At2g01031.1/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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g01031_1gk4A0.pir.txt

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Assigned types to 249 residues in Sequence 2-01031, 3 remain unknown Assigned types to 79 residues in Sequence 1gk4A0, 173 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 At2g01031_1gk4A0.pir.txt into sequence alignment.

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>1GK4.pdb Made from 3711 ATOM records in 1GK4.pdb CEVDALKGTNESLERQMREMEENFAVEAANYQDTIGRLQDEIQNMKEEMA RHLREYQDLLNVKMALDIEIATYRKLLEGCEVDALKGTNESLERQMREME ENFAVEAANYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIA TYRKLLEGNESLERQMREMEENFAVEAANYQDTIGRLQDEIQNMKEEMAR HLREYQDLLNVKMALDIEIATYRKLLEGVDALKGTNESLERQMREMEENF AVEAANYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIATYR KLLEGENESLERQMREMEENFAVEAANYQDTIGRLQDEIQNMKEEMARHL REYQDLLNVKMALDIEIATYRKLLEGLKGTNESLERQMREMEENFAVEAA NYQDTIGRLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIATYRKLLEG

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Best alignment: 1GK4.pdb  351  REYQDLLNVKMALDIEIATYRKLLEGLKGTNESLERQMREMEE   393 RE Q    K  +D  +     L+  LK     +  ++ E+E+ 2-01031   168  RELQYFRTKKRRVDFRLEELETLIAKLKKKRRRVVTRLDEVEQ   210

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Highlighted IDENTICAL residue ARG 381  index1  351  path  168  %Seq 100.00 Highlighted IDENTICAL residue GLU 382  index1  352  path  169  %Seq 100.00 Highlighted IDENTICAL residue LEU 386  index1  356  path  174  %Seq 100.00 Highlighted IDENTICAL residue TYR 400  index1  370  path  188  %Seq 100.00 Highlighted IDENTICAL residue LEU 404  index1  374  path  192  %Seq 100.00 Highlighted IDENTICAL residue LYS 334  index1  378  path  196  %Seq 100.00 Highlighted IDENTICAL residue SER 339  index1  383  path  201  %Seq 100.00 Highlighted 7 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01031_1gk4A0.pir.txt.1GK4.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g01031_1gk4A0.pir.txt PIR amino_acid 1GK4.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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