A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 21-Aug-2019 number of released structures: 10343
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NDB ID: 4YM5  PDB ID: 4YM5 


Base Pair Morphology Parameters

CSV Format

Model NumberPair NumberPair NameShearStretchStaggerBucklePropellorOpening
11I_DA1:DT144_J0.618-0.0460.0871.6857.438-8.035
14I_DA4:DT141_J-0.0740.039-0.102-3.392-23.4420.63
15I_DA5:DT140_J-0.335-0.3490.4899.116-6.4963.302
17I_DA7:DT138_J0.055-0.371-0.771-1.807-33.881.151
111I_DA11:DT134_J-0.653-0.6230.2823.017-3.117-10.417
117I_DA17:DT128_J1.087-0.374-0.891.339-28.976-0.986
119I_DA19:DT126_J-0.898-0.634-0.979-4.207-39.6828.43
124I_DA24:DT121_J0.501-0.2570.608-3.69-15.963-4.635
127I_DA27:DT118_J0.899-0.285-0.788-5.64-12.0882.129
128I_DA28:DT117_J-0.1410.2140.58217.419-7.9732.967
133I_DA34:DT110_J0.47-0.0160.132-15.934-3.2963.743
139I_DA40:DT104_J0.7420.242-0.418-13.384-9.3153.517
140I_DA41:DT103_J-0.305-0.08-0.588-9.593-15.782-1.996
141I_DA42:DT102_J-0.428-0.105-0.201-7.413-5.764-4.485
149I_DA50:DT94_J-0.6860.174-0.413-26.58-18.0810.875
152I_DA53:DT91_J0.4940.2460.134-18.73-25.7661.958
153I_DA54:DT90_J-1.326-0.126-0.254-2.192-26.936-1.654
154I_DA55:DT89_J-0.5280.25-0.4-10.084-38.386.515
155I_DA56:DT88_J-0.9890.1450.39914.312-15.366-1.775
159I_DA60:DT84_J0.73-0.1420.002-18.967-22.901-4.062
165I_DA66:DT78_J-0.3860.027-0.25-0.238-33.9835.195
170I_DA71:DT73_J0.47-0.21-0.4134.954-22.46-3.316
171I_DA72:DT72_J0.598-0.132-0.376-3.769-21.0752.312
174I_DA75:DT69_J-0.0060.109-0.064-5.814-14.214-0.033
179I_DA80:DT64_J0.1010.1130.837.535-1.3526.905
180I_DA81:DT63_J1.4090.0690.2871.330.5023.245
182I_DA83:DT61_J0.8850.2210.58516.322-20.3254.915
191I_DA93:DT51_J-0.791-0.552-0.8033.638-20.21613.596
195I_DA97:DT47_J0.976-0.2220.75119.201-1.138-0.141
198I_DA100:DT44_J-0.435-0.2060.48914.755-24.2512.663
1105I_DA107:DT37_J-0.503-0.367-0.036.821-25.36-3.701
1106I_DA108:DT36_J-0.417-0.040.399-3.008-20.022-2.12
1107I_DA109:DT35_J-0.296-0.0750.8861.311-1.287-0.995
1109I_DA111:DT33_J0.5740.018-0.1057.342-17.60610.957
1111I_DA113:DT31_J-1.488-0.210.069-8.485-13.828-3.065
1118I_DA122:DT23_J0.737-0.0710.14419.887-14.267-2.568
1120I_DA124:DT21_J0.8120.082-0.697-5.105-25.6663.786
1121I_DA125:DT20_J-0.212-0.113-0.514-7.84-37.0877.494
1127I_DA131:DT14_J-1.288-0.112-0.107-7.928-33.2665.991
1133I_DA137:DT8_J0.33-0.091-0.505-15.918-36.08214.686
1135I_DA139:DT6_J0.1140.2440.386-14.66-18.702-12.28
1139I_DA143:DT2_J-0.455-0.045-0.022-8.67-18.795-3.264
13I_DC3:DG142_J-0.108-0.21.124-10.42-7.0616.821
19I_DC9:DG136_J-0.3750.1380.719-7.691-23.2618.277
110I_DC10:DG135_J1.088-0.290.0694.798-20.896-1.23
