A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 21-Aug-2019 number of released structures: 10343
Search for released structures

NDB ID: 1Q8N  PDB ID: 1Q8N 

RNA Base-Pairs, Stacking and other pairwise interactions

CSV Format

Nucleotide 1Nucleotide 2Base-PairsBase-StackingBase-Phosphate
1Q8N|1|A|A|161Q8N|1|A|A|160BPh
1Q8N|1|A|A|161Q8N|1|A|G|15
1Q8N|1|A|A|161Q8N|1|A|G|17s35
1Q8N|1|A|A|181Q8N|1|A|A|18n0BP
1Q8N|1|A|A|181Q8N|1|A|G|15s55
1Q8N|1|A|A|181Q8N|1|A|G|17s53
1Q8N|1|A|A|181Q8N|1|A|G|19s35
1Q8N|1|A|A|221Q8N|1|A|A|220BPh
1Q8N|1|A|A|221Q8N|1|A|C|21s53
1Q8N|1|A|A|221Q8N|1|A|G|12s55
1Q8N|1|A|A|221Q8N|1|A|G|23s35
1Q8N|1|A|A|221Q8N|1|A|U|11cWW
1Q8N|1|A|A|261Q8N|1|A|A|260BPh
1Q8N|1|A|A|261Q8N|1|A|A|27s35
1Q8N|1|A|A|261Q8N|1|A|G|12n2BP
1Q8N|1|A|A|261Q8N|1|A|U|11cWS
1Q8N|1|A|A|271Q8N|1|A|A|26s53
1Q8N|1|A|A|271Q8N|1|A|A|27n0BP
1Q8N|1|A|A|271Q8N|1|A|C|10ncWS
1Q8N|1|A|A|271Q8N|1|A|C|28s35
1Q8N|1|A|A|271Q8N|1|A|G|23tWS
1Q8N|1|A|A|271Q8N|1|A|U|11
1Q8N|1|A|A|271Q8N|1|A|U|25
1Q8N|1|A|A|31Q8N|1|A|A|30BPh
1Q8N|1|A|A|31Q8N|1|A|A|35s33
1Q8N|1|A|A|31Q8N|1|A|G|2s53
1Q8N|1|A|A|31Q8N|1|A|U|36cWW
1Q8N|1|A|A|31Q8N|1|A|U|4s35
1Q8N|1|A|A|301Q8N|1|A|A|31
1Q8N|1|A|A|301Q8N|1|A|G|8ntHS
1Q8N|1|A|A|311Q8N|1|A|A|30
1Q8N|1|A|A|311Q8N|1|A|G|29tWS
1Q8N|1|A|A|311Q8N|1|A|G|33s35n0BP
1Q8N|1|A|A|311Q8N|1|A|U|32n0BP
1Q8N|1|A|A|351Q8N|1|A|A|3s33
1Q8N|1|A|A|351Q8N|1|A|A|350BPh
1Q8N|1|A|A|351Q8N|1|A|C|5ncWW
1Q8N|1|A|A|351Q8N|1|A|G|34s53
1Q8N|1|A|A|351Q8N|1|A|U|36s35
1Q8N|1|A|A|351Q8N|1|A|U|4cWW
1Q8N|1|A|A|91Q8N|1|A|A|90BPh
1Q8N|1|A|C|101Q8N|1|A|A|27ncSW
1Q8N|1|A|C|101Q8N|1|A|C|10n0BP
1Q8N|1|A|C|101Q8N|1|A|G|23cWW
1Q8N|1|A|C|101Q8N|1|A|G|8s53
1Q8N|1|A|C|101Q8N|1|A|U|11s35
1Q8N|1|A|C|141Q8N|1|A|C|140BPh
1Q8N|1|A|C|141Q8N|1|A|G|13s53
1Q8N|1|A|C|141Q8N|1|A|G|15s35
1Q8N|1|A|C|141Q8N|1|A|G|19cWW
1Q8N|1|A|C|201Q8N|1|A|C|200BPh
1Q8N|1|A|C|201Q8N|1|A|C|21s35
1Q8N|1|A|C|201Q8N|1|A|G|13cWW
1Q8N|1|A|C|201Q8N|1|A|G|19s53
