Hi,
More RNA woes I'm afraid. Coot 0.6.2 (revision 3562) [with guile 1.8.8
embedded] [with python 2.7.2 embedded], using CCP4 monomer library (but fails
with a missing atoms error with the old monomer library).
When I delete and then try to re-add a nucleotide to a RNA chain I get the
following:
(do-add-terminal-residue 1)
pick_mode: 0
(0) " P "/1/chainid="B"/4/U, occ: 1 with B-factor: 15.29 element: " P" at
(-7.562,-7.484,-10.082) : 0.0938804
Adding a nucleotide, this is a term_type: N
INFO:: 5 matched atoms had:
mean devi: 0.0120856
rms devi: 0.013466
max devi: 0.0214499
min devi: 0.00385349
INFO:: 5 matched atoms had:
mean devi: 0.0120681
rms devi: 0.0134464
max devi: 0.0214179
min devi: 0.00385596
ERROR:: nucleotide_to_nucleotide() unassigned type mol_base_is_pyrimidine: 1
mol_base_is_purine: 0 std_base_is_pyrimidine: -1 std_base_is_purine: -1
mol_res_name: U std_base_name: A
(do-add-terminal-residue 0)
The error is the same for additions at 5' or 3' ends (although at the 3' it
says "this is a term_type C").
Huw
--
Dr Huw Jenkins
Astbury Centre for Structural Molecular Biology
University of Leeds
