At2g03140.1/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 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 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 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 Got here 3 Got here 4 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/At2g03140-1a8s_.pir.txt

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Assigned types to 1805 residues in Sequence 2-03140, 8 remain unknown Assigned types to 271 residues in Sequence 1a8s_, 1542 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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Translated sequence file At2g03140-1a8s_.pir.txt into sequence alignment.

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>1A8S.pdb Made from 2085 ATOM records in 1A8S.pdb TTFTTRDGTQIYYKDWGSGQPIVFSHGWPLNADSWESQMIFLAAQGYRVI AHDRRGHGRSSQPWSGNDMDTYADDLAQLIEHLDLRDAVLFGFSTGGGEV ARYIGRHGTARVAKAGLISAVPPLMLKTEANPGGLPMEVFDGIRQASLAD RSQLYKDLASGPFFGFNQPGAKSSAGMVDWFWLQGMAAGHKNAYDCIKAF SETDFTEDLKKIDVPTLVVHGDADQVVPIEASGIASAALVKGSTLKIYSG APHGLTDTHKDQLNADLLAFIKG

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Best alignment: 1A8S.pdb  116  GLISAVPPLMLKTEANPGGLPME   138 GL+S    +  ++ +PGG+ +E 2-03140   697  GLVSGSDETISGSDNSPGGVELE   719

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Highlighted IDENTICAL residue GLY 116  index1  116  path  705  %Seq  50.00 Highlighted IDENTICAL residue LEU 117  index1  117  path  706  %Seq  50.00 Highlighted IDENTICAL residue ILE 118  index1  118  path  707  %Seq  50.00 Highlighted IDENTICAL residue SER 119  index1  119  path  708  %Seq  50.00 Highlighted IDENTICAL residue ALA 120  index1  120  path  709  %Seq  50.00 Highlighted IDENTICAL residue VAL 121  index1  121  path  710  %Seq  50.00 Highlighted IDENTICAL residue PRO 122  index1  122  path  711  %Seq  50.00 Highlighted IDENTICAL residue PRO 123  index1  123  path  712  %Seq  50.00 Highlighted IDENTICAL residue LEU 124  index1  124  path  713  %Seq  50.00 Highlighted IDENTICAL residue MET 125  index1  125  path  714  %Seq  50.00 Highlighted IDENTICAL residue LEU 126  index1  126  path  715  %Seq  50.00 Highlighted IDENTICAL residue LYS 127  index1  127  path  716  %Seq  50.00 Highlighted IDENTICAL residue THR 128  index1  128  path  717  %Seq  50.00 Highlighted IDENTICAL residue GLU 129  index1  129  path  718  %Seq  50.00 Highlighted IDENTICAL residue ALA 130  index1  130  path  719  %Seq  50.00 Highlighted IDENTICAL residue ASN 131  index1  131  path  720  %Seq  50.00 Highlighted IDENTICAL residue PRO 132  index1  132  path  721  %Seq  50.00 Highlighted IDENTICAL residue GLY 133  index1  133  path  722  %Seq  50.00 Highlighted IDENTICAL residue GLY 134  index1  134  path  723  %Seq  50.00 Highlighted IDENTICAL residue LEU 135  index1  135  path  724  %Seq  50.00 Highlighted IDENTICAL residue PRO 136  index1  136  path  725  %Seq  50.00 Highlighted IDENTICAL residue MET 137  index1  137  path  726  %Seq  50.00 Highlighted IDENTICAL residue GLU 138  index1  138  path  727  %Seq  50.00 Highlighted 23 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g03140-1a8s_.pir.txt.1A8S.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g03140-1a8s_.pir.txt PIR amino_acid 1A8S.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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