At2g04700.1/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
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/At2g04700-1dj7A.pir.txt
======================================================
Assigned types to 146 residues in Sequence 2-4700, 0 remain unknown
Assigned types to 110 residues in Sequence 1dj7A, 36 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
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Translated sequence file At2g04700-1dj7A.pir.txt into sequence alignment.
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>1DJ7.pdb Made from 1396 ATOM records in 1DJ7.pdb
NNKTLAAMKNFAEQYAKRTDTYFCSDLSVTAVVIEGLARHKEELGSPLCP
CRHYEDKEAEVKNTFWNCPCVPMRERKECHCMLFLTPDNDFAGDAQDIPM
ETLEEVKASMNVGDRVRVTSSVVVYHHPEHKKTAFDLQGMEGEVAAVLTE
WQGRPISANLPVLVKFEQRFKAHFRPDEVTLI
======================================================
Best alignment:
1DJ7.pdb 1 NNKTLAAMKNFAEQYAKRTDTYFCSDLSVTAVVIEGLARHKEELGSPLCP 50
 + K++ M+ F+EQYA+R+ TYFC D VT+VVI+GLA HK+ G+PLCP
2-4700 37 SEKSVEIMRKFSEQYARRSGTYFCVDKGVTSVVIKGLAEHKDSYGAPLCP 86
1DJ7.pdb 51 CRHYEDKEAEVKNTFWNCPCVPMRERKECHCMLFLTPDNDFAGDAQDIPM 100
 CRHY+DK AEV FWNCPCVPMRERKECHCMLFLTPDNDFAG Q I 
2-4700 87 CRHYDDKAAEVGQGFWNCPCVPMRERKECHCMLFLTPDNDFAGKDQTITS 136
1DJ7.pdb 101 ETLEEVKASM 110
 + ++E A+M
2-4700 137 DEIKETTANM 146
======================================================
Highlighted IDENTICAL residue LYS 9 index1 3 path 39 %Seq 100.00
Highlighted IDENTICAL residue MET 14 index1 8 path 44 %Seq 100.00
Highlighted IDENTICAL residue PHE 17 index1 11 path 47 %Seq 100.00
Highlighted IDENTICAL residue GLU 19 index1 13 path 49 %Seq 100.00
Highlighted IDENTICAL residue GLN 20 index1 14 path 50 %Seq 100.00
Highlighted IDENTICAL residue TYR 21 index1 15 path 51 %Seq 100.00
Highlighted IDENTICAL residue ALA 22 index1 16 path 52 %Seq 100.00
Highlighted IDENTICAL residue ARG 24 index1 18 path 54 %Seq 100.00
Highlighted IDENTICAL residue THR 27 index1 21 path 57 %Seq 100.00
Highlighted IDENTICAL residue TYR 28 index1 22 path 58 %Seq 100.00
Highlighted IDENTICAL residue PHE 29 index1 23 path 59 %Seq 100.00
Highlighted IDENTICAL residue CYS 30 index1 24 path 60 %Seq 100.00
Highlighted IDENTICAL residue ASP 32 index1 26 path 62 %Seq 100.00
Highlighted IDENTICAL residue VAL 35 index1 29 path 65 %Seq 100.00
Highlighted IDENTICAL residue THR 36 index1 30 path 66 %Seq 100.00
Highlighted IDENTICAL residue VAL 38 index1 32 path 68 %Seq 100.00
Highlighted IDENTICAL residue VAL 39 index1 33 path 69 %Seq 100.00
Highlighted IDENTICAL residue ILE 40 index1 34 path 70 %Seq 100.00
Highlighted IDENTICAL residue GLY 42 index1 36 path 72 %Seq 100.00
Highlighted IDENTICAL residue LEU 43 index1 37 path 73 %Seq 100.00
Highlighted IDENTICAL residue ALA 44 index1 38 path 74 %Seq 100.00
Highlighted IDENTICAL residue HIS 46 index1 40 path 76 %Seq 100.00
Highlighted IDENTICAL residue LYS 47 index1 41 path 77 %Seq 100.00
Highlighted IDENTICAL residue GLY 51 index1 45 path 81 %Seq 100.00
Highlighted IDENTICAL residue PRO 53 index1 47 path 83 %Seq 100.00
Highlighted IDENTICAL residue LEU 54 index1 48 path 84 %Seq 100.00
Highlighted IDENTICAL residue CYS 55 index1 49 path 85 %Seq 100.00
Highlighted IDENTICAL residue PRO 56 index1 50 path 86 %Seq 100.00
Highlighted IDENTICAL residue CYS 57 index1 51 path 87 %Seq 100.00
