At2g03850.1/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/At2g03850-2b9cA.pir.txt

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Assigned types to 191 residues in Sequence 2-03850, 0 remain unknown Assigned types to 141 residues in Sequence 2b9cB, 50 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 At2g03850-2b9cA.pir.txt into sequence alignment.

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>2B9C.pdb Made from 2301 ATOM records in 2B9C.pdb ELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQ LKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEL KTVTNNLKSLEDKVEELLSKNYHLENEVARLKKLVGQLVEEELDRAQERL ATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAE DADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKS LEDKVEELLSKNYHLENEVARLKKLVGE

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Best alignment: 2B9C.pdb  108  KSLEDKVEELLSKNYHLENEVARLKKLVGQLVEEELDRAQERLATA   153 K L+D ++         +EV       GQ V + +DRA+    E+ + A 2-03850     67  KWLDDASQKASDYVKEKGSEVGHASAQKGQDVNDHVDRAKYYMFEKASEA   116

2B9C.pdb  154  LQKLEE-AEKAAD-ESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAED   201 + + E A+ A++  +E+G +  +  A   E+  +    +  E   IA D 2-03850    117  IDNVAEIAQFASEFVTEKGKETKKETASISEKAKDFIVEKAGEIIDIATD   166

2B9C.pdb  202  ADRK   205 +K 2-03850   167  VSKK   170

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Highlighted IDENTICAL residue ASP 209  index1  112  path   71  %Seq 100.00 Highlighted IDENTICAL residue VAL 211  index1  114  path   73  %Seq 100.00 Highlighted IDENTICAL residue GLU 1098 index1  142  path  101  %Seq  50.00 Highlighted IDENTICAL residue ARG 1105 index1  149  path  112  %Seq 100.00 Highlighted IDENTICAL residue THR 1108 index1  152  path  115  %Seq 100.00 Highlighted IDENTICAL residue GLU 1115 index1  159  path  122  %Seq  50.00 Highlighted IDENTICAL residue ASP 1121 index1  165  path  129  %Seq 100.00 Highlighted IDENTICAL residue GLU 1124 index1  168  path  133  %Seq 100.00 Highlighted IDENTICAL residue ALA 1134 index1  178  path  143  %Seq 100.00 Highlighted IDENTICAL residue GLU 1138 index1  182  path  147  %Seq 100.00 Highlighted IDENTICAL residue MET 1141 index1  185  path  150  %Seq 100.00 Highlighted IDENTICAL residue GLU 1145 index1  189  path  154  %Seq  50.00 Highlighted IDENTICAL residue HIS 1153 index1  197  path  162  %Seq 100.00 Highlighted IDENTICAL residue LYS 1161 index1  205  path  170  %Seq 100.00 Highlighted 14 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g03850-2b9cA.pir.txt.2B9C.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g03850-2b9cA.pir.txt PIR amino_acid 2B9C.pdb A 100.0 BLOSUM62.dat

completed successfully.

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