Query gi|254780778|ref|YP_003065191.1| elongation factor Ts [Candidatus Liberibacter asiaticus str. psy62] Match_columns 296 No_of_seqs 132 out of 2145 Neff 6.2 Searched_HMMs 39220 Date Sun May 29 20:53:50 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780778.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PRK09377 tsf elongation factor 100.0 0 0 682.2 21.1 270 1-291 1-271 (288) 2 COG0264 Tsf Translation elonga 100.0 0 0 660.7 21.4 275 1-291 1-277 (296) 3 TIGR00116 tsf translation elon 100.0 0 0 649.2 15.5 284 1-291 1-345 (364) 4 PRK12332 tsf elongation factor 100.0 0 0 533.4 20.6 196 1-291 1-197 (216) 5 CHL00098 tsf elongation factor 100.0 0 0 521.5 20.2 193 5-291 1-195 (207) 6 KOG1071 consensus 100.0 0 0 417.7 10.3 252 3-291 44-332 (340) 7 pfam00889 EF_TS Elongation fac 100.0 0 0 380.5 10.7 176 57-291 1-177 (177) 8 LOAD_efts_N consensus 99.5 3E-14 7.6E-19 115.6 5.1 40 3-42 2-41 (41) 9 KOG1071 consensus 98.5 5.1E-07 1.3E-11 67.5 7.4 116 148-291 102-220 (340) 10 pfam00627 UBA UBA/TS-N domain. 97.7 6.6E-05 1.7E-09 53.4 4.5 36 5-41 2-37 (37) 11 pfam00889 EF_TS Elongation fac 97.2 0.00061 1.6E-08 47.0 5.1 46 149-201 2-50 (177) 12 COG0264 Tsf Translation elonga 97.0 0.002 5.1E-08 43.5 5.8 92 148-291 57-151 (296) 13 PRK09377 tsf elongation factor 96.7 0.0048 1.2E-07 41.0 6.0 86 148-288 57-145 (288) 14 COG1308 EGD2 Transcription fac 96.0 0.019 4.8E-07 37.1 5.5 40 3-42 82-121 (122) 15 TIGR00264 TIGR00264 alpha-NAC 95.8 0.014 3.5E-07 38.0 4.1 40 3-42 85-124 (125) 16 cd00194 UBA Ubiquitin Associat 95.4 0.032 8.2E-07 35.5 4.9 35 7-42 3-37 (38) 17 smart00165 UBA Ubiquitin assoc 95.2 0.04 1E-06 34.9 4.7 34 7-41 3-36 (37) 18 PRK06369 nac nascent polypepti 94.4 0.11 2.8E-06 32.0 5.5 40 3-42 76-115 (116) 19 PRK12332 tsf elongation factor 88.0 0.28 7.1E-06 29.3 1.7 57 148-211 56-112 (216) 20 CHL00098 tsf elongation factor 86.7 0.37 9.4E-06 28.5 1.7 43 148-196 53-95 (207) 21 smart00804 TAP_C C-terminal do 86.2 2.3 5.8E-05 23.2 5.5 38 6-43 13-50 (63) 22 KOG0944 consensus 78.1 2.7 7E-05 22.7 3.4 26 17-42 582-608 (763) 23 KOG2561 consensus 77.7 4.7 0.00012 21.1 4.5 44 17-60 314-357 (568) 24 pfam02845 CUE CUE domain. CUE 77.0 6.3 0.00016 20.3 5.0 37 7-43 3-40 (42) 25 pfam00542 Ribosomal_L12 Riboso 75.2 4.1 0.0001 21.5 3.7 29 5-33 13-41 (68) 26 pfam03943 TAP_C TAP C-terminal 72.8 8.3 0.00021 19.5 5.5 37 7-43 2-38 (51) 27 KOG1364 consensus 58.7 15 0.00039 17.7 5.3 45 4-48 5-50 (356) 28 cd01788 ElonginB Elongin B is 52.4 8.7 0.00022 19.4 1.7 35 234-268 27-61 (119) 29 pfam08285 DPM3 Dolichol-phosph 46.4 6.8 0.00017 20.0 0.4 24 22-45 65-88 (91) 30 pfam07442 Ponericin Ponericin. 45.0 20 0.0005 17.0 2.6 20 34-53 6-27 (29) 31 pfam06972 DUF1296 Protein of u 43.6 26 0.00067 16.2 4.9 37 6-42 6-43 (60) 32 TIGR00977 LeuA_rel 2-isopropyl 40.5 29 0.00074 15.9 2.9 113 117-237 175-348 (543) 33 PRK11478 hypothetical protein; 39.2 13 0.00033 18.2 0.9 10 33-42 16-25 (129) 34 TIGR02124 hypE hydrogenase exp 38.7 20 0.0005 17.0 1.8 26 257-282 225-251 (345) 35 PRK00157 rplL 50S ribosomal pr 36.6 13 0.00034 18.1 0.7 14 128-141 21-34 (124) 36 TIGR03081 metmalonyl_epim meth 36.2 16 0.0004 17.7 1.0 16 32-47 10-26 (128) 37 TIGR00855 L12 ribosomal protei 34.4 14 0.00036 18.0 0.5 25 7-31 77-102 (131) 38 cd02636 R3H_sperm-antigen R3H 30.1 43 0.0011 14.8 2.6 48 238-295 4-53 (61) 39 pfam03474 DMA DMRTA motif. Thi 29.6 38 0.00096 15.1 2.0 17 25-41 22-38 (39) 40 TIGR02194 GlrX_NrdH Glutaredox 27.3 37 0.00094 15.2 1.7 23 24-46 16-46 (72) 41 COG3473 Maleate cis-trans isom 26.2 48 0.0012 14.4 2.1 37 250-292 121-157 (238) 42 PRK04101 fosfomycin resistance 26.1 42 0.0011 14.8 1.8 12 32-43 13-24 (139) 43 PRK12570 N-acetylmuramic acid- 25.7 51 0.0013 14.3 6.2 18 181-198 227-244 (296) 44 smart00685 DM14 Repeats in fly 25.7 51 0.0013 14.2 3.3 26 21-46 9-37 (59) 45 PHA01735 