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Conformers: ABBIImiBZICOPNSYNN
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STRUCTURE OF THE HOLLIDAY JUNCTION INTERMEDIATE IN CRE-LOXP SITE-SPECIFIC RECOMBINATION

Results of the assignment of 65 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
012crx_C_DT1_DA2NANNANT00.86 BB11
022crx_C_DA2_DT3BBwBB02420.26 BB02
032crx_C_DT3_DA4B12BB04410.39 BB04
042crx_C_DA4_DA5BBBBB00790.38 BB00
052crx_C_DA5_DC6NANNANT00.60 BB02
062crx_C_DC6_DT7BBBBB00440.38 BB00
072crx_C_DT7_DT8BBBBB00830.14 BB00
082crx_C_DT8_DC9miBBB15690.25 BB15
092crx_C_DC9_DG10B12BB04920.14 BB04
102crx_C_DG10_DT11B12BB04870.18 BB04
112crx_C_DT11_DA12BBBBB00820.19 BB00
122crx_C_DA12_DT13BBBBB00910.22 BB00
132crx_C_DT13_DA14B12BB04520.22 BB04
142crx_C_DA14_DG15BBBBB00410.30 BB00
152crx_C_DC16_DA17NANNANT00.65 BA17
162crx_C_DA17_DT18BBBBB00860.27 BB00
172crx_C_DT18_DA19NANNANT00.81 OP31
182crx_C_DA19_DT20BBBBB00800.15 BB00
192crx_C_DT20_DG21B12BB04740.20 BB04
202crx_C_DG21_DC22B12BB04560.25 BB04
212crx_C_DC22_DT23BBBBB00920.20 BB00
222crx_C_DT23_DA24B12BB04760.15 BB04
232crx_C_DA24_DT25BBBBB00660.27 BB00
242crx_C_DT25_DA26BBwBB02270.37 BB02
252crx_C_DA26_DC27BBBBB00530.39 BB00
262crx_C_DC27_DG28BB2BB07540.30 BB07
272crx_C_DG28_DA29BBBBB00540.30 BB00
282crx_C_DA29_DA30BB2BB07490.24 BB07
292crx_C_DA30_DG31BBBBB00750.23 BB00
302crx_C_DG31_DT32BBBBB00880.24 BB00
312crx_C_DT32_DT33B12BB04790.31 BB04
322crx_C_DT33_DA34B12BB04440.27 BB04
332crx_C_DA34_DT35BBwBB11750.19 BB11
342crx_D_DA2_DT3BBBBB00710.31 BB00
352crx_D_DT3_DA4BB2BB07430.26 BB07
362crx_D_DA4_DA5BBBBB00630.38 BB00
372crx_D_DA5_DC6NANNANT00.69 BB02
382crx_D_DC6_DT7BBBBB00350.41 BB00
392crx_D_DT7_DT8BBBBB00950.10 BB00
402crx_D_DT8_DC9BBwBB02800.13 BB02
412crx_D_DC9_DG10BBBBB00950.15 BB00
422crx_D_DG10_DT11BBBBB00810.21 BB00
432crx_D_DT11_DA12B12BB04650.17 BB04
442crx_D_DA12_DT13BBBBB00690.30 BB00
452crx_D_DT13_DA14B12BB04610.25 BB04
462crx_D_DA14_DG15BBBBB00610.30 BB00
472crx_D_DC16_DA17miBBB13170.44 BB13
482crx_D_DA17_DT18NANNANT00.42 BB10
492crx_D_DT18_DA19NANNANT01.08 OP20
502crx_D_DA19_DT20NANNANT00.41 BB02
512crx_D_DT20_DG21BBBBB00550.50 BB00
522crx_D_DG21_DC22NANNANT00.47 BB02
532crx_D_DC22_DT23BBBBB00520.33 BB00
542crx_D_DT23_DA24BBBBB00660.20 BB00
552crx_D_DA24_DT25B12BB04450.29 BB04
562crx_D_DT25_DA26BBBBB00120.50 BB00
572crx_D_DA26_DC27BBBBB00720.20 BB00
582crx_D_DC27_DG28BB2BB07840.18 BB07
592crx_D_DG28_DA29BBBBB00880.12 BB00
602crx_D_DA29_DA30B12BB04800.19 BB04
612crx_D_DA30_DG31B12BB04840.22 BB04
622crx_D_DG31_DT32BBBBB00700.32 BB00
632crx_D_DT32_DT33BBBBB00680.35 BB00
642crx_D_DT33_DA34BB2BB08310.43 BB08
652crx_D_DA34_DT35miBBB13540.39 BB13

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).

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