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 Got here 4 Got here 3 Got here 4 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

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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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