Complex 2g5k

Legend

Pocket colors by molecule type

RNA

Protein

DNA

These colors appear when a pocket is selected (the structure fades to show the pocket surface). Colors from the molecule-type palette (RNA / protein / DNA).

System information

Experimental technique	X-ray
Experimental resolution	2.80
System mass	16.16 kDa
Deposition year	2006
Molecule type	RNA
# RNA entities	1
Organism	N/A
RCSB PDB Entry	2g5k
Reference	Kondo Jiro, François Boris, Urzhumtsev Alexandre, Westhof Eric. 2006. Crystal Structure of the Homo sapiens Cytoplasmic Ribosomal Decoding Site Complexed with Apramycin Angewandte Chemie International Edition
Equivalence Class	NR_all_54657.3 BGSU version: 4.52

Pockets List

Legend

Cell colors for SiteScore and D Score:

Favourable

Intermediate

Unfavourable

Not available

Score	Threshold	Meaning
SiteScore	< 0.8	Non-drug binding site
SiteScore	0.8 – 1.0	Potential drug binding site
SiteScore	> 1.0	Promising binding site
D Score	< 0.83	Undruggable
D Score	0.83 – 0.98	Difficult
D Score	> 0.98	Druggable

Tick a pocket below to highlight it in the 3D structure above.

Pocket 1

Compound	AM2
Residue	. / 102
Chain	C / A
Non-redundant	True
Interacting RNA chains	A/A, B/B
RNA environment detailled	ion
RNA environment global	RNA
RNA family chains	A/A: rRNA, B/B: rRNA
RNA family global	rRNA
Volume	258.97 Å³
Hydrophobicity	0.084
Hydrophilicity	0.923
Buriedness	0.638
Don/acc character	2.137
SiteScore	0.943
D Score	0.779
Kd	0.5uM

Pocket 2

Compound	AM2
Residue	. / 101
Chain	F / B
Non-redundant	True
Interacting RNA chains	A/A, B/B
RNA environment detailled	ion
RNA environment global	RNA
RNA family chains	A/A: rRNA, B/B: rRNA
RNA family global	rRNA
Volume	270.28 Å³
Hydrophobicity	0.060
Hydrophilicity	0.871
Buriedness	0.626
Don/acc character	2.802
SiteScore	0.946
D Score	0.789
Kd	0.5uM