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As of 11-May-2022 number of released structures: 12077
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NDB ID: PRV003  PDB ID: 1ZDH 


RNA Base-Pairs, Stacking and other pairwise interactions

CSV Format

Nucleotide 1Nucleotide 2Base-PairsBase-StackingBase-Phosphate
1ZDH|1|R|A|12||||P_11ZDH|1|R|A|12||||P_10BPh
1ZDH|1|R|A|12||||P_P1ZDH|1|R|A|12||||P_P0BPh
1ZDH|1|R|A|16||||P_11ZDH|1|R|A|16||||P_10BPh
1ZDH|1|R|A|16||||P_11ZDH|1|R|C|15||||P_1s53
1ZDH|1|R|A|16||||P_11ZDH|1|R|G|5||||P_1s55
1ZDH|1|R|A|16||||P_11ZDH|1|R|U|4||||P_1cWW
1ZDH|1|R|A|16||||P_P1ZDH|1|R|A|16||||P_P0BPh
1ZDH|1|R|A|16||||P_P1ZDH|1|R|C|15||||P_Ps53
1ZDH|1|R|A|16||||P_P1ZDH|1|R|G|5||||P_Ps55
1ZDH|1|R|A|16||||P_P1ZDH|1|R|U|4||||P_PcWW
1ZDH|1|R|A|9||||P_11ZDH|1|R|A|9||||P_10BPh
1ZDH|1|R|A|9||||P_11ZDH|1|R|C|11||||P_1s35
1ZDH|1|R|A|9||||P_11ZDH|1|R|C|13||||P_1s55
1ZDH|1|R|A|9||||P_11ZDH|1|R|G|8||||P_1s53
1ZDH|1|R|A|9||||P_P1ZDH|1|R|A|9||||P_P0BPh
1ZDH|1|R|A|9||||P_P1ZDH|1|R|C|11||||P_Ps35
1ZDH|1|R|A|9||||P_P1ZDH|1|R|C|13||||P_Ps55
1ZDH|1|R|A|9||||P_P1ZDH|1|R|G|8||||P_Ps53
1ZDH|1|R|C|11||||P_11ZDH|1|R|A|9||||P_1s53
1ZDH|1|R|C|11||||P_11ZDH|1|R|C|11||||P_10BPh
1ZDH|1|R|C|11||||P_11ZDH|1|R|U|10||||P_18BPh
1ZDH|1|R|C|11||||P_P1ZDH|1|R|A|9||||P_Ps53
1ZDH|1|R|C|11||||P_P1ZDH|1|R|C|11||||P_P0BPh
1ZDH|1|R|C|11||||P_P1ZDH|1|R|U|10||||P_P8BPh
1ZDH|1|R|C|13||||P_11ZDH|1|R|A|9||||P_1s55
1ZDH|1|R|C|13||||P_11ZDH|1|R|C|14||||P_1s35
1ZDH|1|R|C|13||||P_11ZDH|1|R|G|8||||P_1cWW
1ZDH|1|R|C|13||||P_P1ZDH|1|R|A|9||||P_Ps55
1ZDH|1|R|C|13||||P_P1ZDH|1|R|C|14||||P_Ps35
1ZDH|1|R|C|13||||P_P1ZDH|1|R|G|8||||P_PcWW
1ZDH|1|R|C|14||||P_11ZDH|1|R|C|13||||P_1s53
1ZDH|1|R|C|14||||P_11ZDH|1|R|C|14||||P_10BPh
1ZDH|1|R|C|14||||P_11ZDH|1|R|C|15||||P_1s35
1ZDH|1|R|C|14||||P_11ZDH|1|R|G|7||||P_1cWW
1ZDH|1|R|C|14||||P_11ZDH|1|R|G|8||||P_1s55
1ZDH|1|R|C|14||||P_P1ZDH|1|R|C|13||||P_Ps53
1ZDH|1|R|C|14||||P_P1ZDH|1|R|C|14||||P_P0BPh
1ZDH|1|R|C|14||||P_P1ZDH|1|R|C|15||||P_Ps35
1ZDH|1|R|C|14||||P_P1ZDH|1|R|G|7||||P_PcWW
1ZDH|1|R|C|14||||P_P1ZDH|1|R|G|8||||P_Ps55
