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Conformers: ABBIImiBZICOPNSYNN
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CRYSTAL STRUCTURE OF A GROUP I RIBOZYME DOMAIN: PRINCIPLES OF RNA PACKING

Results of the assignment of 314 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

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Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
step numberStep nameCANANtCconfalrmsd
0011gid_A_G103_A104NANNANT00.52 AA03
0021gid_A_A104_A105NANNANT00.39 BB13
0031gid_A_A105_U106NANNANT00.50 OP17
0041gid_A_U106_U107OPNOP13330.37 OP13
0051gid_A_U107_G108AAAAA00520.25 AA00
0061gid_A_G108_C109AAwAA10470.17 AA10
0071gid_A_C109_G110AAAAA08560.28 AA08
0081gid_A_G110_G111AAAAA00880.22 AA00
0091gid_A_G111_G112AAAAA00790.13 AA00
0101gid_A_G112_A113AAAAA00470.49 AA00
0111gid_A_A113_A114AAuAA12750.37 AA12
0121gid_A_A114_A115AAAAA04170.41 AA04
0131gid_A_A115_G116AAAAA00510.35 AA00
0141gid_A_G116_G117AAAAA00730.18 AA00
0151gid_A_G117_G118AAAAA08870.12 AA08
0161gid_A_G118_G119AAAAA00750.21 AA00
0171gid_A_G119_U120AAAAA08740.30 AA08
0181gid_A_U120_C121AAAAA04560.42 AA04
0191gid_A_C121_A122NANNANT01.03 OP08
0201gid_A_A122_A123NANNANT01.34 OP23
0211gid_A_A123_C124NANNANT00.97 IC04
0221gid_A_C124_A125NANNANT01.00 OP25
0231gid_A_A125_G126NANNANT00.53 OPS1
0241gid_A_G126_C127AAAAA00570.23 AA00
0251gid_A_C127_C128NANNANT00.41 AA04
0261gid_A_C128_G129AAAAA00350.28 AA00
0271gid_A_G129_U130NANNANT01.48 OP14
0281gid_A_U130_U131NANNANT00.89 OP11
0291gid_A_U131_C132AAAAA00500.30 AA00
0301gid_A_C132_A133AAAAA00480.20 AA00
0311gid_A_A133_G134AAAAA00860.19 AA00
0321gid_A_G134_U135AAAAA00830.15 AA00
0331gid_A_U135_A136AAAAA00890.07 AA00
0341gid_A_A136_C137AAAAA04780.22 AA04
0351gid_A_C137_C138A-BAB05720.33 AB05
0361gid_A_C138_A139NANNANT01.46 OP16
0371gid_A_A139_A140AAAAA00480.26 AA00
0381gid_A_A140_G141AAAAA00320.45 AA00
0391gid_A_G141_U142AAAAA00850.17 AA00
0401gid_A_U142_C143AAAAA00810.12 AA00
0411gid_A_C143_U144AAAAA00770.13 AA00
0421gid_A_U144_C145AAAAA00880.16 AA00
0431gid_A_C145_A146AAAAA00910.12 AA00
0441gid_A_A146_G147AAAAA00740.21 AA00
0451gid_A_G147_G148AAAAA00740.17 AA00
0461gid_A_G148_G149AAAAA00710.23 AA00
0471gid_A_G149_G150AAAAA00900.19 AA00
0481gid_A_G150_A151OPNOP03750.15 OP03
0491gid_A_A151_A152AAAAA08820.29 AA08
0501gid_A_A152_A153AAAAA00390.32 AA00
0511gid_A_A153_C154NANNANT00.82 AA04
0521gid_A_C154_U155AAAAA00710.28 AA00
0531gid_A_U155_U156AAAAA00930.12 AA00
0541gid_A_U156_U157AAAAA00740.21 AA00
0551gid_A_U157_G158AAAAA00630.25 AA00
0561gid_A_G158_A159AAAAA00750.18 AA00
0571gid_A_A159_G160AAAAA08950.15 AA08
0581gid_A_G160_A161AAAAA00690.23 AA00
