ID code: '5GUH'
CHIRALITY (03 Nov 1998)
Checks the chirality and the naming of substituents of chiral
and prochiral centers in nucleic acid structures.
The molecular structure is read from a PDB file.
Only the first model is evaluated.
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Center Reference for correct naming
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C1' alpha/beta nomenclature of anomeric sugars,
base in beta position in natural nucleosids.
C2' IUPAC. 1983. Eur J Biochem, 131: 9-15.
C3' IUPAC. 1983. Eur J Biochem, 131: 9-15.
C4' IUPAC. 1983. Eur J Biochem, 131: 9-15.
C5' IUPAC. 1983. Eur J Biochem, 131: 9-15.
P Brookhaven PDB entry '1BNA',
O1P -> major groove, O2P -> minor groove.
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Author: Peter Slickers (slickers@imb-jena.de)
Biocomputing, IMB Jena, Germany
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Seq No Atom Residue H1' base O4' H1' base C2'
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5842 C1' U B 1 beta 5837 5843 5840
5862 C1' A B 2 beta 5857 5863 5860
5884 C1' U B 3 beta 5879 5885 5882
5904 C1' U B 4 beta 5899 5905 5902
5924 C1' U B 5 beta 5919 5925 5922
5944 C1' U B 26 beta 5939 5945 5942
5964 C1' U B 27 beta 5959 5965 5962
5981 C1' OMU B 28 beta 5988 5973 5982
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Seq No Atom Residue Deoxyribose Ribose C1' C3' H2'1 H2'2 H2' O2'
H2'1 H2'2 H2' O2'
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5840 C2' U B 1 OK 5842 5838 5841
5860 C2' A B 2 OK 5862 5858 5861
5882 C2' U B 3 OK 5884 5880 5883
5902 C2' U B 4 OK 5904 5900 5903
5922 C2' U B 5 OK 5924 5920 5923
5942 C2' U B 26 OK 5944 5940 5943
5962 C2' U B 27 OK 5964 5960 5963
5982 C2' OMU B 28 OK 5981 5985 5983
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Seq No Atom Residue H3' O3' C4' H3' O3' C2'
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5838 C3' U B 1 OK 5836 5839 5840
5858 C3' A B 2 OK 5856 5859 5860
5880 C3' U B 3 OK 5878 5881 5882
5900 C3' U B 4 OK 5898 5901 5902
5920 C3' U B 5 OK 5918 5921 5922
5940 C3' U B 26 OK 5938 5941 5942
5960 C3' U B 27 OK 5958 5961 5962
5985 C3' OMU B 28 OK 5986 5987 5982
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Seq No Atom Residue H4' C5' C3' H4' C5' O4'
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5836 C4' U B 1 OK 5838 5835 5837
5856 C4' A B 2 OK 5858 5855 5857
5878 C4' U B 3 OK 5880 5877 5879
5898 C4' U B 4 OK 5900 5897 5899
5918 C4' U B 5 OK 5920 5917 5919
5938 C4' U B 26 OK 5940 5937 5939
5958 C4' U B 27 OK 5960 5957 5959
5986 C4' OMU B 28 OK 5985 5989 5988
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Seq No Atom Residue H5'1 H5'2 O5' H5'1 H5'2 C4'
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5835 C5' U B 1 5834 5836
5855 C5' A B 2 5854 5856
5877 C5' U B 3 5876 5878
5897 C5' U B 4 5896 5898
5917 C5' U B 5 5916 5918
5937 C5' U B 26 5936 5938
5957 C5' U B 27 5956 5958
5989 C5' OMU B 28 5990 5986
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Seq No Atom Residue O1P O2P O3' O1P O2P O5'
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5831 P U B 1 OK OK 5832 5833 5834
5851 P A B 2 distorted distorted 5839 5852 5853 5854
5873 P U B 3 distorted distorted 5859 5874 5875 5876
5893 P U B 4 distorted distorted 5881 5894 5895 5896
5913 P U B 5 distorted distorted 5901 5914 5915 5916
5933 P U B 26 distorted distorted 5934 5935 5936
5953 P U B 27 distorted distorted 5941 5954 5955 5956
5991 P OMU B 28 distorted distorted 5961 5992 5993 5990
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