At2g01870.1/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/At2g01870_1fi6A.pir.txt

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Assigned types to 157 residues in Sequence 2-01870, 3 remain unknown Assigned types to 88 residues in Sequence 1fi6A, 72 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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Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 55 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 56 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 57 All residues are positively and negatively charged

Translated sequence file At2g01870_1fi6A.pir.txt into sequence alignment.

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>1FI6.pdb Made from 1496 ATOM records in 1FI6.pdb WKITDEQRQYYVNQFKTIQPDLNGFIPGSAAKEFFTKSKLPILELSHIWE LSDFDKDGALTLDEFCAAFHLVVARKNGYDLPEKLPESLMPK

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Best alignment: 1FI6.pdb   71  LVVARKNGYDLPEKLPE    87 +  K   D PE +PE 2-01870   115  FITVIKPSMDGPESVPE   131

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Highlighted IDENTICAL residue LEU  76  index1   71  path  118  %Seq  50.00 Highlighted IDENTICAL residue VAL  77  index1   72  path  119  %Seq  50.00 Highlighted IDENTICAL residue VAL  78  index1   73  path  120  %Seq  50.00 Highlighted IDENTICAL residue ALA  79  index1   74  path  121  %Seq  50.00 Highlighted IDENTICAL residue ARG  80  index1   75  path  122  %Seq  50.00 Highlighted IDENTICAL residue LYS  81  index1   76  path  123  %Seq  50.00 Highlighted IDENTICAL residue ASN  82  index1   77  path  124  %Seq 100.00 Highlighted IDENTICAL residue PRO  91  index1   86  path  133  %Seq 100.00 Highlighted 8 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01870_1fi6A.pir.txt.1FI6.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g01870_1fi6A.pir.txt PIR amino_acid 1FI6.pdb A 100.0 BLOSUM62.dat

completed successfully.

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