0591gid_A_A161_U162AAAAA00690.26 AA00
0601gid_A_U162_G163AAAAA08580.48 AA08
0611gid_A_G163_G164A-BAB05760.30 AB05
0621gid_A_G164_C165OPNOP12450.40 OP12
0631gid_A_C165_C166AAAAA08780.12 AA08
0641gid_A_C166_U167NANNANT00.31 ZZ01
0651gid_A_U167_U168NANNANT00.59 OP21
0661gid_A_U168_G169NANNANT00.96 OP18
0671gid_A_G169_C170AAAAA00190.37 AA00
0681gid_A_C170_A171NANNANT00.52 AA05
0691gid_A_A171_A172NANNANT00.56 OP26
0701gid_A_A172_A173AAAAA00360.35 AA00
0711gid_A_A173_G174AAAAA00340.35 AA00
0721gid_A_G174_G175AAAAA00820.18 AA00
0731gid_A_G175_G176AAAAA00760.35 AA00
0741gid_A_G176_U177AAAAA00690.30 AA00
0751gid_A_U177_A178OPNOP28360.43 OP28
0761gid_A_A178_U179NANNANT00.59 OP21
0771gid_A_U179_G180NANNANT00.32 OP11
0781gid_A_G180_G181AAwAA01720.14 AA01
0791gid_A_G181_U182A-BAB05370.31 AB05
0801gid_A_U182_A183NANNANT01.02 OP11
0811gid_A_A183_A184AAAAA09330.30 AA09
0821gid_A_A184_U185NANNANT00.46 OP05
0831gid_A_U185_A186NANNANT01.08 OP16
0841gid_A_A186_A187NANNANT00.75 IC07
0851gid_A_A187_G188NANNANT01.45 OPS1
0861gid_A_G188_C189NANNANT01.51 OP16
0871gid_A_C189_U190AAAAA00660.19 AA00
0881gid_A_U190_G191AAAAA00430.34 AA00
0891gid_A_G191_A192AAwAA10350.35 AA10
0901gid_A_A192_C193AAAAA08290.45 AA08
0911gid_A_C193_G194AAAAA08720.17 AA08
0921gid_A_G194_G195AAAAA00550.20 AA00
0931gid_A_G195_A196AAAAA04440.35 AA04
0941gid_A_A196_C197AAAAA08250.38 AA08
0951gid_A_C197_A198NANNANT00.83 OP07
0961gid_A_A198_U199NANNANT01.93 OP05
0971gid_A_U199_G200NANNANT01.10 OPS1
0981gid_A_G200_G201AAAAA0860.43 AA08
0991gid_A_G201_U202AAAAA00560.34 AA00
1001gid_A_U202_C203AAAAA00380.26 AA00
1011gid_A_C203_C204AAAAA00740.21 AA00
1021gid_A_C204_U205AAAAA00770.25 AA00
1031gid_A_U205_A206A-BAB04520.39 AB04
1041gid_A_A206_A207OPNOP15470.49 OP15
1051gid_A_A207_C208AAAAA04150.66 AA04
1061gid_A_C208_C209AAAAA04580.31 AA04
1071gid_A_C209_A210NANNANT00.81 OP30
1081gid_A_A210_C211NANNANT01.10 OP31
1091gid_A_C211_G212AAAAA00580.24 AA00
1101gid_A_G212_C213AAAAA00420.27 AA00
1111gid_A_C213_A214AAAAA00840.28 AA00
1121gid_A_A214_G215AAAAA00820.18 AA00
1131gid_A_G215_C216NANNANT00.36 AA01
1141gid_A_C216_C217NANNANT00.34 AA03
1151gid_A_C217_A218A-BAB05710.29 AB05
1161gid_A_A218_A219NANNANT00.53 OP26
1171gid_A_A219_G220AAAAA00170.44 AA00
1181gid_A_G220_U221AAAAA00510.24 AA00
1191gid_A_U221_C222AAAAA00770.17 AA00
1201gid_A_C222_C223AAAAA04740.28 AA04
1211gid_A_C223_U224AAAAA00800.19 AA00
1221gid_A_U224_A225NANNANT00.45 AB03
1231gid_A_A225_A226NANNANT00.48 OP26
1241gid_A_A226_G227AAAAA04350.52 AA04
1251gid_A_G227_U228AAAAA00840.19 AA00
1261gid_A_U228_C229AAAAA00810.09 AA00
1271gid_A_C229_A230AAAAA00950.14 AA00
1281gid_A_A230_A231AAAAA00960.10 AA00
1291gid_A_A231_C232AAAAA04600.26 AA04
