At2g03360.1/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/At2g03360-1h1lB.pir.txt

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Assigned types to 393 residues in Sequence 2-03360, 19 remain unknown Assigned types to 207 residues in Sequence 1h1lB, 205 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 At2g03360-1h1lB.pir.txt into sequence alignment.

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>1H1L.pdb Made from 15392 ATOM records in 1H1L.pdb TNATGERNLALIQEVLEVFPETARKERRKHMMVSDPKMKSVGKCIISNRK SQPGVMTVRGCAYAGSKGVVFGPIKDMAHISHGPVGCGQYSRAGRRNYYT GVSGVDSFGTLNFTSDFQERDIVFGGDKKLSKLIEEMELLFPLTKGITIQ SECPVGLIGDDISAVANASSKALDKPVIPVRCEGFRGVSQSLGHHIANDV VRDWILNNREGQPFETTPYDVAIIGDYNIGGDAWASRILLEEMGLRVVAQ WSGDGTLVEMENTPFVKLNLVHCYRSMNYIARHMEEKHQIPWMEYNFFGP TKIAESLRKIADQFDDTIRANAEAVIARYEGQMAAIIAKYRPRLEGRKVL LYMGGLRPRHVIGAYEDLGMEIIAAGYEFAHNDDYDRTLPDLKEGTLLFD DASSYELEAFVKALKPDLIGSGIKEKYIFQKMGVPFRQMHSWDYSGPYHG YDGFAIFARDMDMTLNNPAWNELTAPWLSQTIDKINSCYPLFEQDEYQEL FRNKRQLEEAHDAQRVQEVFAWTTTAEYEALNFRREALTVDPAKACQPLG AVLCSLGFANTLPYVHGSQGCVAYFRTYFNRHFKEPIACVSDSMTEDAAV FGGNNNMNLGLQNASALYKPEIIAVSTTCMAEVIGDDLQAFIANAKKDGF VDSSIAVPHAHTPSFIGSHVTGWDNMFEGFAKTFTADYQGQPGKLPKLNL VTGFETYLGNFRVLKRMMEQMAVPCSLLSDPSEVLDTPADGHYRMYSGGT TQQEMKEAPDAIDTLLLQPWQLLKSKKVVQEMWNQPATEVAIPLGLAATD ELLMTVSQLSGKPIADALTLERGRLVDMMLDSHTWLHGKKFGLYGDPDFV MGLTRFLLELGCEPTVILSHNANKRWQKAMNKMLDASPYGRDSEVFINCD LWHFRSLMFTRQPDFMIGNSYGKFIQRDTLAKGKAFEVPLIRLGFPLFDR HHLHRQTTWGYEGAMNIVTTLVNAVLEKLDSDTSQLGKTDYSFDLVRTNA TGERNLALIQEVLEVFPETARKERRKHMMVSDPKMKSVGKCIISNRKSQP GVMTVRGCAYAGSKGVVFGPIKDMAHISHGPVGCGQYSRAGRRNYYTGVS GVDSFGTLNFTSDFQERDIVFGGDKKLSKLIEEMELLFPLTKGITIQSEC PVGLIGDDISAVANASSKALDKPVIPVRCEGFRGVSQSLGHHIANDVVRD WILNNREGQPFETTPYDVAIIGDYNIGGDAWASRILLEEMGLRVVAQWSG DGTLVEMENTPFVKLNLVHCYRSMNYIARHMEEKHQIPWMEYNFFGPTKI AESLRKIADQFDDTIRANAEAVIARYEGQMAAIIAKYRPRLEGRKVLLYM GGLRPRHVIGAYEDLGMEIIAAGYEFAHNDDYDRTLPDLKEGTLLFDDAS SYELEAFVKALKPDLIGSGIKEKYIFQKMGVPFRQMHSWDYSGPYHGYDG FAIFARDMDMTLNNPAWNELTAPWLSQTIDKINSCYPLFEQDEYQELFRN KRQLEEAHDAQRVQEVFAWTTTAEYEALNFRREALTVDPAKACQPLGAVL CSLGFANTLPYVHGSQGCVAYFRTYFNRHFKEPIACVSDSMTEDAAVFGG NNNMNLGLQNASALYKPEIIAVSTTCMAEVIGDDLQAFIANAKKDGFVDS SIAVPHAHTPSFIGSHVTGWDNMFEGFAKTFTADYQGQPGKLPKLNLVTG FETYLGNFRVLKRMMEQMAVPCSLLSDPSEVLDTPADGHYRMYSGGTTQQ EMKEAPDAIDTLLLQPWQLLKSKKVVQEMWNQPATEVAIPLGLAATDELL MTVSQLSGKPIADALTLERGRLVDMMLDSHTWLHGKKFGLYGDPDFVMGL TRFLLELGCEPTVILSHNANKRWQKAMNKMLDASPYGRDSEVFINCDLWH FRSLMFTRQPDFMIGNSYGKFIQRDTLAKGKAFEVPLIRLGFPLFDRHHL HRQTTWGYEGAMNIVTTLVNAVLEKLDSDTSQLGKTDYSFDLVR

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Best alignment: 1H1L.pdb   80  ISHGPV    85 ISHGP+ 2-03360   175  ISHGPM   180

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Highlighted IDENTICAL residue ILE  80  index1   80  path  175  %Seq  50.00 Highlighted IDENTICAL residue SER  81  index1   81  path  176  %Seq  50.00 Highlighted IDENTICAL residue HIS  82  index1   82  path  177  %Seq  50.00 Highlighted IDENTICAL residue GLY  83  index1   83  path  178  %Seq  50.00 Highlighted IDENTICAL residue PRO  84  index1   84  path  179  %Seq  50.00 Highlighted IDENTICAL residue VAL  85  index1   85  path  180  %Seq  50.00 Highlighted 6 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g03360-1h1lB.pir.txt.1H1L.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g03360-1h1lB.pir.txt PIR amino_acid 1H1L.pdb B 100.0 BLOSUM62.dat

completed successfully.

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