At2g01180.2/PDB

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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/At2g01180-2_2a96_A.pir.txt
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Assigned types to 327 residues in Sequence 2-01180-2, 0 remain unknown
Assigned types to 137 residues in Sequence 2a96_A, 190 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 At2g01180-2_2a96_A.pir.txt into sequence alignment.
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>2A96.pdb Made from 6960 ATOM records in 2A96.pdb
QPFHSPEESVNSQFYLPPPPGNDDPAFRYDKEAYFKGYAIKGSPRWKQAA
EDADISVENIARIFSPVVGAKISPKDTPETWNMLQNLLKVGGYYATASAK
KYYMRTRPFVLFNHSTCRPEDENTLRKDGSYPSGHTAYSTLLALVLSQAR
PERAQELARRGWEFGQSRVICGAHWQSDVDAGRYVGAVEFARLQTIPAFQ
KSLAKVREELNDKNNLLMQPFHSPEESVNSQFYLPPPPGNDDPAFRYDKE
AYFKGYAIKGSPRWKQAAEDADISVENIARIFSPVVGAKISPKDTPETWN
MLQNLLKVGGYYATASAKKYYMRTRPFVLFNHSTCRPEDENTLRKDGSYP
SGHTAYSTLLALVLSQARPERAQELARRGWEFGQSRVICGAHWQSDVDAG
RYVGAVEFARLQTIPAFQKSLAKVREELNDKNNLLSQPFHSPEESVNSQF
YLPPPPGNDDPAFRYDKEAYFKGYAIKGSPRWKQAAEDADISVENIARIF
SPVVGAKISPKDTPETWNMLQNLLKVGGYYATASAKKYYMRTRPFVLFNH
STCRPEDENTLRKDGSYPSGHTAYSTLLALVLSQARPERAQELARRGWEF
GQSRVICGAHWQSDVDAGRYVGAVEFARLQTIPAFQKSLAKVREELNDKN
NLLMQPFHSPEESVNSQFYLPPPPGNDDPAFRYDKEAYFKGYAIKGSPRW
KQAAEDADISVENIARIFSPVVGAKISPKDTPETWNMLQNLLKVGGYYAT
ASAKKYYMRTRPFVLFNHSTCRPEDENTLRKDGSYPSGHTAYSTLLALVL
SQARPERAQELARRGWEFGQSRVICGAHWQSDVDAGRYVGAVEFARLQTI
PAFQKSLAKVREELNDKNNLLS
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Best alignment:
2A96.pdb 130 SYPSGHTAYS----TLLALVLS 147
 S+PSGHT++S T L+L LS
2-01180-2 186 SFPSGHTSWSFAGLTFLSLYLS 207
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Highlighted IDENTICAL residue SER 153 index1 130 path 186 %Seq 100.00
Highlighted IDENTICAL residue PRO 155 index1 132 path 188 %Seq 100.00
Highlighted IDENTICAL residue SER 156 index1 133 path 189 %Seq 100.00
Highlighted IDENTICAL residue GLY 157 index1 134 path 190 %Seq 100.00
Highlighted IDENTICAL residue HIS 158 index1 135 path 191 %Seq 100.00
Highlighted IDENTICAL residue THR 159 index1 136 path 192 %Seq 100.00
Highlighted IDENTICAL residue SER 162 index1 139 path 195 %Seq 100.00
Highlighted IDENTICAL residue LEU 165 index1 142 path 202 %Seq 100.00
Highlighted IDENTICAL residue ALA 166 index1 143 path 203 %Seq 100.00
Highlighted 9 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01180-2_2a96_A.pir.txt.2A96.pdb.conservation.pml
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The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g01180-2_2a96_A.pir.txt PIR amino_acid 2A96.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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