1301gid_A_C232_A233AAAAA08350.25 AA08
1311gid_A_A233_G234NANNANT00.31 AA03
1321gid_A_G234_A235NANNANT00.38 AA10
1331gid_A_A235_U236NANNANT00.68 OP04
1341gid_A_U236_C237NANNANT01.56 OP03
1351gid_A_C237_U238NANNANT00.99 IC03
1361gid_A_U238_U239NANNANT01.92 OP16
1371gid_A_U239_C240AAwAA06570.44 AA06
1381gid_A_C240_U241AAAAA08720.21 AA08
1391gid_A_U241_G242AAAAA00790.17 AA00
1401gid_A_G242_U243AAAAA00800.16 AA00
1411gid_A_U243_U244AAAAA00570.26 AA00
1421gid_A_U244_G245AAAAA08840.14 AA08
1431gid_A_G245_A246AAAAA08850.16 AA08
1441gid_A_A246_U247AAAAA00770.25 AA00
1451gid_A_U247_A248NANNANT00.42 IC01
1461gid_A_A248_U249NANNANT01.50 AA12
1471gid_A_U249_G250NANNANT01.12 AA12
1481gid_A_G250_G251AAwAA01750.20 AA01
1491gid_A_G251_A252AAAAA08760.17 AA08
1501gid_A_A252_U253AAAAA00810.30 AA00
1511gid_A_U253_G254OPNOP02420.46 OP02
1521gid_A_G254_C255AAAAA00370.31 AA00
1531gid_A_C255_A256AAAAA00370.48 AA00
1541gid_A_A256_G257AAAAA08500.40 AA08
1551gid_A_G257_U258AAuAA12400.39 AA12
1561gid_A_U258_U259AAAAA00220.47 AA00
1571gid_A_U259_C260AAAAA08800.27 AA08
1581gid_B_G103_A104AAAAA00540.46 AA00
1591gid_B_A104_A105NANNANT00.44 AA10
1601gid_B_A105_U106NANNANT00.47 OP17
1611gid_B_U106_U107NANNANT00.93 OP13
1621gid_B_U107_G108AAAAA00650.22 AA00
1631gid_B_G108_C109AAwAA10380.20 AA10
1641gid_B_C109_G110AAAAA08560.30 AA08
1651gid_B_G110_G111AAAAA00900.22 AA00
1661gid_B_G111_G112AAAAA00780.11 AA00
1671gid_B_G112_A113AAAAA00550.36 AA00
1681gid_B_A113_A114AAuAA12610.44 AA12
1691gid_B_A114_A115AAAAA08860.27 AA08
1701gid_B_A115_G116AAAAA00860.24 AA00
1711gid_B_G116_G117AAAAA00930.13 AA00
1721gid_B_G117_G118AAAAA00930.11 AA00
1731gid_B_G118_G119AAwAA01520.37 AA01
1741gid_B_G119_U120AAAAA08700.48 AA08
1751gid_B_U120_C121AAAAA00600.27 AA00
1761gid_B_C121_A122NANNANT00.58 IC03
1771gid_B_A122_A123NANNANT01.54 BB07
1781gid_B_A123_C124NANNANT00.78 BA16
1791gid_B_C124_A125NANNANT00.94 OP07
1801gid_B_A125_G126NANNANT00.92 OPS1
1811gid_B_G126_C127AAAAA00750.30 AA00
1821gid_B_C127_C128AAAAA00260.32 AA00
1831gid_B_C128_G129AAAAA04560.28 AA04
1841gid_B_G129_U130NANNANT01.65 OP18
1851gid_B_U130_U131NANNANT01.11 OP11
1861gid_B_U131_C132AAAAA00360.21 AA00
1871gid_B_C132_A133AAAAA00770.17 AA00
1881gid_B_A133_G134AAAAA00800.11 AA00
1891gid_B_G134_U135AAAAA00880.09 AA00
1901gid_B_U135_A136AAAAA00900.08 AA00
1911gid_B_A136_C137AAAAA00580.28 AA00
1921gid_B_C137_C138A-BAB05720.32 AB05
1931gid_B_C138_A139NANNANT01.45 OP16
1941gid_B_A139_A140AAAAA00570.26 AA00
1951gid_B_A140_G141AAAAA00290.44 AA00
1961gid_B_G141_U142AAAAA00870.17 AA00
1971gid_B_U142_C143AAAAA00930.13 AA00
1981gid_B_C143_U144AAAAA00780.13 AA00
1991gid_B_U144_C145AAAAA00860.16 AA00