112I_DC12:DG133_J-0.880.014-0.29425.136-12.591-3.374
113I_DC13:DG132_J0.7940.157-0.47920.326-34.08412.732
116I_DC16:DG129_J0.674-0.28-0.64214.87-21.957-7.387
122I_DC22:DG123_J-0.389-0.123-0.738-7.392-13.038-1.804
125I_DC25:DG120_J-0.5410.2330.273-1.618-19.782.819
126I_DC26:DG119_J-0.1740.0950.514-12.132-24.5895.795
142I_DC43:DG101_J-1.0160.154-0.0121.063-21.5774.164
145I_DC46:DG98_J0.526-0.1070.204-9.088-33.285-3.18
147I_DC48:DG96_J-0.2460.385-0.1859.868-30.19815.854
148I_DC49:DG95_J0.5070.3390.117-1.659-33.02612.213
151I_DC52:DG92_J0.2970.389-0.339-0.604-28.15911.577
158I_DC59:DG85_J-0.9210.4140.1146.229-20.89710.79
164I_DC65:DG79_J-0.4070.182-0.36514.471-6.341.672
167I_DC68:DG76_J-0.484-0.0430.5035.884-20.618-0.538
172I_DC73:DG71_J0.287-0.024-0.8111.189-23.74810.123
173I_DC74:DG70_J-0.5190.3640.824-29.73811.6974.389
176I_DC77:DG67_J0.373-0.0040.933-3.851-6.4235.146
181I_DC82:DG62_J0.158-0.155-1.28124.495-27.4151.166
184I_DC86:DG58_J0.2080.2230.423-2.317-26.0798.07
185I_DC87:DG57_J0.0840.0620.764-3.536-18.3833.651
197I_DC99:DG45_J1.805-0.06-0.17214.7758.49417.982
1103I_DC105:DG39_J0.2010.215-0.026-0.56-16.084-4.688
1104I_DC106:DG38_J-1.1120.4770.334-2.929-4.9593.821
1110I_DC112:DG32_J0.12-0.413-0.678.473-18.2624.112
1112I_DC114:DG30_J-0.48-0.368-0.4981.488-28.083-1.001
1123I_DC127:DG18_J-0.614-0.116-0.60213.737-34.8314.68
1126I_DC130:DG15_J0.0010.033-0.55621.003-14.15710.171
115I_DG15:DC130_J-0.6390.003-0.812-21.007-18.9220.452
118I_DG18:DC127_J0.407-0.49-1.345-19.162-39.04115.517
129I_DG30:DC114_J-0.424-0.214-0.491-12.214-16.23-6.481
131I_DG32:DC112_J-0.22-0.301-0.504-1.076-2.917-4.807
137I_DG38:DC106_J-1.3-0.1510.1469.7-0.125-1.214
138I_DG39:DC105_J-0.3830.280.57212.761-24.755-1.213
144I_DG45:DC99_J-0.628-0.4140.75-16.9420.27612.474
156I_DG57:DC87_J-0.0050.2470.98413.424-28.80710.119
157I_DG58:DC86_J0.0450.2530.4652.128-25.879.478
161I_DG62:DC82_J-0.345-0.262-0.225-16.257-21.245-0.322
166I_DG67:DC77_J-0.661-0.3080.02911.94-6.92.164
169I_DG70:DC74_J0.0610.0920.0812.253-13.50112.904
175I_DG76:DC68_J0.4050.0340.493-2.249-17.732-9.343
178I_DG79:DC65_J0.2230.322-0.303-13.2362.607-0.296
183I_DG85:DC59_J0.4970.1780.101-8.686-28.55912.553
190I_DG92:DC52_J-0.305-0.425-0.0137.9070.142-0.913
193I_DG95:DC49_J0.0170.1980.391-1.069-23.7129.632
194I_DG96:DC48_J0.5650.3680.434-4.076-17.86713.735
196I_DG98:DC46_J-0.203-0.0461.02419.221-32.498-4.114
199I_DG101:DC43_J0.0620.1850.158-1.826-17.5682.043
1115I_DG119:DC26_J-0.227-0.150.73210.356-19.57-1.163
1116I_DG120:DC25_J0.2760.0270.2085.11-25.5794.136
1119I_DG123:DC22_J0.0630.310.54914.581-13.8924.925
1125I_DG129:DC16_J-0.913-0.259-0.092-4.481-16.1023.383
