At2g06480.1/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/

=
=========================================

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 Sequence 2 Got here 3 Got here 4 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g06480-2ore_D.pir.txt

=
=========================================

Assigned types to 52 residues in Sequence 2-06480, 1 remain unknown Assigned types to 48 residues in Sequence 2ore_D, 5 remain unknown

=
=========================================

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

=
=========================================

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 29 All residues are positively and negatively charged

Translated sequence file At2g06480-2ore_D.pir.txt into sequence alignment.

=
=========================================

>2ORE.pdb Made from 5856 ATOM records in 2ORE.pdb KNRAFLKWAGGKYPLLDDIKRHLPKGECLVEPFVGAGSVFLNTDFSRYIL ADINSDLISLYNIVKMRTDEYVQAARELFVPETNCAEVYYQFREEFNKSQ DPFRRAVLFLYLNRYGYNGLCRYNLRGEFNVPFGRYKKPYFPEAELYHFA EKAQNAFFYCESYADSMARADDASVVYCDPPYAPLNSFTLEQQAHLAEIA EGLVERHIPVLISNHDTMLTREWYQRAKLHVVKVDELLALYKPKNRAFLK WAGGKYPLLDDIKRHLPKGECLVEPFVGAGSVFLNTDFSRYILADINSDL ISLYNIVKMRTDEYVQAARELFVPETNCAEVYYQFREEFNKSQDPFRRAV LFLYLNRYGYNGLCRYNLRGEFNVPFGRYKKPYFPEAELYHFAEKAQNAF FYCESYADSMARADDASVVYCDPPYAPLSFTLEQQAHLAEIAEGLVERHI PVLISNHDTMLTREWYQRAKLHVVKVKVDELLALYKPKNRAFLKWAGGKY PLLDDIKRHLPKGECLVEPFVGAGSVFLNTDFSRYILADINSDLISLYNI VKMRTDEYVQAARELFVPETNCAEVYYQFREEFNKSQDPFRRAVLFLYLN RYGYNGLCRYNLRGEFNVPFGRYKKPYFPEAELYHFAEKAQNAFFYCESY ADSMARADDASVVYCDPPYAPLNSFTLEQQAHLAEIAEGLVERHIPVLIS NHDTMLTREWYQRAKLHVVKVVDELLALYKP

=
=========================================

Best alignment: 2ORE.pdb  102  PFRRAV   107 PFRR V 2-06480    43  PFRRVV    48

=
=========================================

Highlighted IDENTICAL residue PHE 105  index1  103  path   45  %Seq 100.00 Highlighted IDENTICAL residue ARG 107  index1  105  path   47  %Seq 100.00 Highlighted 2 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g06480-2ore_D.pir.txt.2ORE.pdb.conservation.pml

=
==================================================================

The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g06480-2ore_D.pir.txt PIR amino_acid 2ORE.pdb _ 100.0 BLOSUM62.dat

completed successfully.

@@@@@@@@@@@@@@@@@@@@ END /usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues @@@@@@@@@@@@@@@@@@@@