At2g11370.1/PDB

&&&&&&&&&&&&&&&&&&&& 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
Sequence 2
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/At2g11370-2e3l_A.pir.txt
======================================================
Assigned types to 130 residues in Sequence 2-11370, 7 remain unknown
Assigned types to 73 residues in Sequence 2e3l_A, 64 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
======================================================
Error in function WYRM_analyze_conservation_in_sequence_alignment()
Path index 22 All residues are positively and negatively charged
Error in function WYRM_analyze_conservation_in_sequence_alignment()
Path index 23 All residues are positively and negatively charged
Error in function WYRM_analyze_conservation_in_sequence_alignment()
Path index 24 All residues are positively and negatively charged
Error in function WYRM_analyze_conservation_in_sequence_alignment()
Path index 25 All residues are positively and negatively charged
Error in function WYRM_analyze_conservation_in_sequence_alignment()
Path index 26 All residues are positively and negatively charged
Error in function WYRM_analyze_conservation_in_sequence_alignment()
Path index 27 All residues are positively and negatively charged
Error in function WYRM_analyze_conservation_in_sequence_alignment()
Path index 28 All residues are positively and negatively charged
Translated sequence file At2g11370-2e3l_A.pir.txt into sequence alignment.
======================================================
>2E3L.pdb Made from 1475 ATOM records in 2E3L.pdb
GSSGSSGLRKAVEDYFCFCYGKALGTTVMVPVPYEKMLRDQSAVVVQGLP
EGVAFQHPENYDLATLKWILENKAGISFIINRPFLGPESQLGGSGPSSG
======================================================
Best alignment:
2E3L.pdb 44 VVVQGLPEGVAFQHPENYDLATLKWILENKAGISFIINRPFLG 86
 V LP + H + + ++ +L + ++ P LG
2-11370 32 TVSSSLPNDMVVPHIDGQFIKDVEAVLTTPDWANLLVLNPSLG 74
======================================================
Highlighted IDENTICAL residue VAL 45 index1 45 path 40 %Seq 100.00
Highlighted IDENTICAL residue LEU 49 index1 49 path 44 %Seq 100.00
Highlighted IDENTICAL residue PRO 50 index1 50 path 45 %Seq 100.00
Highlighted IDENTICAL residue HIS 57 index1 57 path 52 %Seq 100.00
Highlighted IDENTICAL residue LEU 70 index1 70 path 65 %Seq 100.00
Highlighted IDENTICAL residue PRO 83 index1 83 path 78 %Seq 100.00
Highlighted IDENTICAL residue LEU 85 index1 85 path 80 %Seq 100.00
Highlighted IDENTICAL residue GLY 86 index1 86 path 81 %Seq 100.00
Highlighted 8 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g11370-2e3l_A.pir.txt.2E3L.pdb.conservation.pml
===============================================================================
The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g11370-2e3l_A.pir.txt PIR amino_acid 2E3L.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
@@@@@@@@@@@@@@@@@@@@ END /usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues @@@@@@@@@@@@@@@@@@@@