A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 11-Dec-2019 number of released structures: 10507
Search for released structures

NDB ID: NA3317  PDB ID: 3X1S 


Base Pair Morphology Step Parameters

CSV Format

Model NumberStep NumberStep NameShiftSlideRiseTiltRollTwistX-DisplacementY-DisplacementHelical RiseInclinationTipHelical Twist
11II_DA1DT2:DA291DT292_JJ-0.541-0.3422.9991.767-5.20333.5740.181.1842.985-8.934-3.03434.008
14II_DA4DA5:DT288DT289_JJ0.0940.3663.1280.088-0.89341.6530.605-0.1233.12-1.256-0.12341.662
15II_DA5DT6:DA287DT288_JJ0.245-0.1043.1620.5332.45730.722-0.659-0.3613.1484.628-1.00530.822
17II_DA7DC9:DG284DT286_JJ0.243-0.4536.4555.755-6.59568.6260.0790.2036.471-5.825-5.08469.114
115II_DA17DG18:DC275DT276_JJ0.6740.6533.084-5.4567.87132.955-0.068-1.9583.00913.5239.37334.281
117II_DA19DT20:DA273DT274_JJ-0.973-0.7273.362-3.518-4.99237.122-0.4411.0253.501-7.7765.48137.604
122II_DA24DC25:DG268DT269_JJ0.012-0.5073.688-3.762.81236.481-1.234-0.5933.6214.475.97536.772
125II_DA27DA28:DT265DT266_JJ0.6690.153.098-1.463-4.09740.4020.645-1.1163.044-5.9112.11140.626
126II_DA28DA29:DT264DT265_JJ-0.932-0.1883.6363.223-4.5435.1310.4222.0443.535-7.464-5.29935.556
127II_DA29DA30:DT263DT264_JJ0.5-0.2823.929.995-1.5735.916-0.1870.8383.924-2.486-15.82637.269
128II_DA30DG31:DC262DT263_JJ0.26-0.1893.135-12.7727.1935.409-1.143-1.9142.79311.24519.97538.232
132II_DA35DT36:DA257DT258_JJ-0.228-0.8263.281-5.129-9.25730.7510.222-0.5333.376-16.8439.33232.48
137II_DA41DA42:DT251DT252_JJ1.116-0.2233.4240.89417.42234.664-2.567-1.573.00727.213-1.39638.685
138II_DA42DA43:DT250DT251_JJ0.089-0.313.503-4.6736.83536.158-1.46-0.8053.35410.8387.4137.063
139II_DA43DC44:DG249DT250_JJ1.722-1.1653.6817.3181.2627.103-2.752-1.5053.9442.627-15.25528.083
147II_DA51DT52:DA241DT242_JJ-1.811-0.5843.8297.67218.41823.85-4.8044.9332.17737.3-15.53731.002
150II_DA55DA56:DT237DT238_JJ-0.5360.8173.4473.6512.45733.322-0.6381.4523.44820.77-6.08735.694
154II_DA61DT62:DA231DT232_JJ-0.242-0.3143.3363.29512.76632.243-2.4790.9092.96621.88-5.64734.768
160II_DA67DG68:DC225DT226_JJ1.1120.9043.9068.772-0.49641.8281.303-0.4474.038-0.686-12.12642.7
165II_DA72DA73:DT220DT221_JJ-0.006-0.4473.5943.9556.82731.161-2.1370.783.39612.46-7.21832.12
166II_DA73DT74:DA219DT220_JJ-0.157-0.4933.327-3.0695.28931.17-1.88-0.2813.2029.7255.64331.75
170II_DA77DG78:DC215DT216_JJ1.6120.8253.5163.48-10.439.82.368-1.8893.331-14.936-4.99741.224
