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Revision 1.1 - (download) (as text) (annotate)
Fri Nov 23 00:33:31 2007 UTC (12 years ago) by golsen
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2008_06_18, myrast_rel40, rast_rel_2008_06_16, mgrast_dev_05262011, rast_rel_2008_12_18, mgrast_dev_04082011, rast_rel_2008_07_21, rast_rel_2010_0928, rast_2008_0924, mgrast_version_3_2, mgrast_dev_12152011, rast_rel_2008_04_23, mgrast_dev_06072011, rast_rel_2008_09_30, rast_rel_2009_0925, rast_rel_2010_0526, mgrast_dev_02212011, rast_rel_2010_1206, mgrast_release_3_0, mgrast_dev_03252011, rast_rel_2010_0118, mgrast_rel_2008_0924, mgrast_rel_2008_1110_v2, rast_rel_2009_02_05, rast_rel_2011_0119, mgrast_rel_2008_0625, mgrast_release_3_0_4, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_1, mgrast_dev_03312011, mgrast_release_3_1_2, mgrast_release_3_1_1, mgrast_release_3_1_0, mgrast_dev_04132011, rast_rel_2008_10_09, mgrast_dev_04012011, rast_release_2008_09_29, mgrast_rel_2008_0806, mgrast_rel_2008_0923, mgrast_rel_2008_0919, rast_rel_2009_07_09, rast_rel_2010_0827, mgrast_rel_2008_1110, myrast_33, rast_rel_2011_0928, rast_rel_2008_09_29, mgrast_rel_2008_0917, rast_rel_2008_10_29, mgrast_dev_04052011, mgrast_dev_02222011, rast_rel_2009_03_26, mgrast_dev_10262011, rast_rel_2008_11_24, rast_rel_2008_08_07
Add support for pyrrolysyl proteins.  Also, major revision and clean-up
of the translation utilities in gjoseqlib.pm.

package pyrrolysylprotein_ref_seq;

use gjoseqlib;

our $ref_seqs = [ gjoseqlib::read_fasta( \*DATA ) ];

1;

__DATA__
>fig|188937.1.peg.143 Monomethylamine:corrinoid methyltransferase; pyrrolysine-containing
MTFRKSFDCYDFYDRAKVGEKCTQDDWDLMKIPMKAMELKQKYGLDFKGEFVPTDRDMME
KLFQAGFEMLLECGIYCTDTHRIVKYTEDEIWDAINNVQKEFTLGTGRDAVNVRKRSVGD
KRKPIVQGGPTGSPISEDVFMPVHMSYALEKEVDTIVDGVMTSVRGKPPVPKSPYEVLAA
KTEARLIKQACAMAGRPGMGIXGPETSLSAQGNISSDCVGGQISSDSHEVSQLNELKIDL
DAIAVIAHYKGNSDIIMDEQMPIFGGYAGGIEETTIVDVATHINAFVMSSASWHLDGPVH
IRWGSTNTRETLTIAGWACATISEFTDILSGNQYYPCAGPCTEMCLLEASAQSITDTASG
REILSGVASAKGVVTDKTTGMEARMMGEVARATAGVEISEINKILDKLVALYEKNYANAP
AGKTFQECYDVKTVTPTEEYMHVYDGARKKLEDLGLVF
>fig|188937.1.peg.522 Dimethylamine:corrinoid methyltransferase; pyrrolysine-containing
MATEYALRMGDGKRVFLTKEKILEELEAGMANASDLGEIPDLSADEIDKLAEILMMPGKA
VSVEQGMEVPVTHDIGTIRLDGDQGNSGVGIPSSRLVGCMTHERAFGADTMELGHIDYSF
KPVKPVVSNECQAMEVCQQNMIIPLFYGAMPNMGLYYTPDGPFENPGDLMKAFKIQEAWE
SMEHAAEHLTRDTVWVMQKLFASGTDGVNFDTTAAAGDADMYGTLHAIEALRKEFPDMYI
EAGMAGECVLGMHGNLQYDGVTLAGLWPHQQAPLVAKAGANVFGPVCNTNTSKTSAWNLA
RAVNFMKAAVQASPIPCHVDMGMGVGGIPMLETPPVDAVTRASKAMVEVAGVDGIXIGVG
DPLGMPISHIMASGMTGIRAAGDLVARMQFSKNMRIGEAKEYVAKKLNVDVMDLADEHVM
RELREELDIGVITSVPGAAKGIAAKMNIEKLLDIKINSCNLFRKQIQ
>fig|188937.1.peg.518 Trimethylamine:corrinoid methyltransferase; pyrrolysine-containing
MAKNNAVAGFNALNGVELNLFTTDELKAIHYATMDVLMNPGVQVSDPEARQIFKENGCEV
DEKTNVVKIPEYLVRRALQLAPSRFVLWGRDKKFNTVQECGGKVHWTCFGTGVKMCKYQD
GKYVTVDSVEQDIADIAKLCDWAENIDYFSLPVSARDIAGQGAQDVHETLTPIANTAKHY
HHIDPVGENVEYYRDIVTAYYGGDEEEARKKPIFSMLLCPTSPLELSVNACQVIIKGARF
GMPVNVLSMAMSGGSSPVYLAGTLVTHNAEVLAGITLAQLTVPGTKVWYGSSTTTFDLKK
GTAPVGSPELGLISASVAKLAQFYGLPAFVAGTXSDAKIPDNQAGHEKTMTCLLPALAGA
NTLYGAGMLELGMTFSMEQLVIDNDIIKMTKKALQGVPVNEETLAVESIQKVGIGNNFLA
LKQTRQLVNYPSDPMLIDRRMFGDWAAAGSKDLASAAHDKVVDVLKNHVVKPIDADILKD
MQAVVDRADKAFRGM
>fig|138119.3.peg.5061 Trimethylamine:corrinoid methyltransferase; pyrrolysine-containing
MARLRSMVQAGVARVEGFGLAGFSDEELYAIHTSTLEVLEYTGLKIESQEALEIFSEGGA
RVDFKTKVVKIPQYLVEDAIQSAPSTLVLAGRNPKNDIVLGGKRVGFINFGEGVSIIDPY
TKEYRKTTRRDVANITRFCDAMDQMDAVLRPVAPQDIHPSVAVVHNAEVIFNNTSKHVFI
GVEGGRNFKKVLKMAAAVAGGEDKLRERPLFSCNICPTSPLQIVNHASEVIIEGARAGIP
VNMLSMGMSGATSAITLAGTLVTHNCEVLGAIVLSQLTSKGAPVLYGSSTTIMDMKNMTA
PVGSPELGMINAGVAKLAQYYNLPSWVAGGXVDSKIPDAQASHEFTLTGFLTALAGANLI
YGAGMLELGITFDYAQMLMDNEMARMIKKAVGGISVTDETLAVDVIKSVGTAGNFISEDH
TYAHMRTQSQSKLVDRSMRENWLAAGAKDFTQRAYEEAISILENYTPEPLPEKIAATLRS
IVEETEDEYGVARSLI

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