hypothetical protein 25.5 23 0.0006 16.5 0.4 19 28-46 29-47 (76) 46 TIGR02448 TIGR02448 conserverd 25.0 49 0.0013 14.3 2.0 12 121-132 54-65 (107) 47 TIGR00979 fumC_II fumarate hyd 24.8 29 0.00074 15.8 0.8 18 191-210 144-161 (459) 48 TIGR02928 TIGR02928 orc1/cdc6 23.7 55 0.0014 14.0 3.1 55 70-135 76-131 (383) 49 TIGR02544 III_secr_YscJ type I 23.0 29 0.00075 15.8 0.5 15 165-179 152-166 (203) 50 pfam03738 GSP_synth Glutathion 22.9 57 0.0015 13.9 5.0 77 3-83 31-114 (372) 51 KOG1715 consensus 22.3 59 0.0015 13.8 3.2 21 84-104 54-74 (187) 52 TIGR02749 prenyl_cyano solanes 21.7 60 0.0015 13.8 2.8 65 123-193 137-211 (325) 53 pfam08549 SWI-SNF_Ssr4 Fungal 21.1 62 0.0016 13.7 5.5 108 181-291 359-478 (669) 54 PRK10291 glyoxalase I; Provisi 20.8 44 0.0011 14.7 1.0 12 32-43 5-16 (129) 55 KOG1161 consensus 20.0 65 0.0017 13.5 3.7 55 7-62 73-138 (310) No 1 >PRK09377 tsf elongation factor Ts; Provisional Probab=100.00 E-value=0 Score=682.23 Aligned_cols=270 Identities=47% Similarity=0.719 Sum_probs=257.0 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCEEEEEEEEE Q ss_conf 97355899999998719998999999996299989999999982388998651033642200004407885369999840 Q gi|254780778|r 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIARDGYKKASIVEVNVE 80 (296) Q Consensus 1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~~~~~~a~liEincE 80 (296) |+.||+++||+||++||||||||||||+||+||+|+|++|||++|+++|+||++|.|+||+|+++.++ +.|+|+||||| T Consensus 1 M~~isa~~vK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~LRkkG~akA~Kk~~R~a~EG~i~~~~~~-~~~~~vElncE 79 (288) T PRK09377 1 MAAITAALVKELRERTGAGMMDCKKALTEANGDIEKAIEWLRKKGLAKAAKKAGRVAAEGLVAVKVDG-NKAALVEVNSE 79 (288) T ss_pred CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECC-CEEEEEEEECC T ss_conf 97468999999998869869999999998599899999999997389888733842227169999759-86999999446 Q ss_pred CCHHHCCHHHHHHHHHHHHHHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCC Q ss_conf 3101022679999998887531033-565778640041000014677899998543431024443102222100000135 Q gi|254780778|r 81 TDSLAKNTDFQSLVSNIAGIALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHA 159 (296) Q Consensus 81 TDFVAkn~~F~~l~~~i~~~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~ 159 (296) |||||||+.|++|++++++.++.++ .++++++..++ +|.||+|.+.+++++|||||+|||+.++ .+++++++|+|+ T Consensus 80 TDFVArne~F~~l~~~ia~~~l~~~~~~~e~l~~~~~--~~~tv~d~~~~~i~~iGEnI~lrR~~~~-~~~~~i~~Y~H~ 156 (288) T PRK09377 80 TDFVAKNEDFQALANEVAEAALANKPADVEALLALKL--DGGTVEEARKELIAKIGENISLRRFAVL-VEGGVVGSYLHG 156 (288) T ss_pred CCCHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHCCC--CCCCHHHHHHHHHHHHCCEEEEEEEEEE-CCCCEEEEEECC T ss_conf 6311068889999999999998659433999971656--8981999999999863441675458998-159737888748 Q ss_pred CCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 32346034434443035432157899988565566765433204587836277776656667763125786789977740 Q gi|254780778|r 160 SPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVN 239 (296) Q Consensus 160 ~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~ 239 (296) + |||||||.++++. .+++|+||||||||+|.||++++||++++++|++|+++|++++|||++|++||++ T Consensus 157 ~-----gkigvlV~~~~~~------~e~ak~iAMHIaA~~P~~l~~~~vp~~~i~~E~~i~~~q~~~~gKP~~i~eKIv~ 225 (288) T PRK09377 157 G-----GRIGVLVALEGDD------EELAKDIAMHIAAMNPEYLSRDDVPAEVVEKEREIFEEQAKEEGKPEEIVEKIVE 225 (288) T ss_pred C-----CCEEEEEEECCCH------HHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH T ss_conf 9-----9569999952877------9999999888873188014624388678899999999998737991889999986 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 1676664233302560002777439999987764207982899889876224 Q gi|254780778|r 240 GKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 240 Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) |||+|||+|+|||+||||+||++||++||++. +++|++|+||+||| T