At2g01580.1/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 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/At2g01580_2bs2_C.pir.txt

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Assigned types to 191 residues in Sequence 2-01580, 6 remain unknown Assigned types to 180 residues in Sequence 2bs2_C, 21 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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Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 41 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 173 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 200 All residues are positively and negatively charged

Error in function WYRM_analyze_conservation_in_sequence_alignment Path index 201 All residues are positively and negatively charged

Translated sequence file At2g01580_2bs2_C.pir.txt into sequence alignment.

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>2BS2.pdb Made from 18272 ATOM records in 2BS2.pdb MKVQYCDSLVIGGGLAGLRAAVATQQKGLSTIVLSLIPVKRSHSAAAQGG MQASLGNSKMSDGDNEDLHFMDTVKGSDWGCDQKVARMFVNTAPKAIREL AAWGVPWTRIHKGDRMAIINAQKTTITEEDFRHGLIHSRDFGGTKKWRTC YTADATGHTMLFAVANECLKLGVSIQDRKEAIALIHQDGKCYGAVVRDLV TGDIIAYVAKGTLIATGGYGRIYKNTTNAVVCEGTGTAIALETGIAQLGN MEAVQFHPTPLFPSGILLTEGCRGDGGILRDVDGHRFMPDYEPEKKELAS RDVVSRRMIEHIRKGKGVQSPYGQHLWLDISILGRKHIETNLRDVQEICE YFAGIDPAEKWAPVLPMQHYSMGGIRTDYRGEAKLKGLFSAGEAACWDMH GFNRLGGNSVSEAVVAGMIVGEYFAEHCANTQVDLETKTLEKFVKGQEAY MKSLVESKGTEDVFKIKNRMKDVMDDNVGIFRDGPHLEKAVKELEELYKK SKNVGIKNKRLHANPELEEAYRVPMMLKVALCVAKGALDRTESRGAHNRE DYPKRDDINWLNRTLASWPNPEQTLPTLEYEALDVNEMEIAPGYRGYGAK GNYIENPLSVKRQEEIDKIQSELEAAGKDRHAIQEALMPYELPAKYKARN ERLGDKMGRMLTIRVFKYDPQSAVSKPHFQEYKIEEAPSMTIFIVLNMIR ETYDPDLNFDFVCRAGICGSCGMMINGRPSLACRTLTKDFEDGVITLLPL PAFKLIKDLSVDTGNWFNGMSQRVESWIHAQKEHDISKLEERIEPEVAQE VFELDRCIECGCCIAACGTKIMREDFVGAAGLNRVVRFMIDPHDERTDED YYELIGDDDGVFGCMTLLACHDVCPKNLPLQSKIAYLRRKMVSVNMMTNE SILESYSGVTPERKKSRMPAKLDWWQSATGLFLGLFMIGHMFFVSTILLG DNVMLWVTKKFELDFIFEGGKPIVVSFLAAFVFAVFIAHAFLAMRKFPIN YRQYLTFKTHKDLMRHGDTTLWWIQAMTGFAMFFLGSVHLYIMMTQPQTI GPVSSSFRMVSEWMWPLYLVLLFAVELHGSVGLYRLAVKWGWFDGETPDK TRANLKKLKTLMSAFLIVLGLLTFGAYVKKGLEQTDPNIDYKYFDYKRTH EMKVQYCDSLVIGGGLAGLRAAVATQQKGLSTIVLSLIPVKRSHSAAAQG GMQASLGNSKMSDGDNEDLHFMDTVKGSDWGCDQKVARMFVNTAPKAIRE LAAWGVPWTRIHKGDRMAIINAQKTTITEEDFRHGLIHSRDFGGTKKWRT CYTADATGHTMLFAVANECLKLGVSIQDRKEAIALIHQDGKCYGAVVRDL VTGDIIAYVAKGTLIATGGYGRIYKNTTNAVVCEGTGTAIALETGIAQLG NMEAVQFHPTPLFPSGILLTEGCRGDGGILRDVDGHRFMPDYEPEKKELA SRDVVSRRMIEHIRKGKGVQSPYGQHLWLDISILGRKHIETNLRDVQEIC EYFAGIDPAEKWAPVLPMQHYSMGGIRTDYRGEAKLKGLFSAGEAACWDM HGFNRLGGNSVSEAVVAGMIVGEYFAEHCANTQVDLETKTLEKFVKGQEA YMKSLVESKGTEDVFKIKNRMKDVMDDNVGIFRDGPHLEKAVKELEELYK KSKNVGIKNKRLHANPELEEAYRVPMMLKVALCVAKGALDRTESRGAHNR EDYPKRDDINWLNRTLASWPNPEQTLPTLEYEALDVNEMEIAPGYRGYGA KGNYIENPLSVKRQEEIDKIQSELEAAGKDRHAIQEALMPYELPAKYKAR NERLGDKMGRMLTIRVFKYDPQSAVSKPHFQEYKIEEAPSMTIFIVLNMI RETYDPDLNFDFVCRAGICGSCGMMINGRPSLACRTLTKDFEDGVITLLP LPAFKLIKDLSVDTGNWFNGMSQRVESWIHAQKEHDISKLEERIEPEVAQ EVFELDRCIECGCCIAACGTKIMREDFVGAAGLNRVVRFMIDPHDERTDE DYYELIGDDDGVFGCMTLLACHDVCPKNLPLQSKIAYLRRKMVSVNMMTN ESILESYSGVTPERKKSRMPAKLDWWQSATGLFLGLFMIGHMFFVSTILL GDNVMLWVTKKFELDFIFEGGKPIVVSFLAAFVFAVFIAHAFLAMRKFPI NYRQYLTFKTHKDLMRHGDTTLWWIQAMTGFAMFFLGSVHLYIMMTQPQT IGPVSSSFRMVSEWMWPLYLVLLFAVELHGSVGLYRLAVKWGWFDGETPD KTRANLKKLKTLMSAFLIVLGLLTFGAYVKKGLEQTDPNIDYKYFDYKRT HE

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Best alignment: 2BS2.pdb  453  SLVESKGTEDVFKIKNRMKDVM   474 +L+ SK T++VFK N  +DV+ 2-01580   103  NLLNSKETDEVFK-ANINRDVL   123

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Highlighted IDENTICAL residue LEU 454  index1  454  path  105  %Seq 100.00 Highlighted IDENTICAL residue LYS 458  index1  458  path  109  %Seq 100.00 Highlighted 2 residues for visualization

Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g01580_2bs2_C.pir.txt.2BS2.pdb.conservation.pml

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The program

/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g01580_2bs2_C.pir.txt PIR amino_acid 2BS2.pdb _ 100.0 BLOSUM62.dat

completed successfully.

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