At2g07360.1/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 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 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 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 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/At2g07360-1-700-1gw5B.pir.txt

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Assigned types to 1196 residues in Sequence 2-07360, 13 remain unknown Assigned types to 466 residues in Sequence 1gw5B, 743 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 At2g07360-1-700-1gw5B.pir.txt into sequence alignment.

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>1GW5.pdb Made from 13211 ATOM records in 1GW5.pdb GMRGLAVFISDIRNCKSKEAEIKRINKELANIRSKFKGDKALDGYSKKKY VCKLLFIFLLGHDIDFGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSEL IRLINNAIKNDLASRNPTFMGLALHCIANVGSREMAEAFAGEIPKILVAG DTMDSVKQSAALCLLRLYRTSPDLVPMGDWTSRVVHLLNDQHLGVVTAAT SLITTLAQKNPEEFKTSVSLAVSRLSRIVTSASTDLQDYTYYFVPAPWLS VKLLRLLQCYPPPEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKNA VLFEAISLIIHHDSEPNLLVRACNQLGQFLQHRETNLRYLALESMCTLAS SEFSHEAVKTHIETVINALKTERDVSVRQRAVDLLYAMCDRSNAQQIVAE MLSYLETADYSIREEIVLKVAILAEKYAVDYTWYVDTILNLIRIAGDYVS EEVWYRVIQIVINRDDVQGYAAKTVFEALQAPACHENLVKVGGYILGEFG XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSKYFTTNKKGEIFELK AELNNEKKEKRKEAVKKVIAAMTVGKDVSSLFPDVVNCMQTDNLELKKLV YLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKIT EYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLI ADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQ IFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLEL LPKDSDYYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQ EIKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQVLAELKEYATEVDVDF VRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVIRDIFR KYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESF LEGFHDESTQVQLTLLTAIVKLFLKKPSETQELVQQVLSXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIEPTLLDELICHIGS LASVYHKPPNAFVMIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVI HARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCD VMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQQG IKSQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKS YLSGMPECKFGMNDKIVIKIAIDDCTFHQCVRLSRSISFIPPDGEFELMR YRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPT PLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIELLPTN DKKKWARPPISMNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIG RSGIYETRCMIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTV RDAKHTNFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVL NEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETSQTKVLKQLLMLQSL E

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Best alignment: 1GW5.pdb  595  EIFELKAELNNEKKEKRKEAVKKVIAAMTVGKDVS-SLFPDVVNC-MQTD   642 I EL A L ++K  +K+ V  V   + V   V  SL P ++    Q + 2-07360   109  SIHELAATL--DQKSSQKQLVNHVFPKLAVYNSVDPSLAPSLLMLNQQCE   156

1GW5.pdb  643  NLELKKLVYLYL   654 + + + VY YL 2-07360    157  DRNVLRYVYYYL   168

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Highlighted IDENTICAL residue ILE  15  index1  596  path  110  %Seq 100.00 Highlighted IDENTICAL residue GLU  17  index1  598  path  112  %Seq 100.00 Highlighted IDENTICAL residue LEU  18  index1  599  path  113  %Seq 100.00 Highlighted IDENTICAL residue ALA  20  index1  601  path  115  %Seq 100.00 Highlighted IDENTICAL residue LEU  22  index1  603  path  117  %Seq 100.00 Highlighted IDENTICAL residue LYS  31  index1  612  path  124  %Seq 100.00 Highlighted IDENTICAL residue VAL  34  index1  615  path  127  %Seq  50.00 Highlighted IDENTICAL residue LYS  35  index1  616  path  128  %Seq  50.00 Highlighted IDENTICAL residue ALA  40  index1  621  path  133  %Seq 100.00 Highlighted IDENTICAL residue VAL  47  index1  628  path  140  %Seq 100.00 Highlighted IDENTICAL residue GLN  59  index1  640  path  156  %Seq 100.00 Highlighted IDENTICAL residue VAL  69  index1  650  path  166  %Seq 100.00 Highlighted IDENTICAL residue TYR  70  index1  651  path  167  %Seq 100.00 Highlighted IDENTICAL residue TYR  72  index1  653  path  169  %Seq 100.00 Highlighted IDENTICAL residue LEU  73  index1  654  path  170  %Seq 100.00 Highlighted 15 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g07360-1-700-1gw5B.pir.txt.1GW5.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g07360-1-700-1gw5B.pir.txt PIR amino_acid 1GW5.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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

&&&&&&&&&&&&&&&&&&&& 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 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 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 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 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 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 Got here 4 Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g07360-780-1196-2de0X.pir.txt

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Assigned types to 1196 residues in Sequence 2-07360, 119 remain unknown Assigned types to 457 residues in Sequence 2de0X, 858 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 At2g07360-780-1196-2de0X.pir.txt into sequence alignment.

