Complex 4r0d

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	3.68
System mass	221.50 kDa
Deposition year	2014
Molecule type	RNA
# RNA entities	1
Organism	Pylaiella
RCSB PDB Entry	4r0d
Reference	Robart Aaron R., Chan Russell T., Peters Jessica K., Rajashankar Kanagalaghatta R., Toor Navtej. 2014. Crystal structure of a eukaryotic group II intron lariat Nature
Equivalence Class	NR_all_18903.3 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	SPM
Residue	. / 701
Chain	C / A
Non-redundant	True
Interacting RNA chains	A/A
RNA environment detailled	RNA-only
RNA environment global	RNA
RNA family chains	A/A: ribozyme
RNA family global	ribozyme
Volume	55.91 Å³
Hydrophobicity	0.011
Hydrophilicity	0.702
Buriedness	0.489
Don/acc character	3.128
SiteScore	1.076
D Score	1.005
Kd	—

Pocket 2

Compound	SPM
Residue	. / 702
Chain	D / A
Non-redundant	True
Interacting RNA chains	A/A
RNA environment detailled	RNA-only
RNA environment global	RNA
RNA family chains	A/A: ribozyme
RNA family global	ribozyme
Volume	314.19 Å³
Hydrophobicity	0.140
Hydrophilicity	1.059
Buriedness	0.641
Don/acc character	2.131
SiteScore	0.965
D Score	0.791
Kd	—