At2g10390.1/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/At2g10390-1g3jA.pir.txt

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Assigned types to 194 residues in Sequence 2-10390, 11 remain unknown Assigned types to 174 residues in Sequence 1g3jA, 31 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 158 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 159 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 160 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 161 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 162 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 163 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 164 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 165 All residues are positively and negatively charged

Translated sequence file At2g10390-1g3jA.pir.txt into sequence alignment.

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>1G3J.pdb Made from 7531 ATOM records in 1G3J.pdb HAVVNLINYQDDAELATRAIPELTKLLNDEDQVVVNKAAVMVHQLSKKEA SRHAIMRSPQMVSAIVRTMQNTNDVETARCTAGTLHNLSHHREGLLAIFK SGGIPALVKMLGSPVDSVLFYAITTLHNLLLHQEGAKMAVRLAGGLQKMV ALLNKTNVKFLAITTDCLQILAYGNQESKLIILASGGPQALVNIMRTYTY EKLLWTTSRVLKVLSVCSSNKPAIVEAGGMQALGLHLTDPSQRLVQNCLW TLRNLSDAATKQEGMEGLLGTLVQLLGSDDINVVTCAAGILSNLTCNNYK NKMMVCQVGGIEALVRTVLRAGDREDITEPAICALRHLTSRHQEAEMAQN AVRLHYGLPVVVKLLHPPSHWPLIKATVGLIRNLALCPANHAPLREQGAI PRLVQLLVRAHQDTQRRFVEGVRMEEIVEGCTGALHILARDVHNRIVIRG LNTIPLFVQLLYSPIENIQRVAAGVLCELAQDKEAAEAIEAEGATAPLTE LLHSRNEGVATYAAAVLFRMSEPQLNSGGGDELGANDELIRFKDEGEQEE DLADVKSSLVNESHHREGLLAIFKSGGIPALVKMLGSPVDSVLFYAITTL HNLLLHQEGAKMAVRLAGGLQKMVALLNKTNVKFLAITTDCLQILAYGNQ ESKLIILASGGPQALVNIMRTYTYEKLLWTTSRVLKVLSVCSSNKPAIVE AGGMQALGLHLTDPSQRLVQNCLWTLRNLSDAATKQEGMEGLLGTLVQLL GSDDINVVTCAAGILSNLTCNNYKNKMMVCQVGGIEALVRTVLRAGDRED ITEPAICALRHLTSRHQEAEMAQNAVRLHYGLPVVVKLLHPPSHWPLIKA TVGLIRNLALCPANHAPLREQGAIPRLVQLLVRAHQDTQRRTSMGQQFVE GVRMEEIVEGCTGALHILARDVHNRIVIRGLNTIPLFVQLLYSPIENIQR VAAGVLCELAQDKEAAEAIEAEGATAPLTELLHSRNEGVATYAAAVLFRM SEPQLNSGGGDELGANDELIRFKDEDLADVKSSLVN

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Best alignment: 1G3J.pdb    1  HAVVNLINYQDDAELATRAIPE    22 H++  IN Q   ++A   IPE 2-10390     9  HSITQPINTQ--RKIARLYIPE    28

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Highlighted IDENTICAL residue HIS 134  index1    1  path    9  %Seq 100.00 Highlighted IDENTICAL residue LEU 148  index1   15  path   21  %Seq 100.00 Highlighted 2 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g10390-1g3jA.pir.txt.1G3J.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g10390-1g3jA.pir.txt PIR amino_acid 1G3J.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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