Consensus 226 Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~~~------~~~v~~F~R~evGE 271 (288) T PRK09377 226 GRLKKFLKEVVLLEQPFVKDPKKTVEQLLKEA------GAEVTGFVRFEVGE 271 (288) T ss_pred HHHHHHHHHHEECCCCCCCCCCCCHHHHHHHC------CCEEEEEEEEECCC T ss_conf 56877876621057873068973499999976------99796899995068 No 2 >COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis] Probab=100.00 E-value=0 Score=660.74 Aligned_cols=275 Identities=46% Similarity=0.655 Sum_probs=261.0 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECC-CCCEEEEEEEE Q ss_conf 97355899999998719998999999996299989999999982388998651033642200004407-88536999984 Q gi|254780778|r 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIARDG-YKKASIVEVNV 79 (296) Q Consensus 1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~~~-~~~a~liEinc 79 (296) |+.||+++||+||++||||||||||||+|++||+|+|++|||++|+++|.||++|.|+||+|+++.++ ++.|+|+|||| T Consensus 1 m~~ita~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG~akA~KKa~R~AaEGli~~~~~~~~~~av~vEvN~ 80 (296) T COG0264 1 MAEITAALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKGIAKAAKKAGRIAAEGLIAAKVDGDGKKAVLVEVNC 80 (296) T ss_pred CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHCHHHHHHHCCCCHHCCEEEEEECCCCCEEEEEEEEC T ss_conf 97545999999998859868999999998479899999999984557666644862102169999718886789999854 Q ss_pred ECCHHHCCHHHHHHHHHHHHHHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECC Q ss_conf 03101022679999998887531033-56577864004100001467789999854343102444310222210000013 Q gi|254780778|r 80 ETDSLAKNTDFQSLVSNIAGIALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLH 158 (296) Q Consensus 80 ETDFVAkn~~F~~l~~~i~~~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H 158 (296) ||||||||+.|+.|++++++.++... .+++++....+. +|+||++.+..++++|||||.+||+..++..++++++|+| T Consensus 81 ETDFVAkN~~F~~la~~ia~~~l~~~~~~ve~l~~~~~~-~~~tvee~~~~~~AkIGENi~lRR~~~~~~~~~~v~~Y~H 159 (296) T COG0264 81 ETDFVAKNAEFQELANKIAKAALEKKPADVEELKAAFEP-GGKTVEEEIAALIAKIGENISLRRFAVLEAGDGVVGSYLH 159 (296) T ss_pred CCCCEECCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC-CCCCHHHHHHHHHHHHCCCEEEEEEEEEECCCCCEEEEEE T ss_conf 642045774689999999999998385658999864403-6862999999999875234168888876157630788980 Q ss_pred CCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 53234603443444303543215789998856556676543320458783627777665666776312578678997774 Q gi|254780778|r 159 ASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIV 238 (296) Q Consensus 159 ~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv 238 (296) ++ |||||||.++++. ...+++|+|||||||++|.||+.++||++++++||+|+..|+..+|||++|++||| T Consensus 160 ~~-----griGVlv~~~~~~----~~~~~ak~iAMHiAA~~P~~ls~~dV~~e~v~~Er~i~~~~~~~~gKP~~i~eKiV 230 (296) T COG0264 160 GN-----GRIGVLVALKGGA----ADEELAKDIAMHIAAMNPQYLSREDVPAEVVEKEREIFLAQLKAEGKPENIVEKIV 230 (296) T ss_pred CC-----CCEEEEEEEECCC----HHHHHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH T ss_conf 79-----7079999972463----27899998888998638732782128999999899999998774399699999998 Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 01676664233302560002777439999987764207982899889876224 Q gi|254780778|r 239 NGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 239 ~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) +|||+|||+|+|||+||||+||++||++||++. +++|.