At2g13690.1/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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g13690-1ejlI.pir.txt

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Assigned types to 544 residues in Sequence 2-13690, 27 remain unknown Assigned types to 361 residues in Sequence 1ejlI, 210 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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Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 289 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 290 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 291 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 292 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 293 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 294 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 295 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 296 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 297 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 391 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 392 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 484 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 485 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 486 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 487 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 488 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 489 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 490 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 491 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 492 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 512 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 513 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 514 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 515 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 516 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 517 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 518 All residues are positively and negatively charged

Translated sequence file At2g13690-1ejlI.pir.txt into sequence alignment.

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>1EJL.pdb Made from 3368 ATOM records in 1EJL.pdb PKKKRKVPKKKRKVGTVNWSVEDIVKGINSNNLESQLQATQAARKLLSRE KQPPIDNIIRAGLIPKFVSFLGKTDCSPIQFESAWALTNIASGTSEQTKA VVDGGAIPAFISLLASPHAHISEQAVWALGNIAGDGSAFRDLVIKHGAID PLLALLAVPDLSTLACGYLRNLTWTLSNLCRNKNPAPPLDAVEQILPTLV RLLHHNDPEVLADSCWAISYLTDGPNERIEMVVKKGVVPQLVKLLGATEL PIVTPALRAIGNIVTGTDEQTQKVIDAGALAVFPSLLTNPKTNIQKEATW TMSNITAGRQDQIQQVVNHGLVPFLVGVLSKADFKTQKEAAWAITNYTSG GTVEQIVYLVHCGIIEPLMNLLSAKDTKIIQVILDAISNIFQAAEKLGET EKLSIMIEECGGLDKIEALQRHENESVYKASLNLIEKYFS

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Best alignment: 1EJL.pdb  148  AIDPLLALLAVPDLSTLACGYLRNLTWTLSNLCRNKNPAPPLDAVEQILP   197 A+ +LA     +   L     + L W++++ C + NP   L ++ + L 2-13690    284  AVSEILARFNSNETENLQDSLSKKLVWSITS-CSDVNPRNELKSLVKGLL   332

1EJL.pdb  198  TLVRLLHHNDPEV   210 +    PE+ 2-13690   333  CKSSVYEKEQPEI   345

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Highlighted IDENTICAL residue LEU 210  index1  153  path  298  %Seq 100.00 Highlighted IDENTICAL residue ALA 211  index1  154  path  299  %Seq 100.00 Highlighted IDENTICAL residue LEU 221  index1  164  path  309  %Seq 100.00 Highlighted IDENTICAL residue LEU 229  index1  172  path  317  %Seq 100.00 Highlighted IDENTICAL residue TRP 231  index1  174  path  319  %Seq 100.00 Highlighted IDENTICAL residue GLU 250  index1  193  path  337  %Seq 100.00 Highlighted IDENTICAL residue PRO 254  index1  197  path  341  %Seq 100.00 Highlighted 7 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g13690-1ejlI.pir.txt.1EJL.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g13690-1ejlI.pir.txt PIR amino_acid 1EJL.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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