1Q8N|1|A|C|211Q8N|1|A|A|22s35
1Q8N|1|A|C|211Q8N|1|A|C|20s53
1Q8N|1|A|C|211Q8N|1|A|C|210BPh
1Q8N|1|A|C|211Q8N|1|A|G|12cWW
1Q8N|1|A|C|211Q8N|1|A|G|13ns55
1Q8N|1|A|C|211Q8N|1|A|U|11ncWW
1Q8N|1|A|C|281Q8N|1|A|A|27s53
1Q8N|1|A|C|281Q8N|1|A|G|23ns53
1Q8N|1|A|C|281Q8N|1|A|G|8cWW
1Q8N|1|A|C|371Q8N|1|A|C|370BPh
1Q8N|1|A|C|371Q8N|1|A|C|38s35
1Q8N|1|A|C|371Q8N|1|A|G|1ncWW
1Q8N|1|A|C|371Q8N|1|A|G|2ncWW
1Q8N|1|A|C|371Q8N|1|A|U|36s53
1Q8N|1|A|C|381Q8N|1|A|C|37s53
1Q8N|1|A|C|381Q8N|1|A|C|380BPh
1Q8N|1|A|C|381Q8N|1|A|G|1cWW
1Q8N|1|A|C|381Q8N|1|A|G|2ns55
1Q8N|1|A|C|51Q8N|1|A|A|35ncWW
1Q8N|1|A|C|51Q8N|1|A|C|50BPh
1Q8N|1|A|C|51Q8N|1|A|C|6s35
1Q8N|1|A|C|51Q8N|1|A|G|34cWW
1Q8N|1|A|C|51Q8N|1|A|U|4s53
1Q8N|1|A|C|61Q8N|1|A|C|5s53
1Q8N|1|A|C|61Q8N|1|A|C|60BPh
1Q8N|1|A|C|61Q8N|1|A|C|7s35
1Q8N|1|A|C|61Q8N|1|A|G|29s33
1Q8N|1|A|C|61Q8N|1|A|G|33cWW
1Q8N|1|A|C|61Q8N|1|A|G|34ns55
1Q8N|1|A|C|71Q8N|1|A|C|6s53n7BP
1Q8N|1|A|C|71Q8N|1|A|C|70BPh
1Q8N|1|A|C|71Q8N|1|A|G|29cWW
1Q8N|1|A|G|11Q8N|1|A|C|37ncWW
1Q8N|1|A|G|11Q8N|1|A|C|38cWW
1Q8N|1|A|G|11Q8N|1|A|G|10BPh
1Q8N|1|A|G|11Q8N|1|A|G|2s35
1Q8N|1|A|G|121Q8N|1|A|A|22s55
1Q8N|1|A|G|121Q8N|1|A|C|21cWW
1Q8N|1|A|G|121Q8N|1|A|G|120BPh
1Q8N|1|A|G|121Q8N|1|A|G|13s35
1Q8N|1|A|G|121Q8N|1|A|U|11s53
1Q8N|1|A|G|131Q8N|1|A|C|14s35
1Q8N|1|A|G|131Q8N|1|A|C|20cWW
1Q8N|1|A|G|131Q8N|1|A|C|21ns55
1Q8N|1|A|G|131Q8N|1|A|G|12s53
1Q8N|1|A|G|131Q8N|1|A|G|130BPh
1Q8N|1|A|G|151Q8N|1|A|A|18s55
1Q8N|1|A|G|151Q8N|1|A|C|14s53
1Q8N|1|A|G|151Q8N|1|A|G|150BPh
1Q8N|1|A|G|151Q8N|1|A|G|19s55
1Q8N|1|A|G|171Q8N|1|A|A|16s53
1Q8N|1|A|G|171Q8N|1|A|A|18s35
1Q8N|1|A|G|171Q8N|1|A|G|170BPh
1Q8N|1|A|G|191Q8N|1|A|A|18s53
1Q8N|1|A|G|191Q8N|1|A|C|14cWW
1Q8N|1|A|G|191Q8N|1|A|C|20s35
1Q8N|1|A|G|191Q8N|1|A|G|15s55
1Q8N|1|A|G|191Q8N|1|A|G|190BPh
1Q8N|1|A|G|21Q8N|1|A|A|3s35
1Q8N|1|A|G|21Q8N|1|A|C|37ncWW
1Q8N|1|A|G|21Q8N|1|A|C|38ns55
1Q8N|1|A|G|21Q8N|1|A|G|1s53
1Q8N|1|A|G|21Q8N|1|A|G|20BPh
