**************************************************************************** File name: 6n6h.pdb no. of DNA/RNA chains: 1 [D=2] no. of nucleotides: 2 no. of atoms: 1720 no. of waters: 209 no. of metals: 1 [Na=1] **************************************************************************** List of 1 base stack Note: A stack is an ordered list of nucleotides assembled together via base-stacking interactions, regardless of backbone connectivity. Stacking interactions within a stem are *not* included. 1 nts=3 WUC A.TRP61,D.U604,D.C603 **************************************************************************** List of 1 non-loop single-stranded segment 1 nts=2 CU D.C603,D.U604 **************************************************************************** Secondary structures in dot-bracket notation (dbn) as a whole and per chain >6n6h nts=2 [whole] CU .. >6n6h-D #1 nts=2 [chain] RNA CU .. **************************************************************************** Summary of structural features of 2 nucleotides Note: the first five columns are: (1) serial number, (2) one-letter shorthand name, (3) dbn, (4) id string, (5) rmsd (~zero) of base ring atoms fitted against those in a standard base reference frame. The sixth (last) column contains a comma-separated list of features whose meanings are mostly self-explanatory, except for: turn: angle C1'(i-1)--C1'(i)--C1'(i+1) < 90 degrees break: no backbone linkage between O3'(i-1) and P(i) 1 C . D.C603 0.006 anti,~C3'-endo,BI,non-pair-contact,ss-non-loop,phosphate 2 U . D.U604 0.005 anti,~C3'-endo,non-pair-contact,ss-non-loop,phosphate **************************************************************************** List of 9 additional files 1 dssr-2ndstrs.bpseq -- secondary structure in bpseq format 2 dssr-2ndstrs.ct -- secondary structure in connectivity table format 3 dssr-2ndstrs.dbn -- secondary structure in dot-bracket notation 4 dssr-torsions.txt -- backbone torsion angles and suite names 5 dssr-stacks.pdb -- an ensemble of base stacks 6 dssr-rotmat.txt -- position vector and rotation matrix 7 dssr-viewV.pdb -- vertical view of the principal moment of inertia 8 dssr-viewH.pdb -- horizontal view of the principal moment of inertia 9 dssr-viewT.pdb -- top view of the principal moment of inertia