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/

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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

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Assigned types to 130 residues in Sequence 2-11370, 7 remain unknown Assigned types to 73 residues in Sequence 2e3l_A, 64 remain unknown

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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

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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.

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>2E3L.pdb Made from 1475 ATOM records in 2E3L.pdb GSSGSSGLRKAVEDYFCFCYGKALGTTVMVPVPYEKMLRDQSAVVVQGLP EGVAFQHPENYDLATLKWILENKAGISFIINRPFLGPESQLGGSGPSSG

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Best alignment: 2E3L.pdb   44  VVVQGLPEGVAFQHPENYDLATLKWILENKAGISFIINRPFLG    86 V  LP  +   H +   +  ++ +L      + ++  P LG 2-11370     32  TVSSSLPNDMVVPHIDGQFIKDVEAVLTTPDWANLLVLNPSLG    74

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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

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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.

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