1ZDH|1|R|C|15||||P_11ZDH|1|R|A|16||||P_1s35
1ZDH|1|R|C|15||||P_11ZDH|1|R|C|14||||P_1s53
1ZDH|1|R|C|15||||P_11ZDH|1|R|C|15||||P_10BPh
1ZDH|1|R|C|15||||P_11ZDH|1|R|G|5||||P_1cWW
1ZDH|1|R|C|15||||P_11ZDH|1|R|G|7||||P_1s55
1ZDH|1|R|C|15||||P_P1ZDH|1|R|A|16||||P_Ps35
1ZDH|1|R|C|15||||P_P1ZDH|1|R|C|14||||P_Ps53
1ZDH|1|R|C|15||||P_P1ZDH|1|R|C|15||||P_P0BPh
1ZDH|1|R|C|15||||P_P1ZDH|1|R|G|5||||P_PcWW
1ZDH|1|R|C|15||||P_P1ZDH|1|R|G|7||||P_Ps55
1ZDH|1|R|G|5||||P_11ZDH|1|R|A|16||||P_1s55
1ZDH|1|R|G|5||||P_11ZDH|1|R|C|15||||P_1cWW
1ZDH|1|R|G|5||||P_11ZDH|1|R|G|5||||P_10BPh
1ZDH|1|R|G|5||||P_11ZDH|1|R|G|7||||P_1s35
1ZDH|1|R|G|5||||P_11ZDH|1|R|U|4||||P_1s53
1ZDH|1|R|G|5||||P_P1ZDH|1|R|A|16||||P_Ps55
1ZDH|1|R|G|5||||P_P1ZDH|1|R|C|15||||P_PcWW
1ZDH|1|R|G|5||||P_P1ZDH|1|R|G|5||||P_P0BPh
1ZDH|1|R|G|5||||P_P1ZDH|1|R|G|7||||P_Ps35
1ZDH|1|R|G|5||||P_P1ZDH|1|R|U|4||||P_Ps53
1ZDH|1|R|G|7||||P_11ZDH|1|R|C|14||||P_1cWW
1ZDH|1|R|G|7||||P_11ZDH|1|R|C|15||||P_1s55
1ZDH|1|R|G|7||||P_11ZDH|1|R|G|5||||P_1s53
1ZDH|1|R|G|7||||P_11ZDH|1|R|G|8||||P_1s35
1ZDH|1|R|G|7||||P_P1ZDH|1|R|C|14||||P_PcWW
1ZDH|1|R|G|7||||P_P1ZDH|1|R|C|15||||P_Ps55
1ZDH|1|R|G|7||||P_P1ZDH|1|R|G|5||||P_Ps53
1ZDH|1|R|G|7||||P_P1ZDH|1|R|G|8||||P_Ps35
1ZDH|1|R|G|8||||P_11ZDH|1|R|A|9||||P_1s35
1ZDH|1|R|G|8||||P_11ZDH|1|R|C|13||||P_1cWW
1ZDH|1|R|G|8||||P_11ZDH|1|R|C|14||||P_1s55
1ZDH|1|R|G|8||||P_11ZDH|1|R|G|7||||P_1s53
1ZDH|1|R|G|8||||P_11ZDH|1|R|G|8||||P_10BPh
1ZDH|1|R|G|8||||P_P1ZDH|1|R|A|9||||P_Ps35
1ZDH|1|R|G|8||||P_P1ZDH|1|R|C|13||||P_PcWW
1ZDH|1|R|G|8||||P_P1ZDH|1|R|C|14||||P_Ps55
1ZDH|1|R|G|8||||P_P1ZDH|1|R|G|7||||P_Ps53
1ZDH|1|R|G|8||||P_P1ZDH|1|R|G|8||||P_P0BPh
1ZDH|1|R|U|10||||P_11ZDH|1|R|A|9||||P_1
1ZDH|1|R|U|10||||P_11ZDH|1|R|U|10||||P_1n0BP
1ZDH|1|R|U|10||||P_P1ZDH|1|R|A|9||||P_P
1ZDH|1|R|U|10||||P_P1ZDH|1|R|U|10||||P_Pn0BP
1ZDH|1|R|U|4||||P_11ZDH|1|R|A|16||||P_1cWW
1ZDH|1|R|U|4||||P_11ZDH|1|R|G|5||||P_1s35
1ZDH|1|R|U|4||||P_11ZDH|1|R|U|4||||P_10BPh
1ZDH|1|R|U|4||||P_P1ZDH|1|R|A|16||||P_PcWW
1ZDH|1|R|U|4||||P_P1ZDH|1|R|G|5||||P_Ps35
1ZDH|1|R|U|4||||P_P1ZDH|1|R|U|4||||P_P0BPh
1ZDH|1|S|A|12||||P_11ZDH|1|S|A|12||||P_10BPh
