At2g02410.1/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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g02410-1llzA.pir.txt

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Assigned types to 308 residues in Sequence 2-02410, 42 remain unknown Assigned types to 275 residues in Sequence 1llzA, 75 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 At2g02410-1llzA.pir.txt into sequence alignment.

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>1LLZ.pdb Made from 11311 ATOM records in 1LLZ.pdb CGVGFIANLRGKPDHTLVEQALKALGCMEHRGGCSADNDSGDGAGVMTAI PRELLAQWFNTRNLPMPDGDRLGVGMVFLPQEPSAREVARAYVEEVVRLE KLTVLGWREVPVNSDVLGIQAKNNQPHIEQILVTCPEGCAGDELDRRLYI ARSIIGKKLAEDFYVCSFSCRTIVYKGMVRSIILGEFYLDLKNPGYTSNF AVYHRRFSTNTMPKWPLAQPMRLLGHNGEINTLLGNINWMAAREKELEVS GWTKAELEALTPIVNQANSDSYNLDSALELLVRTGRSPLEAAMILVPEAY KNQPALKDYPEISDFHDYYSGLQEPWDGPALLVFSDGKIVGAGLDRNGLR PARYCITKDDYIVLGSEAGVVDLPEVDIVEKGRLAPGQMIAVDLAEQKIL KNYQIKQQAAQKYPYGEWIKIQDAQTVLQQQAAFGYTAEDVEMVVVPMAS QGKEPTFCMGDDTPLAVLSHKPRLLYDYFKQRFAQVTNPPIDPLRENLVM SLAMFLGKRGNLLEPKAEKLRSPLVNEVELQAIKTGQLQVAEVSTLYDLD GVNSLEDALTNLVKTAIATVQAGAEILVLTDRPNGAILTENQSFIPPLLA VGAVHHHLIRAGLRLKASLIVDTAQCWSTHHFACLVGYGASAICPYLALE SVRQWWLDEKTQKLMENGRLDRIDLPTALKNYRQSVEAGLFKILSKMGIS LLASYHGAQIFEAIGLGAELVEYAFAGTTSRVGGLTIADVAGEVMVFHGM AFPEMAKKLENFGFVNYRPGGEYHMNSPEMSKSLHKAVAAYYDHYELYRQ YLKDRPVTALRDLLDFNADQPAISLEEVESVESIVKRFCTGGMSLGALSR EAHETLAIAMNRLGAKSNSGEGGEDVVRYLTLDDVDSEGNSPTLPHLHGL QNGDTANSAIKQIASGRFGVTPEYLMSGKQLEIKMAQGAKPGEGGQLPGK KVSEYIAMLRRSKPGVTLISPPPHHDIYSIEDLAQLIYDLHQINPEAQVS VKLVAEIGIGTIAAGVAKANADIIQISGHDGGTGASPLSSIKHAGSPWEL GVTEVHRVLMENQLRDRVLLRADGGLKTGWDVVMAALMGAEEYGFGSIAM IAEGCIMARVCHTNNCPVGVATQQERLRQRFKGVPGQVVNFFYFIAEEVR SLLAHLGYRSLDDIIGRTDLLKVRSDVQLSKTQNLTLDCLLNLPDTKQNR QWLNHEPVHSNGPVLDDDILADPDIQEAINHQTTATKTYRLVNTDRTVGT RLSGAIAKKYGNNGFEGNITLNFQGAAGQSFGAFNLDGMTLHLQGEANDY VGKGMNGGEIVIVPHPQASFAPEDNVIIGNTCLYGATGGNLYANGRAGER FAVRNSVGKAVIEGAGDHCCEYMTGGVIVVLGPVGRNVGAGMTGGLAYFL DEVGDLPEKINPEIITLQRITASKGEEQLKSLITAHVEHTGSPKGKAILA NWSDYLGKFWQAVPPSEKDSPEANN

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Best alignment: 1LLZ.pdb  697  MGISLLASYHGAQIFEAIGLGAELVEYAFAGTTSRVGGLTIAD   739 + S++       +F+A+  G    +  FAG      G T AD 2-02410    168  VSFSMVKEVKVVVVFDALMSGLPTHKEDFAGVDVIFSGETCAD   210

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Highlighted IDENTICAL residue ILE 720  index1  699  path  202  %Seq  50.00 Highlighted IDENTICAL residue SER 721  index1  700  path  203  %Seq  50.00 Highlighted IDENTICAL residue GLY 728  index1  707  path  210  %Seq 100.00 Highlighted IDENTICAL residue GLU 733  index1  712  path  215  %Seq 100.00 Highlighted IDENTICAL residue ALA 739  index1  718  path  221  %Seq  50.00 Highlighted IDENTICAL residue GLU 740  index1  719  path  222  %Seq  50.00 Highlighted IDENTICAL residue LEU 741  index1  720  path  223  %Seq  50.00 Highlighted IDENTICAL residue VAL 742  index1  721  path  224  %Seq  50.00 Highlighted IDENTICAL residue GLU 743  index1  722  path  225  %Seq  50.00 Highlighted IDENTICAL residue TYR 744  index1  723  path  226  %Seq  50.00 Highlighted IDENTICAL residue ALA 745  index1  724  path  227  %Seq  50.00 Highlighted IDENTICAL residue THR 749  index1  728  path  231  %Seq 100.00 Highlighted 12 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g02410-1llzA.pir.txt.1LLZ.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g02410-1llzA.pir.txt PIR amino_acid 1LLZ.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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