175II_DA82DA83:DT210DT211_JJ-0.502-0.1923.015-5.774.97236.489-0.9140.0733.0067.8369.09337.249
176II_DA83DC84:DG209DT210_JJ0.431-1.1793.208-2.3441.69327.0-2.922-1.4863.0823.6145.00127.152
178II_DA85DT86:DA207DT208_JJ-0.032-0.4723.118-0.7110.71433.612-0.928-0.0553.1071.2341.22933.626
188II_DA95DT96:DA197DT198_JJ-0.796-0.9673.535-2.765-1.4328.429-1.6020.9223.638-2.95.6128.595
192II_DA99DG100:DC193DT194_JJ2.591.1653.17-1.057-5.68839.7832.3-3.8822.916-8.3051.54440.185
1101II_DA109DA110:DT183DT184_JJ0.706-0.3362.98-0.6751.62434.927-0.781-1.2682.9482.7041.12434.97
1102II_DA110DA111:DT182DT183_JJ-0.219-0.3673.236-4.065-2.63936.279-0.222-0.2093.258-4.2166.49336.591
1103II_DA111DT112:DA181DT182_JJ0.007-1.0043.6516.461-4.87629.448-0.7991.4553.684-9.372-12.41830.517
1105II_DA113DA115:DT178DT180_JJ-0.622-1.2986.7030.45517.98860.825-2.8430.6346.13917.362-0.4463.186
1106II_DA115DC116:DG177DT178_JJ0.522-0.2843.08-1.329-0.48332.558-0.428-1.1473.061-0.8612.36832.588
1112II_DA124DG125:DC168DA170_JJ2.225-1.386.1023.88518.7545.47-4.235-2.1425.33923.089-4.78449.14
1114II_DA126DT128:DA165DT167_JJ-0.335-0.3926.216-5.154-14.12878.7130.415-0.0026.215-11.0464.0379.907
1120II_DA139DT140:DA153DT154_JJ-0.096-1.383.451-1.048-5.54435.227-1.379-0.0083.621-9.0891.71835.662
1122II_DA141DT142:DA151DT152_JJ1.059-0.3192.9715.653-3.36626.3370.125-0.9033.141-7.244-12.16727.132
13II_DC3DA4:DT289DG290_JJ-1.110.4153.7192.25-1.35138.2260.8232.0093.634-2.06-3.43138.313
18II_DC9DC10:DG283DG284_JJ0.79-0.6833.167-2.96713.22222.68-4.683-2.4452.30430.3856.81826.374
19II_DC10DC12:DG281DG283_JJ0.3030.3486.517-3.573.7672.8950.049-0.4856.5083.1613.00173.054
110II_DC12DC13:DG280DG281_JJ1.162-0.643.455-0.3417.82725.596-4.608-2.2332.48135.2980.67431.109
111II_DC13DT14:DA279DG280_JJ-1.0981.5272.9824.65712.26945.120.9461.7493.15115.604-5.92346.894
114II_DC16DA17:DT276DG277_JJ1.5352.6723.7013.773-8.94138.3395.073-1.7993.156-13.355-5.63539.504
120II_DC22DT23:DA270DG271_JJ-0.3340.4773.3199.75115.65835.265-1.1971.6763.06623.933-14.90439.662
123II_DC25DC26:DG267DG268_JJ1.599-0.0672.8238.662.5422.891-0.902-1.223.186.105-20.81224.584
124II_DC26DA27:DT266DG267_JJ-1.5383.9243.524-5.434-26.71858.8474.6841.2421.887-25.7475.23764.34
140II_DC44DT45:DA248DG249_JJ-0.8710.6342.9939.67812.15929.451-0.7573.0092.6422.086-17.57933.219
143II_DC47DT48:DA245DG246_JJ1.0391.1883.3073.645-4.74644.2931.999-1.0323.241-6.26-4.80844.676
145II_DC49DC50:DG243DG244_JJ0.6831.7652.41610.5869.4440.4421.64-0.0612.82613.176-14.77642.758