1Q8N|1|A|G|231Q8N|1|A|A|22s53
1Q8N|1|A|G|231Q8N|1|A|A|27tSW
1Q8N|1|A|G|231Q8N|1|A|C|10cWW
1Q8N|1|A|G|231Q8N|1|A|C|28ns35
1Q8N|1|A|G|231Q8N|1|A|G|230BPh
1Q8N|1|A|G|231Q8N|1|A|U|11s55
1Q8N|1|A|G|241Q8N|1|A|G|29ntWH
1Q8N|1|A|G|241Q8N|1|A|U|25
1Q8N|1|A|G|291Q8N|1|A|A|31tSW
1Q8N|1|A|G|291Q8N|1|A|C|6s33
1Q8N|1|A|G|291Q8N|1|A|C|7cWW
1Q8N|1|A|G|291Q8N|1|A|G|24ntHW
1Q8N|1|A|G|291Q8N|1|A|G|29n0BP
1Q8N|1|A|G|291Q8N|1|A|G|33s35
1Q8N|1|A|G|331Q8N|1|A|A|31s53
1Q8N|1|A|G|331Q8N|1|A|C|6cWW
1Q8N|1|A|G|331Q8N|1|A|G|29s53
1Q8N|1|A|G|331Q8N|1|A|G|33n0BP
1Q8N|1|A|G|341Q8N|1|A|A|35s35
1Q8N|1|A|G|341Q8N|1|A|C|5cWW
1Q8N|1|A|G|341Q8N|1|A|C|6ns55
1Q8N|1|A|G|341Q8N|1|A|G|340BPh
1Q8N|1|A|G|81Q8N|1|A|A|30ntSH
1Q8N|1|A|G|81Q8N|1|A|C|10s35
1Q8N|1|A|G|81Q8N|1|A|C|28cWW
1Q8N|1|A|U|111Q8N|1|A|A|22cWW
1Q8N|1|A|U|111Q8N|1|A|A|26cSW
1Q8N|1|A|U|111Q8N|1|A|C|10s53
1Q8N|1|A|U|111Q8N|1|A|C|21ncWW
1Q8N|1|A|U|111Q8N|1|A|G|12s35
1Q8N|1|A|U|111Q8N|1|A|G|23s55
1Q8N|1|A|U|111Q8N|1|A|U|110BPh
1Q8N|1|A|U|251Q8N|1|A|A|27
1Q8N|1|A|U|251Q8N|1|A|G|24
1Q8N|1|A|U|251Q8N|1|A|U|250BPh
1Q8N|1|A|U|321Q8N|1|A|A|31
1Q8N|1|A|U|321Q8N|1|A|G|33n0BP
1Q8N|1|A|U|321Q8N|1|A|U|32n9BP
1Q8N|1|A|U|361Q8N|1|A|A|3cWW
1Q8N|1|A|U|361Q8N|1|A|A|35s53
1Q8N|1|A|U|361Q8N|1|A|C|37s35
1Q8N|1|A|U|361Q8N|1|A|U|360BPh
1Q8N|1|A|U|41Q8N|1|A|A|3s53
1Q8N|1|A|U|41Q8N|1|A|A|35cWW
1Q8N|1|A|U|41Q8N|1|A|C|5s35
1Q8N|1|A|U|41Q8N|1|A|U|40BPh


Base-PairsCount (15)Relative Frequency
cWW120.800
cWS10.067
tWS20.133
Base-PhosphateCount (27)Relative Frequency
0BPh271.000
Base-StackingCount (16)Relative Frequency
s3320.125
s53100.625
s5540.250

Leontis/Westhof Classification Legend

Base-Phosphate Interactions Legend

Base-Stacking Interactions Legend

Saenger Classification Legend

Correspondence of Leontis/Westhof names to Saenger numbering (table)

ndbadmin@ndbserver.rutgers.edu ©1995-2019 The Nucleic Acid Database Project | Rutgers, The State University of New Jersey