At2g04360.1/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 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 Got here 3 Got here 4 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g04360-1oe9A.pir.txt

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Assigned types to 320 residues in Sequence 2-4360, 34 remain unknown Assigned types to 245 residues in Sequence 1oe9A, 109 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 At2g04360-1oe9A.pir.txt into sequence alignment.

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>1OE9.pdb Made from 6925 ATOM records in 1OE9.pdb ELYTKYARVWIPDPEEVWKSAELLKDYKPGDKVLQLRLDLEYCLKELPPL RNPDILVGENDLTALSYLHEPAVLHNLKVRFIDSKLIYTYCGIVLVAINP YEQLPIYGEDIINAYSGQNMGDMDPHIFAVAEEAYKQMARDERNQSIIVS GESGAGKTVSAKYAMRYFATVSNVEEKVLASNPIMESIGNAKTTRNDNSS RFGKYIEIGFDKRYRIIGANMRTYLLEKSRVVFQAEEERNYHIFYQLCAS AALPEFKTLRLGNANYFHYTKQGGSPVIDGIDDAKEMVNTRQACTLLGIS DSYQMGIFRILAGILHLGNVEFASRDSDSCAIPPKHDPLTIFCDLMGVDY EEMAHWLCHRKLATYIKPISKLHAINARDALAKHIYANLFNWIVDHVNKA LHSTVKQHSFIGVLDIYGFETFEINSFEQFCINYANEKLQQQFNMHVFKL EQEEYMKEQIPDFYDNQPCINLIEAKMGVLDLLDEECKMPKGSDDTWAQK LYNTHLNKCALFEKPRLSNKAFIIKHFADKVEYQCEGFLEKNKDTVYEEQ IKVLKSSKKFKLLPELFHKKTVGHQFRNSLHLLMETLNATTPHYVRCIKP NDFKFPFTFDEKRAVQQLRACGVLETIRISAAGFPSRWTYQEFFSRYRVL MKQKDVLSDRKQTCKNVLEKLILDKDKYQFGKTKIFFRAGQVAYLEKIRA DKLRAACIRIQKTIRGWLMRKKYMRMRRGDAFNKDQLEEFKEAFELFDRV GDGKILYSQCGDVMRALGQNPTNAEVLKVLGNPKSDELKSRRVDFETFLP MLQAVAKYEDYLEGFRVFDGNGKVMGAELRHVLTTLGEKMTEEEVETVLA GHEDSNGCINYEAFLKHILS

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Best alignment: 1OE9.pdb   90  YCGIVLVAINPYEQLPIYGEDIINAYSGQNMGDMDPHIFAVAEEAYKQMA   139 YCGIVLVAINPYEQLPIYGEDIINAYSGQNMGDMDPHIFAVAEEAYKQMA 1oe9A       1  YCGIVLVAINPYEQLPIYGEDIINAYSGQNMGDMDPHIFAVAEEAYKQMA    50

1OE9.pdb  140  RDERNQSIIVSGESGAGKTVSAKYAMRYFATV--SNVEEKVLASNP   183 RDERNQSIIVSGESGAGKTVSAKYAMRYFATV     +NVEEKVLASNP 1oe9A      51  RDERNQSIIVSGESGAGKTVSAKYAMRYFATVSGSASEANVEEKVLASNP   100

1OE9.pdb  184  IMESIGNAKTTRNDNSSRFGKYIEIGFDKRYRIIGANMRTYLLEKSRVVF   233 IMESIGNAKTTRNDNSSRFGKYIEIGFDKRYRIIGANMRTYLLEKSRVVF 1oe9A     101  IMESIGNAKTTRNDNSSRFGKYIEIGFDKRYRIIGANMRTYLLEKSRVVF   150

1OE9.pdb  234  QAEEERNYHIFYQLCASAALPEFKTLRLGNANYFHYTKQGGSPVIDGIDD   283 QAEEERNYHIFYQLCASAALPEFKTLRLGNANYFHYTKQGGSPVIDGIDD 1oe9A     151  QAEEERNYHIFYQLCASAALPEFKTLRLGNANYFHYTKQGGSPVIDGIDD   200

1OE9.pdb  284  AKEMVNTRQACTLLGISDSYQMGIFRILAGILHLGNVEFASRDSD   328 AKEMVNTRQACTLLGISDSYQMGIFRILAGILHLGNVEFASRDSD 1oe9A     201  AKEMVNTRQACTLLGISDSYQMGIFRILAGILHLGNVEFASRDSD   245

