Complex 4gpy

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	15.64 kDa
Deposition year	2012
Molecule type	RNA
# RNA entities	1
Organism	N/A
RCSB PDB Entry	4gpy
Reference	Kondo Jiro, Koganei Mai, Maianti Juan Pablo, Ly Vu Linh, Hanessian Stephen. 2013. Crystal Structures of a Bioactive 6′‐Hydroxy Variant of Sisomicin Bound to the Bacterial and Protozoal Ribosomal Decoding Sites ChemMedChem
Equivalence Class	NR_all_71199.7 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	6HS
Residue	. / 101
Chain	C / A
Non-redundant	False
Interacting RNA chains	A/A, B/B
RNA environment detailled	RNA-only
RNA environment global	RNA
RNA family chains	A/A: rRNA, B/B: rRNA
RNA family global	rRNA
Volume	107.70 Å³
Hydrophobicity	0.127
Hydrophilicity	0.861
Buriedness	0.572
Don/acc character	3.821
SiteScore	0.813
D Score	0.634
Kd	—

Pocket 2

Compound	6HS
Residue	. / 102
Chain	D / A
Non-redundant	False
Interacting RNA chains	A/A, B/B
RNA environment detailled	RNA-only
RNA environment global	RNA
RNA family chains	A/A: rRNA, B/B: rRNA
RNA family global	rRNA
Volume	48.71 Å³
Hydrophobicity	0.256
Hydrophilicity	0.698
Buriedness	0.542
Don/acc character	2.062
SiteScore	0.745
D Score	0.568
Kd	—