At2g12695.1/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/At2g12695-1nknA.pir.txt

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Assigned types to 130 residues in Sequence 2-12695, 0 remain unknown Assigned types to 62 residues in Sequence 1nknA, 68 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 At2g12695-1nknA.pir.txt into sequence alignment.

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>1NKN.pdb Made from 2495 ATOM records in 1NKN.pdb MKEQLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGSMKQLEDKV EELLSKNYHLENEVARLKKLVGEREEEMKEQLKQMDKMKEDLAKTERIKK ELEEQNVTLLEQKNDLFGSMKQLEDKVEELLSKNYHLENEVARLKKLVGE EMKEQLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGSMKQLEDK VEELLSKNYHLENEVARLKKLVGEREEEMKEQLKQMDKMKEDLAKTERIK KELEEQNVTLLEQKNDLFGSMKQLEDKVEELLSKNYHLENEVARLKKLVG E

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Best alignment: 1NKN.pdb  137  LENEVARLKKLVGEEMKEQLKQMDKMKEDLA   167 ++E++ K  V  E++     + ++KE+LA 2-12695    80  FDSELSAAKSEVSVELEALQAMVKELKEELA   110

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Highlighted IDENTICAL residue GLU 908  index1  140  path   83  %Seq 100.00 Highlighted IDENTICAL residue VAL 909  index1  141  path   84  %Seq 100.00 Highlighted IDENTICAL residue GLN 849  index1  155  path   98  %Seq 100.00 Highlighted IDENTICAL residue ASP 854  index1  160  path  103  %Seq 100.00 Highlighted IDENTICAL residue MET 856  index1  162  path  105  %Seq 100.00 Highlighted 5 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g12695-1nknA.pir.txt.1NKN.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g12695-1nknA.pir.txt PIR amino_acid 1NKN.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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