+|+||++|| T Consensus 231 eGr~~Kf~~E~~Ll~Q~fV~d~~~TV~~~lke~------~~~v~~FvR~evGe 277 (296) T COG0264 231 EGRMNKFLAEVCLLEQPFVKDPKKTVEQLLKEA------NAKVTEFVRFEVGE 277 (296) T ss_pred HHHHHHHHHHHHHCCCCEECCCCHHHHHHHHHC------CCEEEEEEEEECCC T ss_conf 689998888872006840038610099999745------83361464431057 No 3 >TIGR00116 tsf translation elongation factor Ts; InterPro: IPR001816 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome , , . EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) . This entry represents EF-Tu (EF1A) proteins found primarily in bacteria, mitochondria and chloroplasts. More information about these proteins can be found at Protein of the Month: Elongation Factors .; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005622 intracellular. Probab=100.00 E-value=0 Score=649.23 Aligned_cols=284 Identities=39% Similarity=0.579 Sum_probs=266.5 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCC--CEEEEEEE Q ss_conf 9735589999999871999899999999629998999999998238899865103364220000440788--53699998 Q gi|254780778|r 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIARDGYK--KASIVEVN 78 (296) Q Consensus 1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~~~~~--~a~liEin 78 (296) |+.||+++||+||++||||||||||||.++|||||+||+|||++|+++|+||+||+|+||+|.+.+++ . +|+||||| T Consensus 1 M~~i~a~lVKeLR~~T~AGmMDCKKAL~~~~GD~ekAi~~LRe~G~~KAaKKadrvAaEG~i~~~~~~-~fk~a~~vEvN 79 (364) T TIGR00116 1 MMAITAQLVKELRERTGAGMMDCKKALVEANGDLEKAIDNLREKGIAKAAKKADRVAAEGVILLKSDN-NFKKAVIVEVN 79 (364) T ss_pred CCCCCHHHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHCCCEECCCEEEEEECC-CCCEEEEEEEC T ss_conf 97777999998874058883136787521268388999997131733576520780004768887718-74157899972 Q ss_pred EECCHHHCCHHHHHHHHHHHH--HHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CEE Q ss_conf 403101022679999998887--531033-5657786400410000146778999985434310244431022221-000 Q gi|254780778|r 79 VETDSLAKNTDFQSLVSNIAG--IALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEG-VIS 154 (296) Q Consensus 79 cETDFVAkn~~F~~l~~~i~~--~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~-~v~ 154 (296) |||||||||..|..|++.+.+ ....++ .+++++...++. +..+|+|++..++|+|||||.|||+..++.+++ +++ T Consensus 80 seTDFVAkn~gf~~f~~~~~~~~~~~a~~~~~~e~~~~~~l~-n~~~v~E~l~~~~AkigEnI~~Rr~~~l~~~~n~~i~ 158 (364) T TIGR00116 80 SETDFVAKNEGFKEFANKLLDKVFLKANKITTVEELQKQELE-NKEKVEEYLASLVAKIGENIVLRRVAVLEGQSNEVIG 158 (364) T ss_pred CCCCHHHHCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCEEEEEEEEEECCCHHHHH T ss_conf 766555623358999999999999871786066787775520-5762787787665542352278999997167568887 Q ss_pred EECCC-CCCCCHHHHHHHHHHCCC--C-CHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHH-----HHHHHH--- Q ss_conf 00135-323460344344430354--3-21578999885655667654332045878362777766-----566677--- Q gi|254780778|r 155 SYLHA-SPSEGLGSIGVLVALQSS--A-EDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANK-----RAHYMT--- 222 (296) Q Consensus 155 ~Y~H~-~~~~~~GkigvlV~l~~~--~-~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~E-----k~i~~~--- 222 (296) +|+|. + +||||||.+++. . ++...+.+++|+|||||||++|.||+.+||+++++++| ++|+.. T Consensus 159 ~YlH~e~-----~rIGVL~~~~g~df~~~~~~~~~e~~k~~AmHvAA~~P~fi~~~dV~~~~~~~Etlali~~I~~~nee 233 (364) T TIGR00116 159 SYLHAEN-----ARIGVLVELKGKDFSDEEDKIVKELAKDLAMHVAASKPQFIDQDDVSQEVVKKETLALIREIITDNEE 233 (364) T ss_pred HHHCCCC-----CEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCEECCCCCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 5312378-----72689988711231101012577766458888886188056724578778888999999999741145 Q ss_pred --------------------------------HHHCCCC--HH--HHHHHHHHHHHHHHHHH-------HHHCCCCCCCC Q ss_conf --------------------------------6312578--67--89977740167666423-------33025600027 Q gi|254780778|r 223 --------------------------------EALDSGK--SG--NIVEKIVNGKMQSFCKE-------CVLLHQGFVVD 259 (296) Q Consensus 223 --------------------------------~~~~~gK--p~--~i~ekIv~Gkl~Kf~~E-------~~LleQ~fv~D 259 (296) |+..+|| |+ +|++|||+|||+||+.