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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.

©Jiří Černý & Bohdan Schneider

Crystal Structure of E. coli 5-methyluridine methyltransferase RumA in complex with ribosomal RNA substrate and S-adenosylhomocysteine.

Results of the assignment of 54 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 JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
012bh2_C_A1932_G1933AAAAA08700.45AA08
022bh2_C_G1933_C1934AAAAA00470.36AA00
032bh2_C_C1934_G1935AAAAA08690.38AA08
042bh2_C_G1935_A1936AAAAA08520.22AA08
052bh2_C_A1936_A1937NANNANT02.27IC04
062bh2_C_A1937_A1938NANNANT01.11OP06
072bh2_C_U1940_C1941AAAAA00740.30AA00
082bh2_C_C1941_C1942AAAAA08400.60AA08
092bh2_C_C1942_U1943NANNANT00.81OP06
102bh2_C_U1943_U1944NANNANT01.29OP17
112bh2_C_U1944_G1945AAAAA08400.35AA08
122bh2_C_G1945_U1946AAAAA00860.09AA00
132bh2_C_U1946_C1947AAAAA00750.11AA00
142bh2_C_C1947_G1948AAAAA00730.15AA00
152bh2_C_G1948_G1949AAAAA00710.19AA00
162bh2_C_G1949_G1950AAAAA00620.34AA00
172bh2_C_G1950_U1951AAAAA08640.24AA08
182bh2_C_U1951_A1952NANNANT00.72OP09
192bh2_C_A1952_A1953NANNANT00.72OP14
202bh2_C_A1953_G1954NANNANT00.68OP20
212bh2_C_G1954_U1955NANNANT01.23BB10
222bh2_C_U1955_U1956A-BAB04290.57AB04
232bh2_C_U1956_C1957OPNOP12270.58OP12
242bh2_C_C1957_C1958AAAAA08720.18AA08
252bh2_C_C1958_G1959AAAAA03620.24AA03
262bh2_C_G1959_A1960AAAAA00640.19AA00
272bh2_C_A1960_C1961AAAAA00770.12AA00
282bh2_D_A1932_G1933AAAAA00780.25AA00
292bh2_D_G1933_C1934AAAAA08620.37AA08
302bh2_D_C1934_G1935AAAAA08630.39AA08
312bh2_D_G1935_A1936AAAAA08790.20AA08
322bh2_D_A1936_A1937NANNANT00.82OP30
332bh2_D_A1937_A1938NANNANT01.20OP06
342bh2_D_U1940_C1941AAAAA04860.28AA04
352bh2_D_C1941_C1942AAAAA08280.62AA08
362bh2_D_C1942_U1943NANNANT00.96OP01
372bh2_D_U1943_U1944NANNANT01.27OP17
382bh2_D_U1944_G1945NANNANT00.56AA08
392bh2_D_G1945_U1946AAAAA00260.32AA00
402bh2_D_U1946_C1947AAAAA08380.29AA08
412bh2_D_C1947_G1948AAAAA04850.22AA04
422bh2_D_G1948_G1949AAAAA00600.25AA00
432bh2_D_G1949_G1950AAAAA04810.28AA04
442bh2_D_G1950_U1951AAAAA08600.25AA08
452bh2_D_U1951_A1952NANNANT00.85OP09
462bh2_D_A1952_A1953NANNANT01.95OP06
472bh2_D_A1953_G1954NANNANT00.72OP20
482bh2_D_G1954_U1955OPNOP15350.52OP15
492bh2_D_U1955_U1956NANNANT00.54AB04
502bh2_D_U1956_C1957OPNOP12460.49OP12
512bh2_D_C1957_C1958AAAAA00660.19AA00
522bh2_D_C1958_G1959AAAAA00750.14AA00
532bh2_D_G1959_A1960NANNANT00.56AA10
542bh2_D_A1960_C1961AAAAA08380.37AA08

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.
Restraints file for Phenix (steps with RMSD <= 0.5Å)
Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Best NtC fitted to input structure.

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).

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