At2g14880.1/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
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Got here 3
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Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g14880-1v31A.pir.txt
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Assigned types to 141 residues in Sequence 2-14880-141, 0 remain unknown
Assigned types to 83 residues in Sequence 1v31A, 58 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 At2g14880-1v31A.pir.txt into sequence alignment.
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>1V31.pdb Made from 1426 ATOM records in 1V31.pdb
GSSGSSGVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPND
PSFFNCDAALQKVFGEEKLKFTMVSQKISHHLSPPPPSGPSSG
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Best alignment:
1V31.pdb 7 GVPEKFKLSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNC 56
 G+ + +S + D++ + R + + IW Y+K LQ+P + C
2-14880-141 64 GIMKPRPVSPEMQDIVELPEIARTQALKRIWAYIKEHDLQDPQNKREILC 113
1V31.pdb 57 DAALQKVF-GEEKLKFTMVSQKISHH 81
 D L+K+F G +++ F +++ I H
2-14880-141 114 DEKLKKIFEGRDRVGFLEIAKLIGPH 139
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Highlighted IDENTICAL residue GLY 7 index1 7 path 64 %Seq 100.00
Highlighted IDENTICAL residue SER 15 index1 15 path 72 %Seq 100.00
Highlighted IDENTICAL residue ASP 20 index1 20 path 77 %Seq 100.00
Highlighted IDENTICAL residue ARG 29 index1 29 path 86 %Seq 100.00
Highlighted IDENTICAL residue ILE 36 index1 36 path 93 %Seq 100.00
Highlighted IDENTICAL residue TRP 37 index1 37 path 94 %Seq 100.00
Highlighted IDENTICAL residue TYR 39 index1 39 path 96 %Seq 100.00
Highlighted IDENTICAL residue LYS 41 index1 41 path 98 %Seq 100.00
Highlighted IDENTICAL residue LEU 45 index1 45 path 102 %Seq 100.00
Highlighted IDENTICAL residue GLN 46 index1 46 path 103 %Seq 100.00
Highlighted IDENTICAL residue PRO 48 index1 48 path 105 %Seq 100.00
Highlighted IDENTICAL residue CYS 56 index1 56 path 113 %Seq 100.00
Highlighted IDENTICAL residue ASP 57 index1 57 path 114 %Seq 100.00
Highlighted IDENTICAL residue LEU 60 index1 60 path 117 %Seq 100.00
Highlighted IDENTICAL residue LYS 62 index1 62 path 119 %Seq 100.00
Highlighted IDENTICAL residue PHE 64 index1 64 path 121 %Seq 100.00
Highlighted IDENTICAL residue GLY 65 index1 65 path 123 %Seq 100.00
Highlighted IDENTICAL residue PHE 71 index1 71 path 129 %Seq 100.00
Highlighted IDENTICAL residue ILE 78 index1 78 path 136 %Seq 100.00
Highlighted IDENTICAL residue HIS 81 index1 81 path 139 %Seq 100.00
Highlighted 20 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g14880-1v31A.pir.txt.1V31.pdb.conservation.pml
===============================================================================
The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g14880-1v31A.pir.txt PIR amino_acid 1V31.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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