At2g01180.1/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
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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_2a96_A.pir.txt
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Assigned types to 302 residues in Sequence 2-01180-1, 0 remain unknown
Assigned types to 161 residues in Sequence 2a96_A, 141 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_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 278 IARIFSPVVGAKISPKDTPETWNMLQNLLKVGGYYATASAKKYYMRTRPF 327
 IARIFSPVVGAKISPKDTPETWNMLQNLLKVGGYYATASAKKYYMRTRPF
2a96_A 1 IARIFSPVVGAKISPKDTPETWNMLQNLLKVGGYYATASAKKYYMRTRPF 50
2A96.pdb 328 VLFNHSTCRPEDENTLRKDGSYPSGHTAYSTLLALVLSQARPERAQELAR 377
 VLFNHSTCRPEDENTLRKDGSYPSGHTAYSTLLALVLSQARPERAQELAR
2a96_A 51 VLFNHSTCRPEDENTLRKDGSYPSGHTAYSTLLALVLSQARPERAQELAR 100
2A96.pdb 378 RGWEFGQSRVICGAHWQSDVDAGRYVGAVEFARLQTIPAFQKSLAKVREE 427
 RGWEFGQSRVICGAHWQSDVDAGRYVGAVEFARLQTIPAFQKSLAKVREE
2a96_A 101 RGWEFGQSRVICGAHWQSDVDAGRYVGAVEFARLQTIPAFQKSLAKVREE 150
2A96.pdb 428 LNDKNNLLSQ 437
 LNDKNNLLS+
2a96_A 151 LNDKNNLLSK 160
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Highlighted IDENTICAL residue ILE 86 index1 281 path 81 %Seq 100.00
Highlighted IDENTICAL residue LYS 94 index1 289 path 89 %Seq 100.00
Highlighted IDENTICAL residue THR 119 index1 314 path 114 %Seq 100.00
Highlighted IDENTICAL residue SER 121 index1 316 path 116 %Seq 100.00
Highlighted IDENTICAL residue LYS 123 index1 318 path 118 %Seq 100.00
Highlighted IDENTICAL residue ARG 128 index1 323 path 123 %Seq 100.00
Highlighted IDENTICAL residue ARG 130 index1 325 path 125 %Seq 100.00
Highlighted IDENTICAL residue PRO 131 index1 326 path 126 %Seq 100.00
Highlighted IDENTICAL residue CYS 140 index1 335 path 148 %Seq 100.00
Highlighted IDENTICAL residue SER 153 index1 348 path 161 %Seq 100.00
Highlighted IDENTICAL residue PRO 155 index1 350 path 163 %Seq 100.00
Highlighted IDENTICAL residue SER 156 index1 351 path 164 %Seq 100.00
Highlighted IDENTICAL residue GLY 157 index1 352 path 165 %Seq 100.00
Highlighted IDENTICAL residue HIS 158 index1 353 path 166 %Seq 100.00
Highlighted IDENTICAL residue THR 159 index1 354 path 167 %Seq 100.00
Highlighted IDENTICAL residue SER 162 index1 357 path 170 %Seq 100.00
Highlighted IDENTICAL residue LEU 169 index1 364 path 177 %Seq 100.00
Highlighted IDENTICAL residue SER 170 index1 365 path 178 %Seq 100.00
Highlighted IDENTICAL residue GLY 188 index1 383 path 211 %Seq 100.00
Highlighted IDENTICAL residue SER 190 index1 385 path 213 %Seq 100.00
Highlighted IDENTICAL residue ARG 191 index1 386 path 214 %Seq 100.00
Highlighted IDENTICAL residue VAL 192 index1 387 path 215 %Seq 100.00
Highlighted IDENTICAL residue HIS 197 index1 392 path 220 %Seq 100.00
Highlighted IDENTICAL residue ASP 201 index1 396 path 224 %Seq 100.00
Highlighted IDENTICAL residue VAL 202 index1 397 path 225 %Seq 100.00
Highlighted IDENTICAL residue ALA 204 index1 399 path 227 %Seq 100.00
Highlighted IDENTICAL residue GLY 205 index1 400 path 228 %Seq 100.00
Highlighted IDENTICAL residue GLY 209 index1 404 path 232 %Seq 100.00
Highlighted IDENTICAL residue ALA 214 index1 409 path 237 %Seq 100.00
Highlighted 29 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01180_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_2a96_A.pir.txt PIR amino_acid 2A96.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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