At2g13440.1/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
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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/At2g13440-1qo8A.pir.txt
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Assigned types to 723 residues in Sequence 2-13440, 71 remain unknown
Assigned types to 456 residues in Sequence 1qo8A, 338 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 At2g13440-1qo8A.pir.txt into sequence alignment.
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>1QO8.pdb Made from 8468 ATOM records in 1QO8.pdb
TPDMGSFHADMGSCQSCHAKPIKVTDSETHENAQCKSCHGEYAELANDKL
QFDPHNSHLGDINCTSCHKGHEEPKFYCNECHSFDIKPMPFSDAKKKKSW
DDGWDQDKIQKAIAAGPSETTQVLVVGAGSAGFNASLAAKKAGANVILVD
KAPFSGGNSMISAGGMNAVGTKQQTAHGVEDKVEWFIEDAMKGGRQQNDI
KLVTILAEQSADGVQWLESLGANLDDLKRSGGARVDRTHRPHGGKSSGPE
IIDTLRKAAKEQGIDTRLNSRVVKLVVNDDHSVVGAVVHGKHTGYYMIGA
KSVVLATGGYGMNKEMIAYYRPTMKDMTSSNNITATGDGVLMAKEIGASM
TDIDWVQAHPTVGKDSRILISETVRGVGAVMVNKDGNRFISELTTRDKAS
DAILKQPGQFAWIIFDNQLYKKAKMVRGYDHLEMLYKGDTVEQLAKSTGM
KVADLAKTVSDYNGYVASGKDTAFGRADMPLNMTQSPYYAVKVAPGIHHT
MGGVAINTTASVLDLQSKPIDGLFAAGEVTGGVHGYNRLGGNAIADTVVF
GRIAGDNAAKHALDTPDMGSFHADMGSCQSCHAKPIKVTDSETHENAQCK
SCHGEYAELANDKLQFDPHNSHLGDINCTSCHKGHEEPKFYCNECHSFDI
KPMPFSDAKKKKSWDDGWDQDKIQKAIAAGPSETTQVLVVGAGSAGFNAS
LAAKKAGANVILVDKAPFSGGNSMISAGGMNAVGTKQQTAHGVEDKVEWF
IEDAMKGGRQQNDIKLVTILAEQSADGVQWLESLGANLDDLKRSGGARVD
RTHRPHGGKSSGPEIIDTLRKAAKEQGIDTRLNSRVVKLVVNDDHSVVGA
VVHGKHTGYYMIGAKSVVLATGGYGMNKEMIAYYRPTMKDMTSSNNITAT
GDGVLMAKEIGASMTDIDWVQAHPTVGKDSRILISETVRGVGAVMVNKDG
NRFISELTTRDKASDAILKQPGQFAWIIFDNQLYKKAKMVRGYDHLEMLY
KGDTVEQLAKSTGMKVADLAKTVSDYNGYVASGKDTAFGRADMPLNMTQS
PYYAVKVAPGIHHTMGGVAINTTASVLDLQSKPIDGLFAAGEVTGGVHGY
NRLGGNAIADTVVFGRIAGDNAAKHALD
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Best alignment:
1QO8.pdb 114 AAGPSETTQVLVVGAGSAGFNASLAAKKAGANVILV 149
 A T V+VVGAG AG A+LA+ + GA+ +L+
2-13440 66 GATSDSTYDVIVVGAGHAGCEAALASARLGASTLLL 101
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Highlighted IDENTICAL residue ALA 116 index1 115 path 67 %Seq 100.00
Highlighted IDENTICAL residue THR 121 index1 120 path 72 %Seq 100.00
Highlighted IDENTICAL residue VAL 124 index1 123 path 75 %Seq 100.00
Highlighted IDENTICAL residue VAL 126 index1 125 path 77 %Seq 100.00
Highlighted IDENTICAL residue VAL 127 index1 126 path 78 %Seq 100.00
Highlighted IDENTICAL residue GLY 128 index1 127 path 79 %Seq 100.00
Highlighted IDENTICAL residue ALA 129 index1 128 path 80 %Seq 100.00
Highlighted IDENTICAL residue GLY 130 index1 129 path 81 %Seq 100.00
Highlighted IDENTICAL residue ALA 132 index1 131 path 83 %Seq 100.00
Highlighted IDENTICAL residue GLY 133 index1 132 path 84 %Seq 100.00
Highlighted IDENTICAL residue ALA 136 index1 135 path 87 %Seq 100.00
Highlighted IDENTICAL residue LEU 138 index1 137 path 89 %Seq 100.00
Highlighted IDENTICAL residue ALA 139 index1 138 path 90 %Seq 100.00
Highlighted IDENTICAL residue GLY 144 index1 143 path 95 %Seq 100.00
Highlighted IDENTICAL residue ALA 145 index1 144 path 96 %Seq 100.00
Highlighted IDENTICAL residue LEU 149 index1 148 path 100 %Seq 100.00
Highlighted 16 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g13440-1qo8A.pir.txt.1QO8.pdb.conservation.pml
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The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g13440-1qo8A.pir.txt PIR amino_acid 1QO8.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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