Highlighted IDENTICAL residue ARG 58 index1 52 path 88 %Seq 100.00
Highlighted IDENTICAL residue HIS 59 index1 53 path 89 %Seq 100.00
Highlighted IDENTICAL residue TYR 60 index1 54 path 90 %Seq 100.00
Highlighted IDENTICAL residue ASP 62 index1 56 path 92 %Seq 100.00
Highlighted IDENTICAL residue LYS 63 index1 57 path 93 %Seq 100.00
Highlighted IDENTICAL residue ALA 65 index1 59 path 95 %Seq 100.00
Highlighted IDENTICAL residue GLU 66 index1 60 path 96 %Seq 100.00
Highlighted IDENTICAL residue VAL 67 index1 61 path 97 %Seq 100.00
Highlighted IDENTICAL residue PHE 71 index1 65 path 101 %Seq 100.00
Highlighted IDENTICAL residue TRP 72 index1 66 path 102 %Seq 100.00
Highlighted IDENTICAL residue ASN 73 index1 67 path 103 %Seq 100.00
Highlighted IDENTICAL residue CYS 74 index1 68 path 104 %Seq 100.00
Highlighted IDENTICAL residue PRO 75 index1 69 path 105 %Seq 100.00
Highlighted IDENTICAL residue CYS 76 index1 70 path 106 %Seq 100.00
Highlighted IDENTICAL residue VAL 77 index1 71 path 107 %Seq 100.00
Highlighted IDENTICAL residue PRO 78 index1 72 path 108 %Seq 100.00
Highlighted IDENTICAL residue MET 79 index1 73 path 109 %Seq 100.00
Highlighted IDENTICAL residue ARG 80 index1 74 path 110 %Seq 100.00
Highlighted IDENTICAL residue GLU 81 index1 75 path 111 %Seq 100.00
Highlighted IDENTICAL residue ARG 82 index1 76 path 112 %Seq 100.00
Highlighted IDENTICAL residue LYS 83 index1 77 path 113 %Seq 100.00
Highlighted IDENTICAL residue GLU 84 index1 78 path 114 %Seq 100.00
Highlighted IDENTICAL residue CYS 85 index1 79 path 115 %Seq 100.00
Highlighted IDENTICAL residue HIS 86 index1 80 path 116 %Seq 100.00
Highlighted IDENTICAL residue CYS 87 index1 81 path 117 %Seq 100.00
Highlighted IDENTICAL residue MET 88 index1 82 path 118 %Seq 100.00
Highlighted IDENTICAL residue LEU 89 index1 83 path 119 %Seq 100.00
Highlighted IDENTICAL residue PHE 90 index1 84 path 120 %Seq 100.00
Highlighted IDENTICAL residue LEU 91 index1 85 path 121 %Seq 100.00
Highlighted IDENTICAL residue THR 92 index1 86 path 122 %Seq 100.00
Highlighted IDENTICAL residue PRO 93 index1 87 path 123 %Seq 100.00
Highlighted IDENTICAL residue ASP 94 index1 88 path 124 %Seq 100.00
Highlighted IDENTICAL residue ASN 95 index1 89 path 125 %Seq 100.00
Highlighted IDENTICAL residue ASP 96 index1 90 path 126 %Seq 100.00
Highlighted IDENTICAL residue PHE 97 index1 91 path 127 %Seq 100.00
Highlighted IDENTICAL residue ALA 98 index1 92 path 128 %Seq 100.00
Highlighted IDENTICAL residue GLY 99 index1 93 path 129 %Seq 100.00
Highlighted IDENTICAL residue GLN 102 index1 96 path 132 %Seq 100.00
Highlighted IDENTICAL residue ILE 104 index1 98 path 134 %Seq 100.00
Highlighted IDENTICAL residue GLU 111 index1 105 path 141 %Seq 100.00
Highlighted IDENTICAL residue ALA 114 index1 108 path 144 %Seq 100.00
Highlighted IDENTICAL residue MET 1 index1 110 path 146 %Seq 100.00
Highlighted 71 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g04700-1dj7A.pir.txt.1DJ7.pdb.conservation.pml
===============================================================================
The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g04700-1dj7A.pir.txt PIR amino_acid 1DJ7.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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