| +||++|+||+| T Consensus 234 akrlGkPlkniPtfGsrielsdevlahqkkaf~a~~~gk~~P~ka~i~~K~V~Gr~~Kf~~entlidqr~~L~~Q~fv~d 313 (364) T TIGR00116 234 AKRLGKPLKNIPTFGSRIELSDEVLAHQKKAFQAELEGKENPKKAEILEKIVEGRMKKFLAENTLIDQRISLLGQAFVMD 313 (364) T ss_pred HHHHCCCHHHCCCCCCEEEHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHHHCEEEECCCEEEEC T ss_conf 57515620213664531101367887668889999863178504457413334336666642123200121017614317 Q ss_pred CCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 77439999987764207982899889876224 Q gi|254780778|r 260 PSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 260 ~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) |++||+|+|++.+|..+.+.+|..|+||+||| T Consensus 314 ~~~tv~q~l~e~SK~~~~~~~v~~F~R~EvGE 345 (364) T TIGR00116 314 DKKTVGQFLKEISKAISKNAKVTEFVRFEVGE 345 (364) T ss_pred CCCCHHHHHHHHHHHHHCCCEEEEEEEEEECC T ss_conf 86538999999987752485288889887537 No 4 >PRK12332 tsf elongation factor Ts; Reviewed Probab=100.00 E-value=0 Score=533.38 Aligned_cols=196 Identities=43% Similarity=0.646 Sum_probs=188.3 Q ss_pred CCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE-CCCCCEEEEEEEE Q ss_conf 973558999999987199989999999962999899999999823889986510336422000044-0788536999984 Q gi|254780778|r 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIAR-DGYKKASIVEVNV 79 (296) Q Consensus 1 Ma~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~-~~~~~a~liEinc 79 (296) |+ ||+++||+||++||||||||||||.|++||+|+|++|||++|+++|+||++|.|+||+|+++. .+.+.|+|+|||| T Consensus 1 M~-Isa~~VK~LR~~TgagmmdCKkAL~e~~gD~ekAi~~LR~kG~a~A~Kk~~R~a~eG~v~~~i~~~~~~~~ivEln~ 79 (216) T PRK12332 1 MA-ITAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREKGLAKAAKKAGRVAAEGIVGSYIHTGGRIGVLVELNC 79 (216) T ss_pred CC-CCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCHHHCCCEEEEEEECCCCEEEEEEEEE T ss_conf 96-78999999998869879999999998599999999999997277778751433315705889807997899999971 Q ss_pred ECCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCC Q ss_conf 03101022679999998887531033565778640041000014677899998543431024443102222100000135 Q gi|254780778|r 80 ETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHA 159 (296) Q Consensus 80 ETDFVAkn~~F~~l~~~i~~~~l~~~~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~ 159 (296) ||||||||++|+. T Consensus 80 ETDFVAkne~F~~------------------------------------------------------------------- 92 (216) T PRK12332 80 ETDFVARNDEFQE------------------------------------------------------------------- 92 (216) T ss_pred CCCHHHCCHHHHH------------------------------------------------------------------- T ss_conf 3521215727999------------------------------------------------------------------- Q ss_pred CCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 32346034434443035432157899988565566765433204587836277776656667763125786789977740 Q gi|254780778|r 160 SPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVN 239 (296) Q Consensus 160 ~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~ 239 (296) |+++||||||||+|.||++++||++++++|++|+++|++.+|||++|++||++ T Consensus 93 ---------------------------lak~IAMhIAA~~P~~l~~~~vp~~viekE~~i~~~q~~~~gKP~~I~eKIv~ 145 (216) T PRK12332 93 ---------------------------LVKDIAMQIAAMNPEYVSREDIPAEVIEKEKEIERAQADLEGKPENIVEKIVE 145 (216) T ss_pred ---------------------------HHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH T ss_conf ---------------------------99999999970498763467689788999999999888605896999999987 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 1676664233302560002777439999987764207982899889876224 Q gi|254780778|r 240 GKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 240 Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) |||+|||+|+|||+|+||+||++||++||+++++++|.+++|.