1ZDH|1|S|A|12||||P_P1ZDH|1|S|A|12||||P_P0BPh
1ZDH|1|S|A|16||||P_11ZDH|1|S|A|16||||P_10BPh
1ZDH|1|S|A|16||||P_11ZDH|1|S|C|15||||P_1s53
1ZDH|1|S|A|16||||P_11ZDH|1|S|G|5||||P_1s55
1ZDH|1|S|A|16||||P_11ZDH|1|S|U|4||||P_1cWW
1ZDH|1|S|A|16||||P_P1ZDH|1|S|A|16||||P_P0BPh
1ZDH|1|S|A|16||||P_P1ZDH|1|S|C|15||||P_Ps53
1ZDH|1|S|A|16||||P_P1ZDH|1|S|G|5||||P_Ps55
1ZDH|1|S|A|16||||P_P1ZDH|1|S|U|4||||P_PcWW
1ZDH|1|S|A|9||||P_11ZDH|1|S|A|9||||P_1n0BP
1ZDH|1|S|A|9||||P_11ZDH|1|S|C|11||||P_1s35
1ZDH|1|S|A|9||||P_11ZDH|1|S|C|13||||P_1s55
1ZDH|1|S|A|9||||P_11ZDH|1|S|G|8||||P_1s53
1ZDH|1|S|A|9||||P_P1ZDH|1|S|A|9||||P_Pn0BP
1ZDH|1|S|A|9||||P_P1ZDH|1|S|C|11||||P_Ps35
1ZDH|1|S|A|9||||P_P1ZDH|1|S|C|13||||P_Ps55
1ZDH|1|S|A|9||||P_P1ZDH|1|S|G|8||||P_Ps53
1ZDH|1|S|C|11||||P_11ZDH|1|S|A|9||||P_1s53
1ZDH|1|S|C|11||||P_11ZDH|1|S|C|11||||P_10BPh
1ZDH|1|S|C|11||||P_11ZDH|1|S|U|10||||P_18BPh
1ZDH|1|S|C|11||||P_P1ZDH|1|S|A|9||||P_Ps53
1ZDH|1|S|C|11||||P_P1ZDH|1|S|C|11||||P_P0BPh
1ZDH|1|S|C|11||||P_P1ZDH|1|S|U|10||||P_P8BPh
1ZDH|1|S|C|13||||P_11ZDH|1|S|A|9||||P_1s55
1ZDH|1|S|C|13||||P_11ZDH|1|S|C|14||||P_1s35
1ZDH|1|S|C|13||||P_11ZDH|1|S|G|8||||P_1cWW
1ZDH|1|S|C|13||||P_P1ZDH|1|S|A|9||||P_Ps55
1ZDH|1|S|C|13||||P_P1ZDH|1|S|C|14||||P_Ps35
1ZDH|1|S|C|13||||P_P1ZDH|1|S|G|8||||P_PcWW
1ZDH|1|S|C|14||||P_11ZDH|1|S|C|13||||P_1s53
1ZDH|1|S|C|14||||P_11ZDH|1|S|C|14||||P_10BPh
1ZDH|1|S|C|14||||P_11ZDH|1|S|C|15||||P_1s35
1ZDH|1|S|C|14||||P_11ZDH|1|S|G|7||||P_1cWW
1ZDH|1|S|C|14||||P_11ZDH|1|S|G|8||||P_1s55
1ZDH|1|S|C|14||||P_P1ZDH|1|S|C|13||||P_Ps53
1ZDH|1|S|C|14||||P_P1ZDH|1|S|C|14||||P_P0BPh
1ZDH|1|S|C|14||||P_P1ZDH|1|S|C|15||||P_Ps35
1ZDH|1|S|C|14||||P_P1ZDH|1|S|G|7||||P_PcWW
1ZDH|1|S|C|14||||P_P1ZDH|1|S|G|8||||P_Ps55
1ZDH|1|S|C|15||||P_11ZDH|1|S|A|16||||P_1s35
1ZDH|1|S|C|15||||P_11ZDH|1|S|C|14||||P_1s53
1ZDH|1|S|C|15||||P_11ZDH|1|S|C|15||||P_10BPh
1ZDH|1|S|C|15||||P_11ZDH|1|S|G|5||||P_1cWW
1ZDH|1|S|C|15||||P_11ZDH|1|S|G|7||||P_1s55
1ZDH|1|S|C|15||||P_P1ZDH|1|S|A|16||||P_Ps35
1ZDH|1|S|C|15||||P_P1ZDH|1|S|C|14||||P_Ps53
1ZDH|1|S|C|15||||P_P1ZDH|1|S|C|15||||P_P0BPh