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Highlighted IDENTICAL residue GLY 104  index1   92  path    3  %Seq 100.00 Highlighted IDENTICAL residue LEU 116  index1  104  path   15  %Seq 100.00 Highlighted IDENTICAL residue PRO 117  index1  105  path   16  %Seq 100.00 Highlighted IDENTICAL residue ILE 118  index1  106  path   29  %Seq  50.00 Highlighted IDENTICAL residue TYR 119  index1  107  path   30  %Seq  50.00 Highlighted IDENTICAL residue GLN 130  index1  118  path   41  %Seq 100.00 Highlighted IDENTICAL residue PRO 137  index1  125  path   48  %Seq 100.00 Highlighted IDENTICAL residue HIS 138  index1  126  path   49  %Seq 100.00 Highlighted IDENTICAL residue ALA 141  index1  129  path   52  %Seq 100.00 Highlighted IDENTICAL residue ALA 146  index1  134  path   57  %Seq  50.00 Highlighted IDENTICAL residue TYR 147  index1  135  path   58  %Seq  50.00 Highlighted IDENTICAL residue LYS 148  index1  136  path   59  %Seq  50.00 Highlighted IDENTICAL residue GLN 149  index1  137  path   60  %Seq  50.00 Highlighted IDENTICAL residue MET 150  index1  138  path   61  %Seq  50.00 Highlighted IDENTICAL residue ALA 151  index1  139  path   62  %Seq  50.00 Highlighted IDENTICAL residue SER 165  index1  153  path   76  %Seq 100.00 Highlighted IDENTICAL residue LYS 174  index1  162  path   85  %Seq 100.00 Highlighted IDENTICAL residue PHE 180  index1  168  path   91  %Seq  50.00 Highlighted IDENTICAL residue ALA 181  index1  169  path   92  %Seq  50.00 Highlighted IDENTICAL residue THR 182  index1  170  path   93  %Seq  50.00 Highlighted IDENTICAL residue VAL 183  index1  171  path   94  %Seq  50.00 Highlighted IDENTICAL residue LEU 197  index1  179  path  108  %Seq 100.00 Highlighted IDENTICAL residue ALA 209  index1  191  path  120  %Seq 100.00 Highlighted IDENTICAL residue THR 211  index1  193  path  122  %Seq  50.00 Highlighted IDENTICAL residue THR 212  index1  194  path  123  %Seq  50.00 Highlighted IDENTICAL residue ARG 213  index1  195  path  124  %Seq  50.00 Highlighted IDENTICAL residue GLY 236  index1  218  path  155  %Seq 100.00 Highlighted IDENTICAL residue LEU 243  index1  225  path  162  %Seq 100.00 Highlighted IDENTICAL residue PHE 262  index1  244  path  184  %Seq 100.00 Highlighted IDENTICAL residue LEU 265  index1  247  path  187  %Seq 100.00 Highlighted IDENTICAL residue LEU 279  index1  261  path  202  %Seq 100.00 Highlighted IDENTICAL residue ASN 281  index1  263  path  204  %Seq 100.00 Highlighted IDENTICAL residue PHE 285  index1  267  path  208  %Seq  50.00 Highlighted IDENTICAL residue HIS 286  index1  268  path  209  %Seq  50.00 Highlighted IDENTICAL residue TYR 287  index1  269  path  210  %Seq  50.00 Highlighted IDENTICAL residue THR 288  index1  270  path  211  %Seq  50.00 Highlighted IDENTICAL residue LYS 289  index1  271  path  212  %Seq  50.00 Highlighted IDENTICAL residue GLN 290  index1  272  path  213  %Seq  50.00 Highlighted IDENTICAL residue GLY 291  index1  273  path  214  %Seq  50.00 Highlighted IDENTICAL residue GLY 292  index1  274  path  215  %Seq  50.00 Highlighted IDENTICAL residue SER 293  index1  275  path  216  %Seq  50.00 Highlighted IDENTICAL residue PRO 294  index1  276  path  217  %Seq  50.00 Highlighted IDENTICAL residue VAL 295  index1  277  path  218  %Seq  50.00 Highlighted IDENTICAL residue ILE 296  index1  278  path  219  %Seq  50.00 Highlighted IDENTICAL residue THR 313  index1  295  path  236  %Seq  50.00 Highlighted IDENTICAL residue LEU 314  index1  296  path  237  %Seq  50.00 Highlighted IDENTICAL residue LEU 315  index1  297  path  238  %Seq  50.00 Highlighted IDENTICAL residue GLY 316  index1  298  path  239  %Seq  50.00 Highlighted IDENTICAL residue ILE 317  index1  299  path  240  %Seq  50.00 Highlighted IDENTICAL residue SER 318  index1  300  path  241  %Seq  50.00 Highlighted IDENTICAL residue ASP 319  index1  301  path  242  %Seq  50.00 Highlighted IDENTICAL residue LEU 329  index1  311  path  252  %Seq 100.00 Highlighted IDENTICAL residue LEU 333  index1  315  path  256  %Seq 100.00 Highlighted IDENTICAL residue ASP 346  index1  328  path  269  %Seq 100.00 Highlighted 54 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g04360-1oe9A.pir.txt.1OE9.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g04360-1oe9A.pir.txt PIR amino_acid 1OE9.pdb A 100.0 BLOSUM62.dat

completed successfully.

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