146II_DC50DA51:DT242DG243_JJ-0.710.5753.47-23.63113.00826.187-1.148-2.6093.08722.48840.85437.425
149II_DC53DA55:DT238DG240_JJ-0.8281.1426.059-1.51223.84962.536-0.7960.6396.1222.1371.40466.512
153II_DC60DA61:DT232DG233_JJ-0.140.4913.6156.89211.41827.857-1.5981.7853.42122.179-13.38830.828
159II_DC66DA67:DT226DG227_JJ-2.0271.4253.6750.439-7.13443.7722.612.7313.395-9.494-0.58444.324
162II_DC69DT70:DA223DG224_JJ-0.3271.333.633-2.146-3.83242.4942.2470.2133.517-5.272.95142.71
169II_DC76DA77:DT216DG217_JJ-1.6882.013.179-4.513-4.23147.7942.7831.7253.138-5.1975.54348.17
172II_DC79DT80:DA213DG214_JJ1.0621.0723.46210.464-8.98836.8972.735-0.253.294-13.63-15.86839.307
177II_DC84DA85:DT208DG209_JJ-0.4280.6033.5619.161.81536.8040.6781.9223.3872.819-14.22937.93
181II_DC88DC89:DG204DG205_JJ0.4690.8313.2154.815-6.43439.3951.92-0.1513.081-9.425-7.05440.174
182II_DC89DT90:DA203DG204_JJ-0.7461.3293.481-1.332-12.00339.1893.230.9192.987-17.41.93140.937
194II_DC101DG103:DC190DG192_JJ0.757-0.196.796-4.7787.84272.331-0.69-0.966.6956.6184.03272.832
199II_DC107DC108:DG185DG186_JJ-0.9020.8082.30213.429-5.74941.8841.4212.0121.823-7.764-18.13644.25
1100II_DC108DA109:DT184DG185_JJ0.3622.3873.773-0.787-15.08744.9784.254-0.5182.869-19.0940.99647.323
1107II_DC116DT117:DA176DG177_JJ-0.086-0.4594.348-3.8713.01337.028-1.244-0.5424.2864.7186.06337.34
113II_DG15DC16:DG277DC278_JJ-0.8121.2452.021.1241.238.1421.8091.3292.0331.836-1.7238.176
116II_DG18DA19:DT274DC275_JJ-0.2140.0573.222-0.669-0.66637.6430.1740.2463.224-1.0321.03637.654
129II_DG31DT32:DA261DC262_JJ-0.02-0.3442.8918.5260.05129.391-0.6621.5312.7760.098-16.37430.577
131II_DG33DA35:DT258DC260_JJ-0.513-0.5657.03-6.2130.62676.538-0.4940.0247.0450.5045.00876.754
136II_DG39DA41:DT252DC254_JJ-1.6921.0016.591-5.49111.79468.7430.0051.0736.76710.3514.81969.814
142II_DG46DC47:DG246DC247_JJ-0.9290.6992.927-6.332-13.19528.4593.3840.6752.513-24.86911.93431.933
151II_DG58DG59:DC234DC235_JJ0.2060.7542.783-8.116-5.70438.0481.685-1.1082.553-8.57212.19839.274
152II_DG59DC60:DG233DC234_JJ0.370.7273.4182.044-12.35142.4252.148-0.2973.113-16.637-2.75444.152
156II_DG63DT64:DA229DC230_JJ-0.696-0.7973.3316.0114.12630.615-2.2292.3893.0137.679-11.18531.451
161II_DG68DC69:DG224DC225_JJ-0.2581.1892.698-6.365-7.5730.3883.249-0.4442.346-13.98411.75731.921
164II_DG71DA72:DT221DC222_JJ-1.0850.0962.988-7.8746.62528.769-1.0860.5543.11512.82715.24430.518
171II_DG78DC79:DG214DC215_JJ-1.1840.9843.406-6.972-6.09937.8852.2520.8873.372-9.22610.54638.961
