At2g02540.1/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/At2g02540-1wh5_A.pir.txt
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Assigned types to 310 residues in Sequence 2-02540, 0 remain unknown
Assigned types to 78 residues in Sequence 1wh5_A, 232 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 At2g02540-1wh5_A.pir.txt into sequence alignment.
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>1WH5.pdb Made from 1242 ATOM records in 1WH5.pdb
GSSGSSGSSAEAGGGIRKRHRTKFTAEQKERMLALAERIGWRIQRQDDEV
IQRFCQETGVPRQVLKVWLHNNKHSGPSSG
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Best alignment:
1WH5.pdb 13 GGGIRKRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQETGVPR 62
 G +KR RTKFT EQKE+M++ AER+GW+IQRQ++ V+Q+ CQE G+ R
2-02540 218 GHNQKKRFRTKFTQEQKEKMISFAERVGWKIQRQEESVVQQLCQEIGIRR 267
1WH5.pdb 63 QVLKVWLHNNKHS 75
 +VLKVW+HNNK +
2-02540 268 RVLKVWMHNNKQN 280
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Highlighted IDENTICAL residue GLY 13 index1 13 path 218 %Seq 100.00
Highlighted IDENTICAL residue LYS 18 index1 18 path 223 %Seq 100.00
Highlighted IDENTICAL residue ARG 19 index1 19 path 224 %Seq 100.00
Highlighted IDENTICAL residue ARG 21 index1 21 path 226 %Seq 100.00
Highlighted IDENTICAL residue THR 22 index1 22 path 227 %Seq 100.00
Highlighted IDENTICAL residue LYS 23 index1 23 path 228 %Seq 100.00
Highlighted IDENTICAL residue PHE 24 index1 24 path 229 %Seq 100.00
Highlighted IDENTICAL residue THR 25 index1 25 path 230 %Seq 100.00
Highlighted IDENTICAL residue GLU 27 index1 27 path 232 %Seq 100.00
Highlighted IDENTICAL residue GLN 28 index1 28 path 233 %Seq 100.00
Highlighted IDENTICAL residue LYS 29 index1 29 path 234 %Seq 100.00
Highlighted IDENTICAL residue GLU 30 index1 30 path 235 %Seq 100.00
Highlighted IDENTICAL residue MET 32 index1 32 path 237 %Seq 100.00
Highlighted IDENTICAL residue ALA 36 index1 36 path 241 %Seq 100.00
Highlighted IDENTICAL residue GLU 37 index1 37 path 242 %Seq 100.00
Highlighted IDENTICAL residue ARG 38 index1 38 path 243 %Seq 100.00
Highlighted IDENTICAL residue GLY 40 index1 40 path 245 %Seq 100.00
Highlighted IDENTICAL residue TRP 41 index1 41 path 246 %Seq 100.00
Highlighted IDENTICAL residue ILE 43 index1 43 path 248 %Seq 100.00
Highlighted IDENTICAL residue GLN 44 index1 44 path 249 %Seq 100.00
Highlighted IDENTICAL residue ARG 45 index1 45 path 250 %Seq 100.00
Highlighted IDENTICAL residue GLN 46 index1 46 path 251 %Seq 100.00
Highlighted IDENTICAL residue VAL 50 index1 50 path 255 %Seq 100.00
Highlighted IDENTICAL residue GLN 52 index1 52 path 257 %Seq 100.00
Highlighted IDENTICAL residue CYS 55 index1 55 path 260 %Seq 100.00
Highlighted IDENTICAL residue GLN 56 index1 56 path 261 %Seq 100.00
Highlighted IDENTICAL residue GLU 57 index1 57 path 262 %Seq 100.00
Highlighted IDENTICAL residue GLY 59 index1 59 path 264 %Seq 100.00
Highlighted IDENTICAL residue ARG 62 index1 62 path 267 %Seq 100.00
Highlighted IDENTICAL residue VAL 64 index1 64 path 269 %Seq 100.00
Highlighted IDENTICAL residue LEU 65 index1 65 path 270 %Seq 100.00
Highlighted IDENTICAL residue LYS 66 index1 66 path 271 %Seq 100.00
Highlighted IDENTICAL residue VAL 67 index1 67 path 272 %Seq 100.00
Highlighted IDENTICAL residue TRP 68 index1 68 path 273 %Seq 100.00
Highlighted IDENTICAL residue HIS 70 index1 70 path 275 %Seq 100.00
Highlighted IDENTICAL residue ASN 71 index1 71 path 276 %Seq 100.00
Highlighted IDENTICAL residue ASN 72 index1 72 path 277 %Seq 100.00
Highlighted IDENTICAL residue LYS 73 index1 73 path 278 %Seq 100.00
Highlighted 38 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g02540-1wh5_A.pir.txt.1WH5.pdb.conservation.pml
===============================================================================
The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g02540-1wh5_A.pir.txt PIR amino_acid 1WH5.pdb A 100.0 BLOSUM62.dat 
completed successfully.
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