At2g02950.1/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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g02950-1c3gA.pir.txt

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Assigned types to 439 residues in Sequence 2-02950, 2 remain unknown Assigned types to 97 residues in Sequence 1c3gA, 344 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 At2g02950-1c3gA.pir.txt into sequence alignment.

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>1C3G.pdb Made from 1346 ATOM records in 1C3G.pdb ETVQVNLPVSLEDLFVGKKKSFKIGRKGPHGASEKTQIDIQLKPGWKAGT KITYKNQGDYNPQTGRRKTLQFVIQEKSHPNFKRDGDDLIYTLPLSFKES LLGFSKTIQTIDGRTLPLSRVQPVQPSQTSTYPGQGMPTPKNPSQRGNLI VKYKVDYPISLNDAQKRAID

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Best alignment: 1C3G.pdb   18  KKKSFKIGRKGPHGASEKTQ    37 K KSF+ R+  + +   TQ 2-02950    413  KPKSFETRRRISNSSISHTQ   432

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Highlighted IDENTICAL residue LYS 197  index1   18  path  415  %Seq  50.00 Highlighted IDENTICAL residue LYS 198  index1   19  path  416  %Seq  50.00 Highlighted IDENTICAL residue LYS 199  index1   20  path  417  %Seq  50.00 Highlighted IDENTICAL residue SER 200  index1   21  path  418  %Seq  50.00 Highlighted IDENTICAL residue PHE 201  index1   22  path  419  %Seq  50.00 Highlighted IDENTICAL residue LYS 202  index1   23  path  420  %Seq  50.00 Highlighted IDENTICAL residue ILE 203  index1   24  path  421  %Seq  50.00 Highlighted IDENTICAL residue GLY 204  index1   25  path  422  %Seq  50.00 Highlighted IDENTICAL residue ARG 205  index1   26  path  423  %Seq  50.00 Highlighted IDENTICAL residue LYS 206  index1   27  path  424  %Seq  50.00 Highlighted IDENTICAL residue GLY 207  index1   28  path  425  %Seq  50.00 Highlighted IDENTICAL residue PRO 208  index1   29  path  426  %Seq  50.00 Highlighted IDENTICAL residue HIS 209  index1   30  path  427  %Seq  50.00 Highlighted IDENTICAL residue GLY 210  index1   31  path  428  %Seq  50.00 Highlighted IDENTICAL residue ALA 211  index1   32  path  429  %Seq  50.00 Highlighted IDENTICAL residue SER 212  index1   33  path  430  %Seq  50.00 Highlighted IDENTICAL residue GLU 213  index1   34  path  431  %Seq  50.00 Highlighted IDENTICAL residue LYS 214  index1   35  path  432  %Seq  50.00 Highlighted IDENTICAL residue THR 215  index1   36  path  433  %Seq  50.00 Highlighted IDENTICAL residue GLN 216  index1   37  path  434  %Seq  50.00 Highlighted 20 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g02950-1c3gA.pir.txt.1C3G.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g02950-1c3gA.pir.txt PIR amino_acid 1C3G.pdb A 100.0 BLOSUM62.dat

completed successfully.

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