At2g05120.1/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/
======================================================
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
Got here 4
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
Got here 4
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
Got here 4
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
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
Got here 4
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
Got here 4
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
Got here 4
Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g05120-1xksA.pir.txt
======================================================
Assigned types to 1234 residues in Sequence 2-05120, 28 remain unknown
Assigned types to 412 residues in Sequence 1xksA, 850 remain unknown
======================================================
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
======================================================
Translated sequence file At2g05120-1xksA.pir.txt into sequence alignment.
======================================================
>1XKS.pdb Made from 2845 ATOM records in 1XKS.pdb
ESVNYDVKTFGSSLPVKVMEALTLAEVDDQLTINIDEGGWACLVCKEKLI
IWKIALSPITKLSVCKELQLPPSDFHWSADLVALSYSSTQAVAVMVATRE
GSIRYWPSLAGEDTYTEAFVDKTYSFLTAVQGGSFILSSSGSQLIRLIPE
SSGKIHQHILPQGQGMSDLTLSSVLWDRERSSFYSLTSSNISKWELDDSS
EKHAYSWDINRALKENITDAIWGSESNYEAIKEGVNIRYLDLKQNCDGLV
ILAAAWHSADNPCLIYYSLITIEDNGCQMSDAVTVEVTQYNPPFQSEDLI
LCQLTVPNFSNQTAYLYNESAVYVCSTGTGKFSLPQEKIVFNAQGDSVLG
AGACGGVPIIFSRNSGLVSITSRE
======================================================
Best alignment:
1XKS.pdb 132 GGSFILSSSGSQLIRLIPESSGKIHQHILPQGQG-MSDLTLSSVLWDRER 180
 G + ILS G+ + SS ++++ LP G + D ++ S + E 
2-05120 447 GSAIILSGDGTATVCYCHGSSTRLYKFDLPYDAGKVLDASVLSSTDEHEY 496
1XKS.pdb 181 SSFYSLT 187
 ++ LT
2-05120 497 GAWTVLT 503
======================================================
Highlighted IDENTICAL residue LEU 222 index1 137 path 476 %Seq 100.00
Highlighted IDENTICAL residue ILE 230 index1 145 path 484 %Seq 100.00
Highlighted IDENTICAL residue ARG 231 index1 146 path 485 %Seq 100.00
Highlighted IDENTICAL residue HIS 243 index1 158 path 501 %Seq 100.00
Highlighted IDENTICAL residue GLY 248 index1 163 path 506 %Seq 100.00
Highlighted IDENTICAL residue GLN 249 index1 164 path 507 %Seq 50.00
Highlighted IDENTICAL residue GLY 250 index1 165 path 508 %Seq 50.00
Highlighted IDENTICAL residue MET 251 index1 166 path 510 %Seq 100.00
Highlighted IDENTICAL residue SER 270 index1 167 path 511 %Seq 100.00
Highlighted IDENTICAL residue LEU 272 index1 169 path 513 %Seq 100.00
Highlighted IDENTICAL residue SER 275 index1 172 path 516 %Seq 50.00
Highlighted IDENTICAL residue SER 276 index1 173 path 517 %Seq 50.00
Highlighted IDENTICAL residue VAL 277 index1 174 path 518 %Seq 50.00
Highlighted IDENTICAL residue LEU 278 index1 175 path 519 %Seq 50.00
Highlighted IDENTICAL residue TRP 279 index1 176 path 520 %Seq 50.00
Highlighted IDENTICAL residue ASP 280 index1 177 path 521 %Seq 50.00
Highlighted IDENTICAL residue ARG 281 index1 178 path 522 %Seq 50.00
Highlighted IDENTICAL residue SER 284 index1 181 path 525 %Seq 100.00
Highlighted 18 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g05120-1xksA.pir.txt.1XKS.pdb.conservation.pml
===============================================================================
The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g05120-1xksA.pir.txt PIR amino_acid 1XKS.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
@@@@@@@@@@@@@@@@@@@@ END /usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues @@@@@@@@@@@@@@@@@@@@