At2g10070.2/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 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 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g10070-2-1wmrA.pir.txt

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Assigned types to 208 residues in Sequence 2-10070-208, 11 remain unknown Assigned types to 78 residues in Sequence 1wmrA, 141 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 At2g10070-2-1wmrA.pir.txt into sequence alignment.

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>1WMR.pdb Made from 8484 ATOM records in 1WMR.pdb REFMAVTANNSQLLTWWHNTGEINTQTPVADGNVRQSGLYSVKVQTTPAS SSLYYDSFVYLAIPGNGMSDQLQYTQGYNQTQAWTSFLYSHDATVKISRN GSSANSNVVIRPTSLNFPVRYDNQSVYITVPYSPTGYRFSVEFDDDLISL APSGARQPENALLIFASPFENSSTKPQPGSPNSIAPAPGRVLGLNTTSAS TVVFNPGVYYFTGHDHMVLSSSVTWVYFAPGAYVKGAVEFLSTASEVKAS GHGVLSGEQYVWYADPDEGYQKASGANNNGLRMWRGTLGNSSQTFVLNGV TVSAPPFNSMDWSGNSLDLITCRVDDYKQVGAFYGQTDGLEMYPGTILQD VFYHTDDDGLKMYYSNVTARNIVMWKESVAPVVEFGWTPRNTENVLFDNV DVIHQAYANAGNNPGIFGAVNNYLYAPDGLSSNHSTGNSNMTVRNITWSN FRAEGSSSALFRINPIQNLDNISIKNVSIESFEPLSINTTESWMPVWYDL NNGKQITVTDFSIEGFTVGNTTITASNAASVGRIDGVDPAYAGSVHYIDR EFMAVTANNSQLLTWWHNTGEINTQTPVADGNVRQSGLYSVKVQTTPASS SLYYDSFVYLAIPGNGMSDQLQYTQGYNQTQAWTSFLYSHDATVKISRNG SSANSNVVIRPTSLNFPVRYDNQSVYITVPYSPTGYRFSVEFDDDLISLA PSGARQPENALLIFASPFENSSTKPQPGSPNSIAPAPGRVLGLNTTSAST VVFNPGVYYFTGHDHMVLSSSVTWVYFAPGAYVKGAVEFLSTASEVKASG HGVLSGEQYVWYADPDEGYQKASGANNNGLRMWRGTLGNSSQTFVLNGVT VSAPPFNSMDWSGNSLDLITCRVDDYKQVGAFYGQTDGLEMYPGTILQDV FYHTDDDGLKMYYSNVTARNIVMWKESVAPVVEFGWTPRNTENVLFDNVD VIHQAYANAGNNPGIFGAVNNYLYAPDGLSSNHSTGNSNMTVRNITWSNF RAEGSSSALFRINPIQNLDNISIKNVSIESFEPLSINTTESWMPVWYDLN NGKQITVTDFSIEGFTVGNTTITASNAASVGRIDGVDPAYAGSVHYID

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Best alignment: 1WMR.pdb      17  WHNTGEINTQTPVADGNVRQSGLYSVKVQTTPASSSLYYDSFVYLAIPGN    66 + N+      P+    V+         Q  P+SS L      Y +  GN 2-10070-208    54  FQNSSNREVPVPLLSEEVQNEASNRPIPQQDPSSSPLQNSHASYPSSQGN   103

1WMR.pdb      67  GMSD    70 + 2-10070-208  104  NFHE   107

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Highlighted IDENTICAL residue TRP  32  index1   17  path   65  %Seq 100.00 Highlighted IDENTICAL residue ASN  34  index1   19  path   67  %Seq 100.00 Highlighted IDENTICAL residue THR  35  index1   20  path   68  %Seq 100.00 Highlighted IDENTICAL residue GLY  36  index1   21  path   69  %Seq 100.00 Highlighted IDENTICAL residue GLN  41  index1   26  path   74  %Seq 100.00 Highlighted IDENTICAL residue ASP  46  index1   31  path   79  %Seq 100.00 Highlighted IDENTICAL residue SER  52  index1   37  path   85  %Seq  50.00 Highlighted IDENTICAL residue GLY  53  index1   38  path   86  %Seq  50.00 Highlighted IDENTICAL residue LEU  54  index1   39  path   87  %Seq  50.00 Highlighted IDENTICAL residue TYR  55  index1   40  path   88  %Seq  50.00 Highlighted IDENTICAL residue SER  56  index1   41  path   89  %Seq  50.00 Highlighted IDENTICAL residue VAL  57  index1   42  path   90  %Seq  50.00 Highlighted IDENTICAL residue LYS  58  index1   43  path   91  %Seq  50.00 Highlighted IDENTICAL residue VAL  59  index1   44  path   92  %Seq  50.00 Highlighted IDENTICAL residue GLN  60  index1   45  path   93  %Seq  50.00 Highlighted IDENTICAL residue THR  61  index1   46  path   94  %Seq  50.00 Highlighted IDENTICAL residue THR  62  index1   47  path   95  %Seq  50.00 Highlighted IDENTICAL residue PRO  63  index1   48  path   96  %Seq  50.00 Highlighted IDENTICAL residue ALA  64  index1   49  path   97  %Seq  50.00 Highlighted IDENTICAL residue SER  65  index1   50  path   98  %Seq  50.00 Highlighted IDENTICAL residue SER  66  index1   51  path   99  %Seq  50.00 Highlighted IDENTICAL residue SER  67  index1   52  path  100  %Seq  50.00 Highlighted IDENTICAL residue LEU  68  index1   53  path  101  %Seq  50.00 Highlighted IDENTICAL residue TYR  69  index1   54  path  102  %Seq  50.00 Highlighted IDENTICAL residue TYR  70  index1   55  path  103  %Seq  50.00 Highlighted IDENTICAL residue ASP  71  index1   56  path  104  %Seq  50.00 Highlighted IDENTICAL residue SER  72  index1   57  path  105  %Seq  50.00 Highlighted IDENTICAL residue PHE  73  index1   58  path  106  %Seq  50.00 Highlighted IDENTICAL residue VAL  74  index1   59  path  107  %Seq  50.00 Highlighted IDENTICAL residue TYR  75  index1   60  path  108  %Seq  50.00 Highlighted IDENTICAL residue LEU  76  index1   61  path  109  %Seq  50.00 Highlighted IDENTICAL residue ALA  77  index1   62  path  110  %Seq  50.00 Highlighted IDENTICAL residue ILE  78  index1   63  path  111  %Seq  50.00 Highlighted IDENTICAL residue PRO  79  index1   64  path  112  %Seq  50.00 Highlighted IDENTICAL residue GLY  80  index1   65  path  113  %Seq  50.00 Highlighted IDENTICAL residue ASN  81  index1   66  path  114  %Seq  50.00 Highlighted IDENTICAL residue GLY  82  index1   67  path  115  %Seq  50.00 Highlighted IDENTICAL residue MET  83  index1   68  path  116  %Seq  50.00 Highlighted IDENTICAL residue SER  84  index1   69  path  117  %Seq  50.00 Highlighted IDENTICAL residue ASP  85  index1   70  path  118  %Seq  50.00 Highlighted 40 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g10070-2-1wmrA.pir.txt.1WMR.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g10070-2-1wmrA.pir.txt PIR amino_acid 1WMR.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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