At2g11810.1/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 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 Got here 3 Got here 4 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g11810-1vgv_A.pir.txt

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Assigned types to 465 residues in Sequence 2-11810, 21 remain unknown Assigned types to 354 residues in Sequence 1vgv_A, 132 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 214 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 215 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 216 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 217 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 218 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 219 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 220 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 221 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 222 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 223 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 270 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 271 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 272 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 273 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 274 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 275 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 276 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 277 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 351 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 365 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 366 All residues are positively and negatively charged

Translated sequence file At2g11810-1vgv_A.pir.txt into sequence alignment.

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>1VGV.pdb Made from 11450 ATOM records in 1VGV.pdb KVLTVFGTRPEAIKAPLVHALAKDPFFEAKVCVTAQHRELDQVLKLFSIV PDYDLNIQPGQGLTEITCRILEGLKPILAEFKPDVVLVHGDTTTTLATSL AAFYQRIPVGHVEAGLRTGDLYSPWPEEANRTLTGHLAYHFSPTETSRQN LLRENVADSRIFITGNTVIDALLWVRDQVSSDKLRSELAANYPFIDPDKK ILVTGHRRESFGRGFEEICHALADIATTHQDIQIVYPVHLNPNVREPVNR ILGHVKNVILIDPQEYLPFVWLNHAWLILTDSGGIQEEAPSLGKPVLVRD TTERPEAVTAGTVRLVGTDKQRIVEEVTRLLKDENEYQASRAHNPYGDGQ ACSRILEALKNNRISLKVLTVFGTRPEAIKAPLVHALAKDPFFEAKVCVT AQHRELDQVLKLFSIVPDYDLNIQGLTEITCRILEGLKPILAEFKPDVVL VHGDTTTTLATSLAAFYQRIPVGHVEAGLRTGDLYSPWPEEANRTLTGHL AYHFSPTETSRQNLLRENVADSRIFITGNTVIDALLWVRDQVSSDKLRSE LAANYPFIDPDKKILVTGHRRESFGRGFEEICHALADIATTHQDIQIVYP VHLNPNVREPVNRILGHVKNVILIDPQEYLPFVWLNHAWLILTDSGGIQE EAPSLGKPVLVRDTTERPEAVTAGTVRLVGTDKQRIVEEVTRLLKDENEY QASRAHNPYGDGQACSRILEALKNNRISLKVLTVFGTRPEAIKAPLVHAL AKDPFFEAKVCVTAQHRELDQVLKLFSIVPDYDLNIGQGLTEITCRILEG LKPILAEFKPDVVLVHGDTTTTLATSLAAFYQRIPVGHVEAGLRTGDLYS PWPEEANRTLTGHLAYHFSPTETSRQNLLRENVADSRIFITGNTVIDALL WVRDQVSSDKLRSELAANYPFIDPDKKILVTGHRFGRGFEEICHALADIA TTHQDIQIVYPVHLNPNVREPVNRILGHVKNVILIDPQEYLPFVWLNHAW LILTDSGGIQEEAPSLGKPVLVRDTTERPEAVTAGTVRLVGTDKQRIVEE VTRLLKDENEYQASRAHNPYGDGQACSRILEALKNNRKVLTVFGTRPEAI KAPLVHALAKDPFFEAKVCVTAQHRELDQVLKLFSIVPDYDLNIQPGQGL TEITCRILEGLKPILAEFKPDVVLVHGDTTTTLATSLAAFYQRIPVGHVE AGLRTGDLYSPWPEEANRTLTGHLAYHFSPTETSRQNLLRENVADSRIFI TGNTVIDALLWVRDQVSSDKLRSELAANYPFIDPDKKILVTGHRRESFGR GFEEICHALADIATTHQDIQIVYPVHLNPNVREPVNRILGHVKNVILIDP QEYLPFVWLNHAWLILTDSGGIQEEAPSLGKPVLVRDTTERPEAVTAGTV RLVGTDKQRIVEEVTRLLKDENEYQASRAHNPYGDGQACSRILEALKNNR I

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Best alignment: 1VGV.pdb  271  WLNHAWLILTDSG-GIQEEAPSLGKPVLVRD   300 W+    I+T +G G   EA   G P+++ D 2-11810    351  WMGACDCIITKAGPGTIAEALICGLPIILND   381

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Highlighted IDENTICAL residue LEU 279  index1  272  path  373  %Seq 100.00 Highlighted IDENTICAL residue ILE 286  index1  278  path  379  %Seq 100.00 Highlighted IDENTICAL residue THR 288  index1  280  path  381  %Seq 100.00 Highlighted IDENTICAL residue GLY 291  index1  283  path  384  %Seq 100.00 Highlighted IDENTICAL residue GLY 292  index1  284  path  386  %Seq 100.00 Highlighted IDENTICAL residue GLU 296  index1  288  path  390  %Seq 100.00 Highlighted IDENTICAL residue ALA 297  index1  289  path  391  %Seq 100.00 Highlighted IDENTICAL residue GLY 301  index1  293  path  395  %Seq 100.00 Highlighted IDENTICAL residue PRO 303  index1  295  path  397  %Seq 100.00 Highlighted 9 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g11810-1vgv_A.pir.txt.1VGV.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g11810-1vgv_A.pir.txt PIR amino_acid 1VGV.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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