MolNFT v1 · #140454 · protein

X-ray structure of native ets-domain domain of ERGP55

5YBC · Transcriptional regulator erg: “X-ray structure of native ets-domain domain of ERGP55”. X-ray diffraction, 1 pocket (best druggability 0.63). MolNFT v1 #140454 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5YBC
Type: protein
Length: 183 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Transcriptional regulator erg
UniProt: P11308
Pockets: 1 · best druggability 0.63

Structure

x-ray diffraction · 2 distinct chains · 51% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	Transcriptional regulator erg	protein	91	52% helix, 14% strand	P11308
A	Transcriptional regulator erg	protein	92	50% helix, 16% strand	P11308

Ligands and binding sites

GOL · Glycerol · additive · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	174	0.63	0.84	26	empty

Interfaces

1 interface between chains.

C–A · 445 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

5YBC · X-ray structure of native ETS-domain domain of Ergp55 · the same entry in another collection · chain C against C, TM-score 1.00
P11308 · AlphaFold monomer V2.0 prediction for transcriptional regulator erg (P11308) · a predicted model of the same protein · chain C against A, TM-score 0.94

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 P11308
Elsewhere: RCSB PDB 5YBC · PDBe 5YBC · UniProt P11308

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