1128I_DG132:DC13_J0.9120.36-0.518-13.114-23.77310.174
1129I_DG133:DC12_J0.2630.305-0.125-10.313-8.6735.983
1131I_DG135:DC10_J-0.3460.1010.448-3.018-17.2342.557
1132I_DG136:DC9_J0.6230.2380.55525.725-20.3217.773
1138I_DG142:DC3_J-0.756-0.252-0.16212.835-15.064.181
12I_DT2:DA143_J-0.2520.037-0.67916.49-17.651-3.054
16I_DT6:DA139_J-0.85-0.2781.24510.109-5.01-12.003
18I_DT8:DA137_J0.485-0.052-0.589.222-24.707-1.264
114I_DT14:DA131_J0.994-0.1030.1357.625-35.5630.481
120I_DT20:DA125_J0.344-0.389-1.07315.19-43.5164.508
121I_DT21:DA124_J-0.244-0.16-0.52513.752-24.9371.691
123I_DT23:DA122_J0.698-0.145-0.427-13.442-14.0043.795
130I_DT31:DA113_J0.282-0.12-0.40113.2952.648-6.075
132I_DT33:DA111_J-0.169-0.0280.045-4.715-20.7972.786
134I_DT35:DA109_J-0.8910.0710.626-7.152.4670.725
135I_DT36:DA108_J-0.9110.140.103-4.257-18.516-0.865
136I_DT37:DA107_J-0.81-0.059-0.4143.422-30.0883.323
143I_DT44:DA100_J0.615-0.2310.591-16.177-23.515-2.721
146I_DT47:DA97_J-0.5920.247-0.01-2.921-4.5191.038
150I_DT51:DA93_J-1.0660.11-0.836-2.618-19.6481.615
160I_DT61:DA83_J0.234-0.011-0.155-3.877-14.972-8.938
162I_DT63:DA81_J-0.3270.108-0.0432.133-16.62.989
163I_DT64:DA80_J-0.2010.186-0.2455.047-13.5956.248
168I_DT69:DA75_J1.06-0.261-0.6812.479-20.990.675
177I_DT78:DA66_J-0.87-0.2361.131-0.777-23.289-5.772
186I_DT88:DA56_J-0.583-0.005-0.024-1.287-21.0083.079
187I_DT89:DA55_J0.5670.015-0.63923.387-27.741-2.88
188I_DT90:DA54_J0.487-0.0650.4723.751-15.361-2.336
189I_DT91:DA53_J0.927-0.148-1.3026.209-28.8259.373
192I_DT94:DA50_J0.008-0.014-1.08425.591-21.19212.099
1100I_DT102:DA42_J-0.2090.239-0.0378.262-17.762-6.123
1101I_DT103:DA41_J0.4420.011-0.056-2.966-19.210.505
1102I_DT104:DA40_J-0.528-0.0620.4960.937-11.507-2.043
1108I_DT110:DA34_J-0.6160.368-0.03810.9083.0674.56
1113I_DT117:DA28_J-0.3070.2780.692-19.144-4.6257.108
1114I_DT118:DA27_J0.191-0.098-0.0052.042-13.1440.677
1117I_DT121:DA24_J-0.16-0.099-0.08812.317-20.286-9.073
1122I_DT126:DA19_J0.632-0.2-0.7531.42-30.4586.437
1124I_DT128:DA17_J0.013-0.186-0.6340.378-14.717-1.008
1130I_DT134:DA11_J0.399-0.0710.4026.143-21.4532.098
1134I_DT138:DA7_J-0.1710.007-0.112-4.283-19.1851.975
1136I_DT140:DA5_J1.183-0.397-0.28813.466-9.096-2.588
1137I_DT141:DA4_J0.678-0.21-1.23826.354-27.293-1.084
1140I_DT144:DA1_J0.177-0.5480.737-4.741-9.061-6.53

The above values were obtained using first alternate conformation only and calculated by 3DNA program.
Xiang-Jun Lu & Wilma K. Olson (2003). '3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures', Nucleic Acids Res.31(17), 5108-21.
Xiang-Jun Lu & Wilma K. Olson (2008). '3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures', Nat Protoc.3(7), 1213-27.