At2g01650.1/Structure

&&&&&&&&&&&&&&&&&&&& 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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g01650_1wj4_A.pir.txt

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Assigned types to 458 residues in Sequence 2-01650, 0 remain unknown Assigned types to 116 residues in Sequence 1wj4_A, 342 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 At2g01650_1wj4_A.pir.txt into sequence alignment.

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>1WJ4.pdb Made from 1880 ATOM records in 1WJ4.pdb GSSGSSGTATNHQGLPAVDSEILEMPPEKADGVVEGIDVNGPKAQLMLRY PDGKREQITLPEQAKLLALVKHVQSKGYPNERFELLTNFPRRKLSHLDYD ITLQEAGLCPQETVFVQESGPSSG

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Best alignment: 1WJ4.pdb   43  KAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELL    86 ++ + +++PDG  Q          AL + V S    P+ +FELL 2-01650   353  RSMIRVQFPDGVVLQGVFAPWEPTFALYEFVSSALKEPSLQFELL   397

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Highlighted IDENTICAL residue PRO  51  index1   51  path  361  %Seq 100.00 Highlighted IDENTICAL residue ASP  52  index1   52  path  362  %Seq 100.00 Highlighted IDENTICAL residue GLY  53  index1   53  path  363  %Seq 100.00 Highlighted IDENTICAL residue GLN  57  index1   57  path  367  %Seq 100.00 Highlighted IDENTICAL residue ALA  68  index1   68  path  378  %Seq 100.00 Highlighted IDENTICAL residue LEU  69  index1   69  path  379  %Seq 100.00 Highlighted IDENTICAL residue VAL  73  index1   73  path  383  %Seq 100.00 Highlighted IDENTICAL residue SER  75  index1   75  path  385  %Seq 100.00 Highlighted IDENTICAL residue PRO  79  index1   79  path  390  %Seq 100.00 Highlighted IDENTICAL residue PHE  83  index1   83  path  394  %Seq 100.00 Highlighted IDENTICAL residue GLU  84  index1   84  path  395  %Seq 100.00 Highlighted IDENTICAL residue LEU  85  index1   85  path  396  %Seq 100.00 Highlighted IDENTICAL residue LEU  86  index1   86  path  397  %Seq 100.00 Highlighted 13 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01650_1wj4_A.pir.txt.1WJ4.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g01650_1wj4_A.pir.txt PIR amino_acid 1WJ4.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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