At2g01400.1/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/At2g01400_1u00_A.pir.txt

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Assigned types to 146 residues in Sequence 2-01400, 26 remain unknown Assigned types to 123 residues in Sequence 1u00_A, 49 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 35 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 36 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 37 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 38 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 39 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 40 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 41 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 71 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 72 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 73 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 74 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 75 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 76 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 77 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 78 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 79 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 80 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 113 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 114 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 115 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 116 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 117 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 118 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 119 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 120 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 121 All residues are positively and negatively charged

Translated sequence file At2g01400_1u00_A.pir.txt into sequence alignment.

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>1U00.pdb Made from 1738 ATOM records in 1U00.pdb MDVIPLSLGLETMGGLVEKVIPRNTTIPVARAQDFTTFKDGQTAMSIHVM QGERELVQDCRSLARFALRGIPALPAGGAHIRVTFQVDADGLLSVTAMEK STGVEASIQVKPSYGLTDSEIASMIKDSMSYAEQDVKARMLAEQKVEAAR VLESLHGALAADAALLSAAERQVIDDAAAHLSEVAQGDDVDAIEQAIKNV DKQTQDFAARRMDQSVRRALKGHSVDEELPPVKIHC

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Best alignment: 1U00.pdb  213  DQSVRRALKGHSVDEELPP   231 +Q + + L+  V   LPP 2-01400   118  NQKIEKELEKEEVFPLLPP   136

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Highlighted IDENTICAL residue ARG 605  index1  217  path  148  %Seq 100.00 Highlighted IDENTICAL residue LYS 609  index1  221  path  152  %Seq 100.00 Highlighted IDENTICAL residue VAL 613  index1  225  path  156  %Seq 100.00 Highlighted IDENTICAL residue GLU 615  index1  227  path  158  %Seq  50.00 Highlighted IDENTICAL residue GLU  98  index1  228  path  159  %Seq  50.00 Highlighted IDENTICAL residue LEU  99  index1  229  path  160  %Seq  50.00 Highlighted IDENTICAL residue PRO 100  index1  230  path  161  %Seq  50.00 Highlighted IDENTICAL residue PRO 101  index1  231  path  162  %Seq  50.00 Highlighted 8 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01400_1u00_A.pir.txt.1U00.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g01400_1u00_A.pir.txt PIR amino_acid 1U00.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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