FANDOM


&&&&&&&&&&&&&&&&&&&& BEGIN  /usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues &&&&&&&&&&&&&&&&&&&&

Successfully read 2 file paths from WYRM_file_paths.txt

generic_input                                         /usr/local/www/html/proteins/workspace/
generic_output                                        /usr/local/www/html/proteins/htdocs/results/

======================================================

Sequence file type = 3

Sequence type = 3

Got here 1
Got here 2
Got here 3
Sequence 1
Got here 3
Got here 4
Got here 3
Got here 4
Got here 3
Got here 4
Got here 3
Sequence 2
Got here 3
Got here 4
Got here 3
Got here 4
Got here 3
Got here 4
Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g07710-c1ogyb_.pir.txt

======================================================

Assigned types to 150 residues in Sequence 2-07710, 6 remain unknown
Assigned types to 126 residues in Sequence c1ogyb_, 30 remain unknown

======================================================

Successfully read 576 entries for residue match scoring matrix /usr/local/www/html/proteins/workspace/BLOSUM62.dat

Read the residue match scoring matrix /usr/local/www/html/proteins/workspace/BLOSUM62.dat

======================================================

Translated sequence file At2g07710-c1ogyb_.pir.txt into sequence alignment.

======================================================

>1OGY.pdb  Made from 57824 ATOM records in 1OGY.pdb
Error in function WYRM_fprintf_sequence_in_FASTA_format()
num_residues 7336 is outside bounds [ 0, 7000 ]


======================================================

Best alignment:
1OGY.pdb   393  DMVVTNPEHRA   403
                D+VV +P H +
2-07710     78  DLVVESPHHHS    88

======================================================

Highlighted IDENTICAL residue GLU  411  index1  400  path   91  %Seq 100.00
Highlighted 1 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g07710-c1ogyb_.pir.txt.1OGY.pdb.conservation.pml

===============================================================================

The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g07710-c1ogyb_.pir.txt PIR amino_acid 1OGY.pdb _ 100.0 BLOSUM62.dat 

completed successfully.

@@@@@@@@@@@@@@@@@@@@ END  /usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues @@@@@@@@@@@@@@@@@@@@

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