At2g05310.1/PDB

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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
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Sequence 1
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Sequence 2
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Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g05310-2gt1A0.pir.txt
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Assigned types to 125 residues in Sequence 2-05310, 124 remain unknown
Assigned types to 323 residues in Sequence 2gt1A0, 10 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 At2g05310-2gt1A0.pir.txt into sequence alignment.
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>2GT1.pdb Made from 4930 ATOM records in 2GT1.pdb
MRVLIVKTSSMGDVLHTLPALTDAQQAIPGIKFDWVVEEGFAQIPSWHAA
VERVIPVAIRRWRKAWFSAPIKAERKAFREALQAKNYDAVIDAQGLVKSA
ALVTRLAHGVKHGMDWQTAREPLASLFYNRKHHIAKQQHAVERTRELFAK
SLGYSKPQTQGDYAIAQHFLTNLPTDAGEYAVFLHATTRDDKHWPEEHWR
ELIGLLADSGIRIKLPWGAPHEEERAKRLAEGFAYVEVLPKMSLEGVARV
LAGAKFVVSVDTGLSHLTAALDRPNITVYGPTDPGLIGGYGKNQMVCRAP
GNELSQLTANAVKQFIEENAEKAMRVLIVKTSSMGDVLHTLPALTDAQQA
IPGIKFDWVVEEGFAQIPSWHAAVERVIPVAIRRWRKRKAFREALQAKNY
DAVIDAQGLVKSAALVTRLAHGVKHGMDWQTAREPLASLFYNRKHHIAKQ
QHAVERTRELFAKSLGYSKPQTQGDYAIAQHFLTNGEYAVFLHATTRDDK
HWPEEHWRELIGLLADSGIRIKLPWGAPHEEERAKRLAEGFAYVEVLPKM
SLEGVARVLAGAKFVVSVDTGLSHLTAALDRPNITVYGPTDPNQMVCRAP
GNELSQLTANAVKQFIEENAEKAAMI
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Best alignment:
2GT1.pdb 195 PEEHWRELIGLLADSGIRIKLPW 217
 PE++W+ + ++ ++ LP+
2-05310 76 PEQYWQSVGEREGENPMKTPLPY 98
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Highlighted IDENTICAL residue PRO 195 index1 195 path 200 %Seq 100.00
Highlighted IDENTICAL residue GLU 196 index1 196 path 201 %Seq 100.00
Highlighted IDENTICAL residue TRP 199 index1 199 path 204 %Seq 100.00
Highlighted IDENTICAL residue LEU 206 index1 206 path 211 %Seq 50.00
Highlighted IDENTICAL residue ALA 207 index1 207 path 212 %Seq 50.00
Highlighted IDENTICAL residue ASP 208 index1 208 path 213 %Seq 50.00
Highlighted IDENTICAL residue SER 209 index1 209 path 214 %Seq 50.00
Highlighted IDENTICAL residue GLY 210 index1 210 path 215 %Seq 50.00
Highlighted 8 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g05310-2gt1A0.pir.txt.2GT1.pdb.conservation.pml
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The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g05310-2gt1A0.pir.txt PIR amino_acid 2GT1.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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