2001gid_B_C145_A146AAAAA00910.12 AA00
2011gid_B_A146_G147AAAAA00730.21 AA00
2021gid_B_G147_G148AAAAA00730.17 AA00
2031gid_B_G148_G149AAAAA00710.28 AA00
2041gid_B_G149_G150AAAAA00880.19 AA00
2051gid_B_G150_A151OPNOP03730.16 OP03
2061gid_B_A151_A152AAAAA08810.30 AA08
2071gid_B_A152_A153AAAAA00490.32 AA00
2081gid_B_A153_C154NANNANT00.84 AA04
2091gid_B_C154_U155AAAAA00890.21 AA00
2101gid_B_U155_U156AAAAA00960.12 AA00
2111gid_B_U156_U157AAAAA00710.20 AA00
2121gid_B_U157_G158AAAAA00640.24 AA00
2131gid_B_G158_A159AAAAA00720.18 AA00
2141gid_B_A159_G160AAAAA08950.15 AA08
2151gid_B_G160_A161AAAAA00680.23 AA00
2161gid_B_A161_U162AAAAA00690.26 AA00
2171gid_B_U162_G163AAAAA00390.51 AA00
2181gid_B_G163_G164A-BAB05730.30 AB05
2191gid_B_G164_C165OPNOP12390.46 OP12
2201gid_B_C165_C166AAAAA08770.13 AA08
2211gid_B_C166_U167NANNANT00.30 ZZ01
2221gid_B_U167_U168NANNANT00.58 OP21
2231gid_B_U168_G169NANNANT00.96 OP18
2241gid_B_G169_C170AAAAA00150.38 AA00
2251gid_B_C170_A171NANNANT00.51 AA05
2261gid_B_A171_A172NANNANT00.55 OP26
2271gid_B_A172_A173AAAAA00230.37 AA00
2281gid_B_A173_G174AAAAA00390.34 AA00
2291gid_B_G174_G175AAAAA00850.18 AA00
2301gid_B_G175_G176AAAAA00820.34 AA00
2311gid_B_G176_U177AAAAA00670.31 AA00
2321gid_B_U177_A178NANNANT02.48 OP18
2331gid_B_A178_U179NANNANT00.74 OP21
2341gid_B_U179_G180NANNANT00.32 OP11
2351gid_B_G180_G181AAwAA01760.13 AA01
2361gid_B_G181_U182A-BAB05290.32 AB05
2371gid_B_U182_A183NANNANT01.00 OP11
2381gid_B_A183_A184AAAAA09370.29 AA09
2391gid_B_A184_U185NANNANT00.46 OP05
2401gid_B_U185_A186NANNANT01.08 OP16
2411gid_B_A186_A187NANNANT00.74 IC07
2421gid_B_A187_G188NANNANT01.44 OPS1
2431gid_B_G188_C189NANNANT01.41 OP16
2441gid_B_C189_U190AAAAA00750.17 AA00
2451gid_B_U190_G191AAAAA00800.17 AA00
2461gid_B_G191_A192AAAAA00670.28 AA00
2471gid_B_A192_C193AAAAA08620.24 AA08
2481gid_B_C193_G194AAAAA00760.12 AA00
2491gid_B_G194_G195AAAAA00690.32 AA00
2501gid_B_G195_A196AAAAA00400.24 AA00
2511gid_B_A196_C197AAAAA00830.18 AA00
2521gid_B_C197_A198NANNANT00.59 AA07
2531gid_B_A198_U199NANNANT02.05 OP06
2541gid_B_U199_G200NANNANT00.69 OP11
2551gid_B_G200_G201AAAAA08190.37 AA08
2561gid_B_G201_U202AAAAA00580.33 AA00
2571gid_B_U202_C203AAAAA00550.19 AA00
2581gid_B_C203_C204AAAAA00780.15 AA00
2591gid_B_C204_U205AAAAA00830.28 AA00
2601gid_B_U205_A206AAAAA08290.45 AA08
2611gid_B_A206_A207AAuAA12650.49 AA12
2621gid_B_A207_C208AAAAA08270.67 AA08
2631gid_B_C208_C209AAAAA04390.41 AA04
2641gid_B_C209_A210NANNANT00.85 OP29
2651gid_B_A210_C211NANNANT01.11 OP11
2661gid_B_C211_G212AAAAA00520.28 AA00
2671gid_B_G212_C213AAAAA04680.34 AA04
2681gid_B_C213_A214AAAAA00870.27 AA00
2691gid_B_A214_G215AAAAA00620.16 AA00
