HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Complex 8hzl

System information

Experimental technique	X-ray
Experimental resolution	2.60
System mass	57.01 kDa
Deposition year	2023
Molecule type	RNA
# RNA entities	1
Organism	N/A
RCSB PDB Entry	8hzl
Reference	Huang Kaiyi, Song Qianqian, Fang Mengyue, Yao Deqiang, Shen Xin, Xu Xiaochen, Chen Xianjun, Zhu Linyong, Yang Yi, Ren Aiming. . Structural basis of a small monomeric Clivia fluorogenic RNA with a large Stokes shift Nature Chemical Biology

Pocket 1

Compound	NI4
Residue	. / 111
Chain	M / A
Non-redundant	True
Interacting RNA chains	A/A
Volume	256.22 Å³
Hydrophobicity	0.928
Hydrophilicity	0.895
Buriedness	0.662
Don/acc character	2.233
SiteScore	1.004
D Score	1.045

Pocket 2

Compound	NI4
Residue	. / 112
Chain	N / A
Non-redundant	True
Interacting RNA chains	A/A
Volume	383.47 Å³
Hydrophobicity	0.772
Hydrophilicity	0.973
Buriedness	0.679
Don/acc character	2.219
SiteScore	1.001
D Score	1.030

Pocket 3

Compound	NI4
Residue	. / 113
Chain	O / A
Non-redundant	False
Interacting RNA chains	A/A
Volume	393.76 Å³
Hydrophobicity	0.806
Hydrophilicity	1.090
Buriedness	0.682
Don/acc character	2.018
SiteScore	0.989
D Score	0.994

Pocket 4

Compound	NI4
Residue	. / 114
Chain	CA / B
Non-redundant	False
Interacting RNA chains	B/B
Volume	290.86 Å³
Hydrophobicity	0.815
Hydrophilicity	0.895
Buriedness	0.602
Don/acc character	1.820
SiteScore	0.964
D Score	1.009

Pocket 5

Compound	NI4
Residue	. / 115
Chain	DA / B
Non-redundant	False
Interacting RNA chains	B/B
Volume	274.06 Å³
Hydrophobicity	0.837
Hydrophilicity	0.922
Buriedness	0.661
Don/acc character	1.517
SiteScore	0.972
D Score	1.002

Pocket 6

Compound	NI4
Residue	. / 116
Chain	EA / B
Non-redundant	True
Interacting RNA chains	B/B
Volume	341.97 Å³
Hydrophobicity	0.575
Hydrophilicity	1.028
Buriedness	0.636
Don/acc character	1.762
SiteScore	0.961
D Score	0.986