+|+||+||| T Consensus 146 Gkl~Kf~~E~~Ll~Q~fV~D~~~tV~~~l~~~~k~~G~~i~I~~FvRfevGE 197 (216) T PRK12332 146 GRIEKFLKELCLLEQPFIKDPSKTVEDLVKEAIAKIGENIRVRRFTRFELGE 197 (216) T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEEEEEECC T ss_conf 8999888772011678431798279999999888508983899999998048 No 5 >CHL00098 tsf elongation factor Ts Probab=100.00 E-value=0 Score=521.50 Aligned_cols=193 Identities=36% Similarity=0.528 Sum_probs=184.4 Q ss_pred CHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE-CCCCCEEEEEEEEECCH Q ss_conf 58999999987199989999999962999899999999823889986510336422000044-07885369999840310 Q gi|254780778|r 5 SAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLIGIAR-DGYKKASIVEVNVETDS 83 (296) Q Consensus 5 t~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG~v~~~~-~~~~~a~liEincETDF 83 (296) ||++||+||++||||||||||||+|++||+|+|++|||++|+++|+||++|.|+||+|+.+. .+++.|+|+|||||||| T Consensus 1 tA~~VKeLR~~TgagmmdCKkAL~e~~gD~e~Ai~~LR~kG~a~a~Kk~~R~a~eG~v~~~i~~~~~~~~ivEln~ETDF 80 (207) T CHL00098 1 SAKLVKELRDKTGAGMMDCKKALQENNGDFEKALESLRQKGLASANKKSTRTATEGRIESYIHTGGRLGVLVEVNCETDF 80 (207) T ss_pred CHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCEEEEEEEECCCCH T ss_conf 97899999988698799999999985999999999999963778899875654278558999469968999998437717 Q ss_pred HHCCHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCC Q ss_conf 10226799999988875310335657786400410000146778999985434310244431022221000001353234 Q gi|254780778|r 84 LAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSE 163 (296) Q Consensus 84 VAkn~~F~~l~~~i~~~~l~~~~~~~~~~~~~~~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~~~~~ 163 (296) ||||+.|+ T Consensus 81 VAkn~~F~------------------------------------------------------------------------ 88 (207) T CHL00098 81 VARREEFQ------------------------------------------------------------------------ 88 (207) T ss_pred HHHHHHHH------------------------------------------------------------------------ T ss_conf 76513589------------------------------------------------------------------------ Q ss_pred CHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH-HHHCCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH Q ss_conf 603443444303543215789998856556676543-3204587836277776656667763125786789977740167 Q gi|254780778|r 164 GLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLAS-PSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKM 242 (296) Q Consensus 164 ~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~-P~~l~~~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~Gkl 242 (296) +++++|||||||++ |.||++++||++++++|++|+..|+..+|||++|++||++||| T Consensus 89 ----------------------~lak~IAMhIAA~~~~~~v~~~~Vp~~~iekEk~I~~~q~~~~GKP~~iieKIveGkl 146 (207) T CHL00098 89 ----------------------KLAKNIAMQIAACPNVEYVSTEDIPQEIIDREKRIEAGKDDLQNKPAEIKEKIVEGRI 146 (207) T ss_pred ----------------------HHHHHHHHHHHCCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH T ss_conf ----------------------9999999998643981308754488689999999999888667996999999986699 Q ss_pred HHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 6664233302560002777439999987764207982899889876224 Q gi|254780778|r 243 QSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 243 ~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) +|||+|+|||+|+||+||++||++||+++++++|.+|+|++|+||+||| T Consensus 147 ~Kf~~E~~LleQ~fVkD~~~tV~~~l~e~~k~lG~~i~V~~FvRfevGE 195 (207) T CHL00098 147 KKRLKELSLLDQPFIKDQDITVEELIKQNIAKLGENIKIRRFARFVLGE 195 (207) T ss_pred HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEEEEEECC T ss_conf 9999875551687022898359999999887508982899999998258 No 6 >KOG1071 consensus Probab=100.00 E-value=0 Score=417.74 Aligned_cols=252 Identities=35% Similarity=0.519 Sum_probs=209.6 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHEECCCCCEEEEEEE Q ss_conf 355899999998719998999999996299989999999982----3889986510336422000044078853699998 Q gi|254780778|r 3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTK----GAMAASKREGRKVSEGLIGIARDGYKKASIVEVN 78 (296) Q Consensus 3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkk----G~~~A~Kk~~R~a~eG~v~~~~~~~~~a~liEin 78 (296) .+++++||+||++|||||++||+||+||+||+..|.+||+|+ ||.+|+|+++|.