At2g01220.2/Structure

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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
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Sequence 1
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Sequence 2
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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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