At2g04530.1/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 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 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/At2g04530-2cbnA.pir.txt

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Assigned types to 354 residues in Sequence 2-4530, 28 remain unknown Assigned types to 299 residues in Sequence 2cbnA, 83 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 At2g04530-2cbnA.pir.txt into sequence alignment.

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>2CBN.pdb Made from 2267 ATOM records in 2CBN.pdb AMNLIFLGTSAGVPTRTRNVTAILLNLQHPTQSGLWLFDCGEGTQHQLLH TAFNPGKLDKIFISHLHGDHLFGLPGLLCSRSMSGIIQPLTIYGPQGIRE FVETALRISGSWTDYPLEIVEIGAGEILDDGLRKVTAYPLEHPLECYGYR IEEHDAPGALNAQALKAAGVPPGPLFQELKAGKTITLEDGRQINGADYLA APVPGKALAIFGDTGPCDAALDLAKGVDVMVHEATLDITMEAKANSRGHS STRQAATLAREAGVGKLIITHVSSRYDDKGCQHLLRECRSIFPATELAND FTVFNV

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Best alignment: 2CBN.pdb   61  IFISHLHGDHLFGLPGLLCSRSMSGIIQPLTIYGPQGIREFVETALRISG   110 +FI+H H DH+ GLP + SR +   ++P  I+ P  I+E VE  L I  2-4530     119  LFITHAHLDHIGGLPMYVASRGLYN-LEPPKIFVPPSIKEDVEKLLEIHR   167

2CBN.pdb  111  SW--TDYPLEIVEIGAGE   126 +   +  +E++ +  GE 2-4530     168  TMGQVELNVELIPLAVGE   185

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Highlighted IDENTICAL residue PHE  61  index1   62  path  128  %Seq 100.00 Highlighted IDENTICAL residue ILE  62  index1   63  path  129  %Seq 100.00 Highlighted IDENTICAL residue HIS  64  index1   65  path  131  %Seq 100.00 Highlighted IDENTICAL residue HIS  66  index1   67  path  133  %Seq 100.00 Highlighted IDENTICAL residue ASP  68  index1   69  path  135  %Seq 100.00 Highlighted IDENTICAL residue HIS  69  index1   70  path  136  %Seq 100.00 Highlighted IDENTICAL residue GLY  72  index1   73  path  139  %Seq 100.00 Highlighted IDENTICAL residue LEU  73  index1   74  path  140  %Seq 100.00 Highlighted IDENTICAL residue PRO  74  index1   75  path  141  %Seq 100.00 Highlighted IDENTICAL residue SER  79  index1   80  path  146  %Seq 100.00 Highlighted IDENTICAL residue ARG  80  index1   81  path  147  %Seq 100.00 Highlighted IDENTICAL residue PRO  88  index1   89  path  155  %Seq 100.00 Highlighted IDENTICAL residue ILE  91  index1   92  path  158  %Seq 100.00 Highlighted IDENTICAL residue PRO  94  index1   95  path  161  %Seq 100.00 Highlighted IDENTICAL residue ILE  97  index1   98  path  164  %Seq 100.00 Highlighted IDENTICAL residue GLU  99  index1  100  path  166  %Seq 100.00 Highlighted IDENTICAL residue VAL 101  index1  102  path  168  %Seq 100.00 Highlighted IDENTICAL residue GLU 102  index1  103  path  169  %Seq 100.00 Highlighted IDENTICAL residue LEU 105  index1  106  path  172  %Seq 100.00 Highlighted IDENTICAL residue ILE 107  index1  108  path  174  %Seq 100.00 Highlighted IDENTICAL residue TYR 114  index1  115  path  183  %Seq 100.00 Highlighted IDENTICAL residue VAL 119  index1  120  path  188  %Seq 100.00 Highlighted IDENTICAL residue ILE 121  index1  122  path  190  %Seq  50.00 Highlighted IDENTICAL residue GLY 122  index1  123  path  191  %Seq  50.00 Highlighted IDENTICAL residue ALA 123  index1  124  path  192  %Seq  50.00 Highlighted 25 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g04530-2cbnA.pir.txt.2CBN.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g04530-2cbnA.pir.txt PIR amino_acid 2CBN.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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