Complex 1nbk

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	Solution NMR
Experimental resolution	N/A
System mass	11.27 kDa
Deposition year	2002
Molecule type	RNA
# RNA entities	1
Organism	N/A
RCSB PDB Entry	1nbk
Reference	Matsugami Akimasa, Kobayashi Shin-ichiro, Ouhashi Kiyoshi, Uesugi Seiichi, Yamamoto Rika, Taira Kazunari, Nishikawa Satoshi, Kumar Penmetcha K.R, Katahira Masato. 2003. Structural Basis of the Highly Efficient Trapping of the HIV Tat Protein by an RNA Aptamer Structure
Equivalence Class	NR_all_32674.1 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	GND
Residue	. / 35
Chain	B / A
Non-redundant	True
Interacting RNA chains	A/A
RNA environment detailled	other
RNA environment global	RNA/Other
RNA family chains	A/A: aptamer_rna
RNA family global	aptamer_rna
Volume	152.64 Å³
Hydrophobicity	0.170
Hydrophilicity	0.496
Buriedness	0.481
Don/acc character	1.924
SiteScore	1.110
D Score	1.067
Kd	—

Pocket 2

Compound	GND
Residue	. / 36
Chain	C / A
Non-redundant	False
Interacting RNA chains	A/A
RNA environment detailled	other
RNA environment global	RNA/Other
RNA family chains	A/A: aptamer_rna
RNA family global	aptamer_rna
Volume	225.01 Å³
Hydrophobicity	0.334
Hydrophilicity	0.928
Buriedness	0.680
Don/acc character	1.675
SiteScore	0.980
D Score	0.815
Kd	—