM-score 1.00
P16236 · AlphaFold monomer V2.0 prediction for proto-oncogene C-rel (P16236) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P16236
Elsewhere: RCSB PDB 1GJI · PDBe 1GJI · UniProt P16236

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.