2701gid_B_G215_C216AAAAA00580.23 AA00
2711gid_B_C216_C217AAAAA00120.33 AA00
2721gid_B_C217_A218A-BAB05600.36 AB05
2731gid_B_A218_A219NANNANT00.53 OP15
2741gid_B_A219_G220AAAAA00210.45 AA00
2751gid_B_G220_U221AAAAA00440.24 AA00
2761gid_B_U221_C222AAAAA00750.17 AA00
2771gid_B_C222_C223AAAAA04770.29 AA04
2781gid_B_C223_U224AAAAA00720.19 AA00
2791gid_B_U224_A225NANNANT00.45 AB03
2801gid_B_A225_A226OPNOP26320.47 OP26
2811gid_B_A226_G227AAAAA04420.52 AA04
2821gid_B_G227_U228AAAAA00850.19 AA00
2831gid_B_U228_C229AAAAA00840.09 AA00
2841gid_B_C229_A230AAAAA00950.14 AA00
2851gid_B_A230_A231AAAAA00950.10 AA00
2861gid_B_A231_C232AAAAA04620.26 AA04
2871gid_B_C232_A233AAAAA08300.26 AA08
2881gid_B_A233_G234NANNANT00.32 AA03
2891gid_B_G234_A235NANNANT00.38 AA10
2901gid_B_A235_U236NANNANT00.69 OP04
2911gid_B_U236_C237NANNANT01.56 OP03
2921gid_B_C237_U238NANNANT00.98 IC03
2931gid_B_U238_U239NANNANT01.92 OP16
2941gid_B_U239_C240AAwAA06580.43 AA06
2951gid_B_C240_U241AAAAA08750.20 AA08
2961gid_B_U241_G242AAAAA00750.17 AA00
2971gid_B_G242_U243AAAAA00800.15 AA00
2981gid_B_U243_U244AAAAA00520.26 AA00
2991gid_B_U244_G245AAAAA08850.15 AA08
3001gid_B_G245_A246AAAAA08820.17 AA08
3011gid_B_A246_U247AAAAA00820.24 AA00
3021gid_B_U247_A248NANNANT00.52 IC02
3031gid_B_A248_U249NANNANT01.50 AA12
3041gid_B_U249_G250NANNANT01.13 AA12
3051gid_B_G250_G251AAwAA01800.18 AA01
3061gid_B_G251_A252AAAAA08760.19 AA08
3071gid_B_A252_U253AAAAA00870.29 AA00
3081gid_B_U253_G254OPNOP02450.45 OP02
3091gid_B_G254_C255AAAAA00450.31 AA00
3101gid_B_C255_A256AAAAA00280.54 AA00
3111gid_B_A256_G257AAAAA08800.34 AA08
3121gid_B_G257_U258AAwAA01140.62 AA01
3131gid_B_U258_U259AAAAA08570.35 AA08
3141gid_B_U259_C260AAAAA00250.34 AA00

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Definition of torsion angles
step:
Table of conformers

δ1ε1ζ1α2β2γ2δ2χ1χ2μNNCC
step_torsions
ntC_average
Δ torsions
torsion scores

commentsstep confal = NaN
cartesian RMSD = NaN Å
pseudorotation: NA
details: NA
Similarity of step to class averages

Download

Results as csv or json file.
Best NtC fitted to input structure.

Restraints

Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]

Definitions

Average parameters (csv), esd values (csv), and Cartesian coordinates of conformers.

Download the papers

Description of DNATCO server:
Černý et al., Nucleic Acids Research, 44, W284 (2016).
Definition of conformers:
Schneider et al., Acta Cryst D, 74, 52-64 (2018).
Example of application:
Schneider et al., Genes, 8(10), 278, (2017).

Browse conformers

Return up to random steps in PDB structures ( include large structures )

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