At2g01220.2/Structure

&&&&&&&&&&&&&&&&&&&& 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/At2g01220-2_1nup_A.pir.txt

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Assigned types to 388 residues in Sequence 2-01220-2, 41 remain unknown Assigned types to 213 residues in Sequence 1nupA, 216 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 At2g01220-2_1nup_A.pir.txt into sequence alignment.

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>1NUP.pdb Made from 3405 ATOM records in 1NUP.pdb SRIPVVLLACGSFNPITNMHLRMFEVARDHLHQTGMYQVIQGIISPVNDT YGKKDLAASHHRVAMARLALQTSDWIRVDPWESEQAQWMETVKVLRHHHS KLLAVPELKLLCGADVLKTFQTPNLWKDAHIQEIVEKFGLVCVGRVSHDP KGYIAESPILRMHQHNIHLAKEPVQNEISATYIRRALGQGQSVKYLIPDA VITYIKDHGLYTKSRIPVVLLACGSFNPITNMHLRMFEVARDHLHQTGMY QVIQGIISPVNDTYGKKDLAASHHRVAMARLALQTSDWIRVDPWESEQAQ WMETVKVLRHHHSKLLRVPELKLLCGADVLKTFQTPNLWKDAHIQEIVEK FGLVCVGRVSHDPKGYIAESPILRMHQHNIHLAKEPVQNEISATYIRRAL GQGQSVKYLIPDAVITYIKDHGLYT

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Best alignment: 1NUP.pdb     7  LLACGSFNPITNMHLRMFEVA    27 ++ GSFNP+   HL++ EVA 2-01220-2  216  IILPGSFNPLHEGHLKLLEVA   236

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Highlighted IDENTICAL residue GLY  13  index1   11  path  220  %Seq 100.00 Highlighted IDENTICAL residue SER  14  index1   12  path  221  %Seq 100.00 Highlighted IDENTICAL residue PHE  15  index1   13  path  222  %Seq 100.00 Highlighted IDENTICAL residue ASN  16  index1   14  path  223  %Seq 100.00 Highlighted IDENTICAL residue PRO  17  index1   15  path  224  %Seq 100.00 Highlighted IDENTICAL residue HIS  22  index1   20  path  229  %Seq 100.00 Highlighted IDENTICAL residue LEU  23  index1   21  path  230  %Seq 100.00 Highlighted IDENTICAL residue GLU  27  index1   25  path  234  %Seq 100.00 Highlighted IDENTICAL residue VAL  28  index1   26  path  235  %Seq 100.00 Highlighted IDENTICAL residue ALA  29  index1   27  path  236  %Seq 100.00 Highlighted 10 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01220-2_1nup_A.pir.txt.1NUP.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g01220-2_1nup_A.pir.txt PIR amino_acid 1NUP.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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