At2g02590.1/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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g02590-1fx8A.pir.txt

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Assigned types to 324 residues in Sequence 2-02590, 24 remain unknown Assigned types to 184 residues in Sequence 1fx8A, 164 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 230 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 231 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 232 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 233 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 234 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 235 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 286 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 287 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 288 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 289 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 290 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 291 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 292 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 293 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 294 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 295 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 322 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 323 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 324 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 325 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 326 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 327 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 328 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 329 All residues are positively and negatively charged

Translated sequence file At2g02590-1fx8A.pir.txt into sequence alignment.

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>1FX8.pdb Made from 1895 ATOM records in 1FX8.pdb TLKGQCIAEFLGTGLLIFFGVGCVAALKVAGASFGQWEISVIWGLGVAMA IYLTAGVSGAHLNPAVTIALWLFACFDKRKVIPFIVSQVAGAFCAAALVY GLYYNLFFDFEQTHHIVRGSVESVDLAGTFSTYPNPHINFVQAFAVEMVI TAILMGLILALTDDGNGVPRGPLAPLLIGLLIAVIGASMGPLTGFAMNPA RDFGPKVFAWLAGWGNVAFTGGRDIPYFLVPLFGPIVGAIVGAFAYRKLI GRHL

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Best alignment: 1FX8.pdb   34  FGQWEISVIWGLGVAMAIYLTAGVSGAHLNPAVTIALWLFACFDKRKVIP    83 FG + +V++ L     I L   +   +      + L  F+       +P 2-02590   143  FGWPDEAVVFALATLPVIELRGAIPVGYWMQLKPVVLTSFSVLGNMVPVP   192

1FX8.pdb   84  FIV    86 FIV 2-02590   193  FIV   195

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Highlighted IDENTICAL residue PHE  39  index1   34  path  143  %Seq 100.00 Highlighted IDENTICAL residue GLY  40  index1   35  path  144  %Seq 100.00 Highlighted IDENTICAL residue VAL  46  index1   41  path  150  %Seq 100.00 Highlighted IDENTICAL residue LEU  50  index1   45  path  154  %Seq 100.00 Highlighted IDENTICAL residue ILE  56  index1   51  path  160  %Seq 100.00 Highlighted IDENTICAL residue LEU  58  index1   53  path  162  %Seq 100.00 Highlighted IDENTICAL residue LEU  67  index1   62  path  171  %Seq  50.00 Highlighted IDENTICAL residue ASN  68  index1   63  path  172  %Seq  50.00 Highlighted IDENTICAL residue PRO  69  index1   64  path  173  %Seq  50.00 Highlighted IDENTICAL residue ALA  70  index1   65  path  174  %Seq 100.00 Highlighted IDENTICAL residue THR  72  index1   67  path  176  %Seq 100.00 Highlighted IDENTICAL residue ALA  74  index1   69  path  178  %Seq 100.00 Highlighted IDENTICAL residue LYS  85  index1   80  path  189  %Seq  50.00 Highlighted 13 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g02590-1fx8A.pir.txt.1FX8.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g02590-1fx8A.pir.txt PIR amino_acid 1FX8.pdb A 100.0 BLOSUM62.dat

completed successfully.

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