=
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>2DE0.pdb Made from 3752 ATOM records in 2DE0.pdb LGKDHEILRRRIENGAKELWFFLQSELKKLKNLEGNELQRHADEFLLDLG HHERSIMTDLYYLSQTDGAGDWREKEAKDLTELVQRRITYLQNPKDCSKA KKLVCNINKGCGYGCQLHHVVYCFMIAYGTQRTLILESQNWRYATGGWET VFRPVSETCTDRSGISTGHWSGEVKDKNVQVVELPIVDSLHPRPPYLPLA VPEDLADRLVRVHGDPAVWWVSQFVKYLIRPQPWLEKEIEEATKKLGFKH PVIGVHVRRTEAAFHPIEEYMVHVEEHFQLLARRMQVDKKRVYLATDDPS LLKEAKTKYPNYEFISDNSISWSAGLHNRYTENSLRGVILDIHFLSQADF LVCTFSSQVCRVAYEIMQTLHPDASANFHSLDDIYYFGGQNAHNQIAIYA HQPRTADEIPMEPGDIIGVAGNHWDGYSKGVNRKLGRTGLYPSYKVREKI ETVKYPTYPE

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Best alignment: 2DE0.pdb  240  EEATKKLGFKHPVIGVHVRRTEAAFHPIEEYMVH   273 ++ + K    P+I + +RR E++F      ++H 2-07360   452  KDKSNKTKRPQPLIKLVMRRLESSFRSFSRPVLH   485

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Highlighted IDENTICAL residue GLU 347  index1  240  path  452  %Seq  50.00 Highlighted IDENTICAL residue GLU 348  index1  241  path  453  %Seq  50.00 Highlighted IDENTICAL residue ALA 349  index1  242  path  454  %Seq  50.00 Highlighted IDENTICAL residue THR 350  index1  243  path  455  %Seq  50.00 Highlighted IDENTICAL residue LYS 351  index1  244  path  456  %Seq  50.00 Highlighted IDENTICAL residue LYS 352  index1  245  path  457  %Seq  50.00 Highlighted IDENTICAL residue LEU 353  index1  246  path  458  %Seq  50.00 Highlighted IDENTICAL residue GLY 354  index1  247  path  459  %Seq  50.00 Highlighted IDENTICAL residue PHE 355  index1  248  path  460  %Seq  50.00 Highlighted IDENTICAL residue LYS 356  index1  249  path  461  %Seq  50.00 Highlighted IDENTICAL residue HIS 357  index1  250  path  462  %Seq  50.00 Highlighted IDENTICAL residue PRO 358  index1  251  path  463  %Seq  50.00 Highlighted IDENTICAL residue VAL 359  index1  252  path  464  %Seq  50.00 Highlighted IDENTICAL residue ILE 360  index1  253  path  465  %Seq  50.00 Highlighted IDENTICAL residue GLY 361  index1  254  path  466  %Seq  50.00 Highlighted IDENTICAL residue VAL 362  index1  255  path  467  %Seq  50.00 Highlighted IDENTICAL residue HIS 363  index1  256  path  468  %Seq  50.00 Highlighted IDENTICAL residue VAL 364  index1  257  path  469  %Seq  50.00 Highlighted IDENTICAL residue ARG 365  index1  258  path  470  %Seq  50.00 Highlighted IDENTICAL residue ARG 366  index1  259  path  471  %Seq  50.00 Highlighted IDENTICAL residue THR 367  index1  260  path  472  %Seq  50.00 Highlighted IDENTICAL residue GLU 373  index1  261  path  473  %Seq  50.00 Highlighted IDENTICAL residue ALA 374  index1  262  path  474  %Seq  50.00 Highlighted IDENTICAL residue ALA 375  index1  263  path  475  %Seq  50.00 Highlighted IDENTICAL residue PHE 376  index1  264  path  476  %Seq  50.00 Highlighted IDENTICAL residue HIS 377  index1  265  path  477  %Seq  50.00 Highlighted IDENTICAL residue PRO 378  index1  266  path  478  %Seq  50.00 Highlighted IDENTICAL residue ILE 379  index1  267  path  479  %Seq  50.00 Highlighted IDENTICAL residue GLU 380  index1  268  path  480  %Seq  50.00 Highlighted IDENTICAL residue GLU 381  index1  269  path  481  %Seq  50.00 Highlighted IDENTICAL residue TYR 382  index1  270  path  482  %Seq  50.00 Highlighted IDENTICAL residue MET 383  index1  271  path  483  %Seq  50.00 Highlighted IDENTICAL residue VAL 384  index1  272  path  484  %Seq  50.00 Highlighted IDENTICAL residue HIS 385  index1  273  path  485  %Seq  50.00 Highlighted 34 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g07360-780-1196-2de0X.pir.txt.2DE0.pdb.conservation.pml

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

The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g07360-780-1196-2de0X.pir.txt PIR amino_acid 2DE0.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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