At2g05310.1/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 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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g05310-2gt1A0.pir.txt

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Assigned types to 125 residues in Sequence 2-05310, 124 remain unknown Assigned types to 323 residues in Sequence 2gt1A0, 10 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 At2g05310-2gt1A0.pir.txt into sequence alignment.

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>2GT1.pdb Made from 4930 ATOM records in 2GT1.pdb MRVLIVKTSSMGDVLHTLPALTDAQQAIPGIKFDWVVEEGFAQIPSWHAA VERVIPVAIRRWRKAWFSAPIKAERKAFREALQAKNYDAVIDAQGLVKSA ALVTRLAHGVKHGMDWQTAREPLASLFYNRKHHIAKQQHAVERTRELFAK SLGYSKPQTQGDYAIAQHFLTNLPTDAGEYAVFLHATTRDDKHWPEEHWR ELIGLLADSGIRIKLPWGAPHEEERAKRLAEGFAYVEVLPKMSLEGVARV LAGAKFVVSVDTGLSHLTAALDRPNITVYGPTDPGLIGGYGKNQMVCRAP GNELSQLTANAVKQFIEENAEKAMRVLIVKTSSMGDVLHTLPALTDAQQA IPGIKFDWVVEEGFAQIPSWHAAVERVIPVAIRRWRKRKAFREALQAKNY DAVIDAQGLVKSAALVTRLAHGVKHGMDWQTAREPLASLFYNRKHHIAKQ QHAVERTRELFAKSLGYSKPQTQGDYAIAQHFLTNGEYAVFLHATTRDDK HWPEEHWRELIGLLADSGIRIKLPWGAPHEEERAKRLAEGFAYVEVLPKM SLEGVARVLAGAKFVVSVDTGLSHLTAALDRPNITVYGPTDPNQMVCRAP GNELSQLTANAVKQFIEENAEKAAMI

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Best alignment: 2GT1.pdb  195  PEEHWRELIGLLADSGIRIKLPW   217 PE++W+ +    ++ ++  LP+ 2-05310    76  PEQYWQSVGEREGENPMKTPLPY    98

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Highlighted IDENTICAL residue PRO 195  index1  195  path  200  %Seq 100.00 Highlighted IDENTICAL residue GLU 196  index1  196  path  201  %Seq 100.00 Highlighted IDENTICAL residue TRP 199  index1  199  path  204  %Seq 100.00 Highlighted IDENTICAL residue LEU 206  index1  206  path  211  %Seq  50.00 Highlighted IDENTICAL residue ALA 207  index1  207  path  212  %Seq  50.00 Highlighted IDENTICAL residue ASP 208  index1  208  path  213  %Seq  50.00 Highlighted IDENTICAL residue SER 209  index1  209  path  214  %Seq  50.00 Highlighted IDENTICAL residue GLY 210  index1  210  path  215  %Seq  50.00 Highlighted 8 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g05310-2gt1A0.pir.txt.2GT1.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g05310-2gt1A0.pir.txt PIR amino_acid 2GT1.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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