At2g01031.1/Structure

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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
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Sequence 1
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Sequence 2
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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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