|+||+|+++.++ ++++|+||| T Consensus 44 ~~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~L~k~aqk~g~~~A~K~~sR~t~eGlIgv~~~~-~r~vlvElN 122 (340) T KOG1071 44 ASSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEWLHKKAQKEGWSKAAKKASRTTKEGLIGVLQED-GRTVLVELN 122 (340) T ss_pred CCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEC-CEEEEEEEE T ss_conf 1469999999987098588899999981786899999999999986566776641431124436899708-868999960 Q ss_pred EECCHHHCCHHHHHHHHHHHHHHHHCC-------CCHH------------------HHHHCCCCCCCH-HHHHHHHHHHH Q ss_conf 403101022679999998887531033-------5657------------------786400410000-14677899998 Q gi|254780778|r 79 VETDSLAKNTDFQSLVSNIAGIALSTD-------GSLD------------------NVLAMPFDHSGI-TVGDGIKQQIA 132 (296) Q Consensus 79 cETDFVAkn~~F~~l~~~i~~~~l~~~-------~~~~------------------~~~~~~~~~~~~-tv~d~i~~~ia 132 (296) |||||||||+.|+.|++.|+...+... .+.. ..+....+.+|+ +++|.+..+|+ T Consensus 123 CETDFVARn~~Fq~Lv~~iA~~~l~~~~~~~~~~s~~s~e~~l~~~~~g~kl~~~~~~l~~~~d~~gkvsl~d~l~~~i~ 202 (340) T KOG1071 123 CETDFVARNDIFQDLVDQIALSVLAHCQTLKTKHSSYSKEKELEMDGRGFKLSESLSLLPNLPDVEGKVSLKDQLALAIG 202 (340) T ss_pred CCCCHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCCEEHHHHHHHHHH T ss_conf 44223334636999999999999876510246766643223302364377766777524377776664339999999998 Q ss_pred HHHHHHHHHHHHHCCCCCC-CEEEECCCCCCC------CHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCH Q ss_conf 5434310244431022221-000001353234------603443444303543215789998856556676543320458 Q gi|254780778|r 133 ITGECIKLRRSALLCVSEG-VISSYLHASPSE------GLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISV 205 (296) Q Consensus 133 ~iGEnI~l~R~~~~~~~~~-~v~~Y~H~~~~~------~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~ 205 (296) ++||||++||+.+++.+++ .+++|.|....+ ..|++|++|+++......-....++++||.||++|.|..+. T Consensus 203 ~~GENvkvrR~~~~ka~~g~~l~~y~H~A~q~agt~~l~~g~~~alvAi~~~~s~~~~~~~~~~~i~q~ivgm~p~s~~- 281 (340) T KOG1071 203 KLGENVKVRRAACMKAPSGTYLGSYSHGAPQSAGTHKLPLGEYGALVAINSVSSQLTSLEDVAKQICQHIVGMSPESVG- 281 (340) T ss_pred HHCCCEEEEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHC- T ss_conf 7356617867777864887367764137888864100334664014443402612421999977888876246806531- Q ss_pred HHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEE Q ss_conf 78362777766566677631257867899777401676664233302560002777439999987764207982899889 Q gi|254780778|r 206 QMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVS 285 (296) Q Consensus 206 ~~v~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~ 285 (296) +.+ +.| |.. +...|++||.|+|+.||.+||++|+.. .+.+|++|+ T Consensus 282 e~~-----k~e-------------~~~-----------~~e~et~ll~q~~lld~~itv~~~l~~------~~~~V~Dfv 326 (340) T KOG1071 282 ESL-----KDE-------------PGQ-----------GAEAETALLSQPSLLDPSITVKEYLDP------HNVSVVDFV 326 (340) T ss_pred CCC-----CCC-------------CCC-----------CCCCHHHHEECHHHCCCHHHHHHHHCC------CCCCHHHHH T ss_conf 233-----555-------------323-----------531022212107452723448777366------774068889 Q ss_pred EEEECC Q ss_conf 876224 Q gi|254780778|r 286 HFVVGK 291 (296) Q Consensus 286 R~~lGE 291 (296) ||++|| T Consensus 327 R~E~Ge 332 (340) T KOG1071 327 RFEVGE 332 (340) T ss_pred HHHHCC T ss_conf 988513 No 7 >pfam00889 EF_TS Elongation factor TS. Probab=100.00 E-value=0 Score=380.47 Aligned_cols=176 Identities=43% Similarity=0.672 Sum_probs=162.6 Q ss_pred HHHHHHHHEECCCCCEEEEEEEEECCHHHCCHHHHHHHHHHHHHHHHCC-CCHHHHHHCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 6422000044078853699998403101022679999998887531033-565778640041000014677899998543 Q gi|254780778|r 57 VSEGLIGIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTD-GSLDNVLAMPFDHSGITVGDGIKQQIAITG 135 (296) Q Consensus 57 a~eG~v~~~~~~~~~a~liEincETDFVAkn~~F~~l~~~i~~~~l~~~-~~~~~~~~~~~~~~~~tv~d~i~~~ia~iG 135 (296) |+||+|+++.++ +.|+|+||||||||||||++|++|++++++.++.