1ZDH|1|S|C|15||||P_P1ZDH|1|S|G|5||||P_PcWW
1ZDH|1|S|C|15||||P_P1ZDH|1|S|G|7||||P_Ps55
1ZDH|1|S|G|5||||P_11ZDH|1|S|A|16||||P_1s55
1ZDH|1|S|G|5||||P_11ZDH|1|S|C|15||||P_1cWW
1ZDH|1|S|G|5||||P_11ZDH|1|S|G|5||||P_1n0BP
1ZDH|1|S|G|5||||P_11ZDH|1|S|G|7||||P_1s35
1ZDH|1|S|G|5||||P_11ZDH|1|S|U|4||||P_1s53
1ZDH|1|S|G|5||||P_P1ZDH|1|S|A|16||||P_Ps55
1ZDH|1|S|G|5||||P_P1ZDH|1|S|C|15||||P_PcWW
1ZDH|1|S|G|5||||P_P1ZDH|1|S|G|5||||P_Pn0BP
1ZDH|1|S|G|5||||P_P1ZDH|1|S|G|7||||P_Ps35
1ZDH|1|S|G|5||||P_P1ZDH|1|S|U|4||||P_Ps53
1ZDH|1|S|G|7||||P_11ZDH|1|S|C|14||||P_1cWW
1ZDH|1|S|G|7||||P_11ZDH|1|S|C|15||||P_1s55
1ZDH|1|S|G|7||||P_11ZDH|1|S|G|5||||P_1s53
1ZDH|1|S|G|7||||P_11ZDH|1|S|G|8||||P_1s35
1ZDH|1|S|G|7||||P_P1ZDH|1|S|C|14||||P_PcWW
1ZDH|1|S|G|7||||P_P1ZDH|1|S|C|15||||P_Ps55
1ZDH|1|S|G|7||||P_P1ZDH|1|S|G|5||||P_Ps53
1ZDH|1|S|G|7||||P_P1ZDH|1|S|G|8||||P_Ps35
1ZDH|1|S|G|8||||P_11ZDH|1|S|A|9||||P_1s35
1ZDH|1|S|G|8||||P_11ZDH|1|S|C|13||||P_1cWW
1ZDH|1|S|G|8||||P_11ZDH|1|S|C|14||||P_1s55
1ZDH|1|S|G|8||||P_11ZDH|1|S|G|7||||P_1s53
1ZDH|1|S|G|8||||P_11ZDH|1|S|G|8||||P_10BPh
1ZDH|1|S|G|8||||P_P1ZDH|1|S|A|9||||P_Ps35
1ZDH|1|S|G|8||||P_P1ZDH|1|S|C|13||||P_PcWW
1ZDH|1|S|G|8||||P_P1ZDH|1|S|C|14||||P_Ps55
1ZDH|1|S|G|8||||P_P1ZDH|1|S|G|7||||P_Ps53
1ZDH|1|S|G|8||||P_P1ZDH|1|S|G|8||||P_P0BPh
1ZDH|1|S|U|10||||P_11ZDH|1|S|A|9||||P_1
1ZDH|1|S|U|10||||P_11ZDH|1|S|U|10||||P_10BPh
1ZDH|1|S|U|10||||P_P1ZDH|1|S|A|9||||P_P
1ZDH|1|S|U|10||||P_P1ZDH|1|S|U|10||||P_P0BPh
1ZDH|1|S|U|4||||P_11ZDH|1|S|A|16||||P_1cWW
1ZDH|1|S|U|4||||P_11ZDH|1|S|G|5||||P_1s35
1ZDH|1|S|U|4||||P_11ZDH|1|S|U|4||||P_10BPh
1ZDH|1|S|U|4||||P_P1ZDH|1|S|A|16||||P_PcWW
1ZDH|1|S|U|4||||P_P1ZDH|1|S|G|5||||P_Ps35
1ZDH|1|S|U|4||||P_P1ZDH|1|S|U|4||||P_P0BPh


Base-PairsCount (16)Relative Frequency
cWW161.000
Base-PhosphateCount (38)Relative Frequency
8BPh40.105
0BPh340.895
Base-StackingCount (28)Relative Frequency
s53120.429
s55160.571

Leontis/Westhof Classification Legend

Base-Phosphate Interactions Legend

Base-Stacking Interactions Legend

Saenger Classification Legend

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