At2g04039.1/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 Sequence 2 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/At2g04039-1-2bkv_A.pir.txt

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Assigned types to 199 residues in Sequence 2-04039-1, 0 remain unknown Assigned types to 68 residues in Sequence 2bkv_A, 131 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 At2g04039-1-2bkv_A.pir.txt into sequence alignment.

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>2BKV.pdb Made from 3889 ATOM records in 2BKV.pdb MKVMECQTYEELSQIAARITADTIKEKPDAVLGLATGGTPEGTYRQLIRL HQTENLSFQNITTVNLDEYAGLSSDDPNSYHFYMNDRFFQHIDSKPSRHF IPNGNADDLEAECRRYEQLVDSLGDTDIQLLGIGRNGHIGFNEPGTSFKS RTHVVTLNEQTRQANARYFPSIDSVPKKALTMGIQTILSSKRILLLISGK SKAEAVRKLLEGNISEDFPASALHLHSDVTVLIDREAASLRMKVMECQTY EELSQIAARITADTIKEKPDAVLGLATGGTPEGTYRQLIRLHQTENLSFQ NITTVNLDEYAGLSSDDPNSYHFYMNDRFFQHIDSKPSRHFIPNGNADDL EAECRRYEQLVDSLGDTDIQLLGIGRNGHIGFNEPGTSFKSRTHVVTLNE QTRQANARYFPSIDSVPKKALTMGIQTILSSKRILLLISGKSKAEAVRKL LEGNISEDFPASALHLHSDVTVLIDREAASLRP

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Best alignment: 2BKV.pdb   174  SVPKKALTMGIQTILSSKRI--LLLISGKSKAEAVRKLLE   211 VP  +++   T+ SS  +  L L SG  K   +R  L+ 2-04039-1    10  GVPSSRISITTPTLSSSSLLPPLTLQSGTRKDNLLRCALQ    49

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Highlighted IDENTICAL residue SER 174  index1  174  path   10  %Seq  50.00 Highlighted IDENTICAL residue VAL 175  index1  175  path   11  %Seq 100.00 Highlighted IDENTICAL residue PRO 176  index1  176  path   12  %Seq 100.00 Highlighted IDENTICAL residue THR 186  index1  186  path   22  %Seq 100.00 Highlighted IDENTICAL residue SER 189  index1  189  path   25  %Seq 100.00 Highlighted IDENTICAL residue SER 190  index1  190  path   26  %Seq 100.00 Highlighted IDENTICAL residue LEU 194  index1  194  path   32  %Seq 100.00 Highlighted IDENTICAL residue LEU 196  index1  196  path   34  %Seq 100.00 Highlighted IDENTICAL residue SER 198  index1  198  path   36  %Seq 100.00 Highlighted IDENTICAL residue GLY 199  index1  199  path   37  %Seq 100.00 Highlighted IDENTICAL residue LYS 202  index1  202  path   40  %Seq 100.00 Highlighted IDENTICAL residue ARG 207  index1  207  path   45  %Seq 100.00 Highlighted IDENTICAL residue LEU 210  index1  210  path   48  %Seq 100.00 Highlighted 13 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g04039-1-2bkv_A.pir.txt.2BKV.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g04039-1-2bkv_A.pir.txt PIR amino_acid 2BKV.pdb A 100.0 BLOSUM62.dat

completed successfully.

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