At2g10550.1/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
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Got here 3
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Sequence 2
Got here 3
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Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g10550-c1pia_.pir.txt
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Assigned types to 170 residues in Sequence 2-10550, 20 remain unknown
Assigned types to 169 residues in Sequence c1puia_, 21 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 At2g10550-c1pia_.pir.txt into sequence alignment.
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>1PUI.pdb Made from 2613 ATOM records in 1PUI.pdb
FVMSAPDIRHLPSDTGIEVAFAGRSNAGKSSALNTLTNQQLINLFEVADG
KRLVDLPGYGEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQM
IEWAVDSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFS
SLKKQGVDKLRQKLDTWFSVMSAPDIRHLPSDTGIEVAFAGRSNAGKSSA
LNTLTNQLINLFEVADGKRLVDLPGYRKWQRALGEYLEKRQSLQGLVVLM
DIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLASGARKAQLNMVREAV
LAFNGDVQVETFSSLKKQGVDKLRQKLDTWFSE
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Best alignment:
1PUI.pdb 9 RHLPSDTGIEVAFAGRSNAGKSSALNTLTN 38
 + L + +F S AG+S L ++ N
2-10550 17 KRLKASPSSSSSFPAVSVAGRSRDLGSVAN 46
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Highlighted IDENTICAL residue THR 25 index1 15 path 23 %Seq 100.00
Highlighted IDENTICAL residue GLY 26 index1 16 path 24 %Seq 100.00
Highlighted IDENTICAL residue ALA 30 index1 20 path 28 %Seq 50.00
Highlighted IDENTICAL residue PHE 31 index1 21 path 29 %Seq 50.00
Highlighted IDENTICAL residue ARG 34 index1 24 path 32 %Seq 100.00
Highlighted IDENTICAL residue ALA 37 index1 27 path 35 %Seq 100.00
Highlighted IDENTICAL residue GLY 38 index1 28 path 36 %Seq 100.00
Highlighted IDENTICAL residue LYS 39 index1 29 path 37 %Seq 100.00
Highlighted IDENTICAL residue SER 40 index1 30 path 38 %Seq 100.00
Highlighted IDENTICAL residue LEU 43 index1 33 path 46 %Seq 100.00
Highlighted IDENTICAL residue ASN 48 index1 38 path 51 %Seq 100.00
Highlighted 11 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g10550-c1pia_.pir.txt.1PUI.pdb.conservation.pml
===============================================================================
The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g10550-c1pia_.pir.txt PIR amino_acid 1PUI.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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