174II_DG81DA82:DT211DC212_JJ-0.551-0.13.53.1338.33833.909-1.4951.4153.3213.999-5.2635.026
180II_DG87DC88:DG205DC206_JJ-1.5730.9343.56-15.904-12.38141.6272.4110.4483.513-16.32320.96846.054
187II_DG94DA95:DT198DC199_JJ0.438-0.2652.856-5.0954.6730.38-1.258-1.652.6798.779.56631.139
190II_DG97DG98:DC195DC196_JJ0.9290.5683.9913.2785.54839.1010.0470.4964.1217.969-19.07241.568
191II_DG98DA99:DT194DC195_JJ-1.3321.6432.947-15.35-10.87444.3782.8050.5282.787-13.6919.32548.014
193II_DG100DC101:DG192DC193_JJ-2.0690.0113.2623.163-2.43626.4790.635.2562.986-5.28-6.85626.773
195II_DG103DT104:DA189DC190_JJ-0.613-0.933.316-5.1410.9130.338-1.9350.1243.3431.7249.73430.774
1113II_DG125DA126:DT167DC168_JJ-0.748-0.3533.302-1.27814.90335.251-2.4130.9822.94623.3542.00338.2
1116II_DG134DG135:DC158DC159_JJ0.225-0.0743.134-7.8969.54532.558-1.508-1.5222.87116.30813.49134.775
1117II_DG135DG137:DC156DC158_JJ-0.7640.4166.2743.7439.50765.929-0.3450.9816.238.681-3.41866.628
1118II_DG137DG138:DC155DC156_JJ0.137-0.0293.229-3.81110.21930.6-1.821-0.9063.02518.6366.9532.442
1119II_DG138DA139:DT154DC155_JJ-1.6290.7463.371-8.593-9.73242.9551.9151.3123.383-12.94111.42644.785
1125II_DG144DA145:DA147DC149_JJ-0.413-1.5252.856-8.401-6.96563.997-1.1580.0663.018-6.5227.86664.823
12II_DT2DC3:DG290DA291_JJ0.423-0.0553.193-4.3833.75728.798-0.888-1.7463.0657.468.70229.359
16II_DT6DA7:DT286DA287_JJ-0.8080.1443.696-1.431-0.06237.4710.2331.0453.723-0.0962.22637.498
112II_DT14DG15:DC278DA279_JJ0.0242.6974.2256.178-5.32440.3744.5520.7973.818-7.62-8.84241.155
118II_DT20DT21:DA272DA273_JJ0.65-0.3513.286-0.781-3.72237.729-0.06-1.1013.291-5.7371.20437.913
119II_DT21DC22:DG271DA272_JJ0.02-0.2162.792.915.7134.776-1.0710.3322.7149.454-4.81835.344
121II_DT23DA24:DT269DA270_JJ-0.8161.2863.584-17.9042.59834.4651.563-1.3453.6454.05827.96138.797
130II_DT32DG33:DC260DA261_JJ0.678-0.0623.7350.78623.01733.847-3.02-0.8743.10234.967-1.19440.749
133II_DT36DT37:DA256DA257_JJ-0.771-0.6743.1811.041-4.99334.953-0.3841.4233.22-8.258-1.72235.311
134II_DT37DT38:DA255DA256_JJ-0.4070.0743.4613.608-4.75941.3730.6290.9693.387-6.694-5.07441.783
135II_DT38DG39:DC254DA255_JJ1.172.6063.1341.542-9.03337.3474.945-1.6112.505-13.853-2.36438.415
141II_DT45DG46:DC247DA248_JJ-0.8951.6472.991-7.33611.27439.6531.1160.4783.42216.06910.45641.785
144II_DT48DC49:DG244DA245_JJ-0.4340.6912.8783.2492.70637.160.7631.0532.8724.23-5.07837.391
148II_DT52DC53:DG240DA241_JJ1.9390.5553.267-0.5571.54427.910.784-4.1463.2543.1971.15427.957
