HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Complex 4e8k

System information

Experimental technique	X-ray
Experimental resolution	3.03
System mass	133.91 kDa
Deposition year	2012
Molecule type	RNA
# RNA entities	2
Organism	Oceanobacillus
RCSB PDB Entry	4e8k
Reference	Marcia Marco, Pyle Anna Marie. . Visualizing Group II Intron Catalysis through the Stages of Splicing Cell

Pocket 1

Compound	EPE
Residue	. / 441
Chain	QA / A
Non-redundant	False
Interacting RNA chains	A/A
Volume	72.37 Å³
Hydrophobicity	0.039
Hydrophilicity	1.087
Buriedness	0.573
Don/acc character	2.649
SiteScore	0.437
D Score	0.315

Pocket 2

Compound	EPE
Residue	. / 443
Chain	SA / A
Non-redundant	False
Interacting RNA chains	A/A
Volume	57.97 Å³
Hydrophobicity	0.014
Hydrophilicity	1.130
Buriedness	0.590
Don/acc character	4.244
SiteScore	0.514
D Score	0.395

Pocket 3

Compound	EPE
Residue	. / 446
Chain	VA / A
Non-redundant	True
Interacting RNA chains	A/A
Volume	186.25 Å³
Hydrophobicity	0.042
Hydrophilicity	1.172
Buriedness	0.635
Don/acc character	1.217
SiteScore	0.700
D Score	0.608

Pocket 4

Compound	EPE
Residue	. / 447
Chain	WA / A
Non-redundant	True
Interacting RNA chains	A/A
Volume	-
Hydrophobicity	-
Hydrophilicity	-
Buriedness	-
Don/acc character	-
SiteScore	-
D Score	-

Pocket 5

Compound	EPE
Residue	. / 448
Chain	XA / A
Non-redundant	False
Interacting RNA chains	A/A
Volume	-
Hydrophobicity	-
Hydrophilicity	-
Buriedness	-
Don/acc character	-
SiteScore	-
D Score	-

Pocket 6

Compound	SPM
Residue	. / 445
Chain	UA / A
Non-redundant	False
Interacting RNA chains	A/A
Volume	243.53 Å³
Hydrophobicity	0.028
Hydrophilicity	1.393
Buriedness	0.704
Don/acc character	1.141
SiteScore	0.867
D Score	0.732