155II_DT62DG63:DC230DA231_JJ0.2860.9633.56-17.3212.30638.8151.076-2.3083.2073.27524.60342.428
157II_DT64DT65:DA228DA229_JJ0.438-0.2053.2663.8344.70934.017-1.075-0.1433.2387.971-6.4934.539
158II_DT65DC66:DG227DA228_JJ1.5630.0713.606-0.5422.92530.958-0.482-3.0293.5715.4641.01231.097
163II_DT70DG71:DC222DA223_JJ1.131.2583.1973.9929.19738.7160.742-1.1763.4913.597-5.90239.945
167II_DT74DT75:DA218DA219_JJ0.113-0.5323.2453.8379.5931.064-2.5580.4452.94817.317-6.92832.696
168II_DT75DC76:DG217DA218_JJ0.8820.2853.511-2.3248.35527.809-1.403-2.3023.36916.8714.69329.105
173II_DT80DG81:DC212DA213_JJ-0.1880.6473.449-9.5555.24738.3150.296-0.9183.4537.80314.21139.779
179II_DT86DG87:DC206DA207_JJ1.2260.5313.92810.44113.41832.247-1.574-0.0794.03122.327-17.37336.349
183II_DT90DT91:DA202DA203_JJ0.6090.3273.7720.0332.35534.630.13-1.0153.7863.95-0.05534.708
184II_DT91DT92:DA201DA202_JJ0.750.183.0060.12211.74230.787-1.552-1.3052.88321.175-0.2232.9
185II_DT92DT93:DA200DA201_JJ-0.2190.4823.046-0.6813.27431.244-1.2340.273.00323.3661.19833.888
186II_DT93DG94:DC199DA200_JJ0.608-0.2593.8583.81811.67328.179-3.197-0.2633.52722.662-7.41230.689
189II_DT96DG97:DC196DA197_JJ-0.074-0.3722.7799.0727.86134.779-1.491.1542.54212.693-14.64836.732
196II_DT104DT105:DA188DA189_JJ0.372-0.453.3712.5633.37441.071-1.011-0.2453.3414.794-3.64141.279
197II_DT105DT106:DA187DA188_JJ-0.056-0.3642.89915.5325.41634.293-1.1691.8342.5578.599-24.66237.927
198II_DT106DC107:DG186DA187_JJ0.6261.0184.099-10.6734.91827.3620.697-4.0133.7239.84121.35629.735
1104II_DT112DA113:DT180DA181_JJ-0.53-0.5073.445-6.559.89338.945-1.8840.03.2714.4369.55840.645
1108II_DT117DT118:DA175DA176_JJ-0.825-0.2823.407-5.128-4.92337.8730.2210.5743.493-7.5047.81738.511
1109II_DT118DT119:DA174DA175_JJ-0.26-0.2843.3052.575-10.21634.3951.030.7983.229-16.794-4.23335.926
1110II_DT119DT120:DA173DA174_JJ-0.5320.3333.0882.463-7.80745.7031.0390.872.965-9.957-3.14246.392
1111II_DT120DG121:DC172DA173_JJ2.5032.7932.93-3.661-18.8551.9623.838-2.8631.73-20.7264.02655.164
1115II_DT128DT130:DA163DA165_JJ-1.0972.3086.11812.69814.34575.5111.0611.5676.19211.538-10.21377.551
1121II_DT140DA141:DT152DA153_JJ0.0-0.1393.617-0.5795.23244.041-0.721-0.0593.5786.9470.76944.339
1123II_DT142DT143:DA150DA151_JJ-0.0050.52.8833.8682.83937.3420.4480.4532.8974.412-6.01137.638
1124II_DT143DG144:DC149DA150_JJ0.026-0.2414.2020.11614.71132.173-3.175-0.023.74324.979-0.19735.296

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.