++ .++++++..++ +|.|++|.+.+++++|| T Consensus 1 A~EGlI~~~~~~-~~~~~vElncETDFVAkne~F~~l~~~ia~~~l~~~~~~~e~l~~~~~--~~~tv~d~~~~~i~~iG 77 (177) T pfam00889 1 AAEGLVAVYIDG-NKGVLVEVNCETDFVAKNEKFQALVNKVAEAALAAKPADVEALLALPL--GGETVEDALAELIAKIG 77 (177) T ss_pred CCCCEEEEEECC-CEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHCCC--CCCCHHHHHHHHHHHHC T ss_conf 987379999739-969999997056545788789999999999998739644888850534--79709999999986413 Q ss_pred HHHHHHHHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHH Q ss_conf 43102444310222210000013532346034434443035432157899988565566765433204587836277776 Q gi|254780778|r 136 ECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVAN 215 (296) Q Consensus 136 EnI~l~R~~~~~~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~ 215 (296) |||+|||+.+++.+++++++|+|++ ||||+||.++++.+. +++|+||||||||+|.||++++|| T Consensus 78 EnI~lrR~~~~~~~~~~i~~Y~H~~-----gkigvlv~~~~~~~~-----elak~iAMhIaA~~P~~l~~~~v~------ 141 (177) T pfam00889 78 ENISLRRFATVEAPGGVVGSYVHGG-----GRIGVLVALEGDNDE-----ELAKDIAMHIAAMNPQYVSRDDVP------ 141 (177) T ss_pred CCEEEEEEEEEECCCCEEEEEEECC-----CCEEEEEEEECCCHH-----HHHHHHHHHHHHCCCCCCCHHHCC------ T ss_conf 2045401689833786466787158-----966999997179989-----999999889985097415835580------ Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 6566677631257867899777401676664233302560002777439999987764207982899889876224 Q gi|254780778|r 216 KRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 216 Ek~i~~~~~~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) |||+||||+||++||++||++. +.+|++|+||+||| T Consensus 142 ----------------------------------~Ll~Q~fv~D~~~tV~~~l~~~------~~~v~~F~R~evGE 177 (177) T pfam00889 142 ----------------------------------CLLEQPFVKDPKKTVEQYLKEA------GAKVVRFVRFEVGE 177 (177) T ss_pred ----------------------------------HHCCCCCEECCCEEHHHHHHHC------CCEEEEEEEEECCC T ss_conf ----------------------------------2308972607961599999876------98787899983179 No 8 >LOAD_efts_N consensus Probab=99.49 E-value=3e-14 Score=115.64 Aligned_cols=40 Identities=48% Similarity=0.606 Sum_probs=39.0 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 3558999999987199989999999962999899999999 Q gi|254780778|r 3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR 42 (296) Q Consensus 3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR 42 (296) .||+++||+||++||+|||||||||.|++||+++||+||| T Consensus 2 ~i~a~~vk~lre~tgagmmdckkAL~e~~GD~~~Ai~~Lr 41 (41) T LOAD_efts_N 2 GISAEDIKLLREQTGVSMMDAKKALKENNGDVVKAIEELR 41 (41) T ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHC T ss_conf 5689999999988297198899999885898999999869 No 9 >KOG1071 consensus Probab=98.50 E-value=5.1e-07 Score=67.49 Aligned_cols=116 Identities=17% Similarity=0.228 Sum_probs=95.2 Q ss_pred CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHH Q ss_conf 222100000135323460344344430354321---57899988565566765433204587836277776656667763 Q gi|254780778|r 148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEA 224 (296) Q Consensus 148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~ 224 (296) +.+|.++.|+|++ |+ |+|++++.++- .+.++.+..+|||.+.+ -|.++. ..+..+.+|..+.. T Consensus 102 t~eGlIgv~~~~~------r~-vlvElNCETDFVARn~~Fq~Lv~~iA~~~l~-~~~~~~---~~~s~~s~e~~l~~--- 167 (340) T KOG1071 102 TKEGLIGVLQEDG------RT-VLVELNCETDFVARNDIFQDLVDQIALSVLA-HCQTLK---TKHSSYSKEKELEM--- 167 (340) T ss_pred CCCCEEEEEEECC------EE-EEEEEECCCCHHHCCCHHHHHHHHHHHHHHH-HHHHCC---CCHHHHHHHHHCCC--- T ss_conf 1244368997088------68-9999604422333463699999999999987-651024---67666432233023--- Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 1257867899777401676664233302560002777439999987764207982899889876224 Q gi|254780778|r 225 LDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 225 ~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) +|+..|.+.+--|+.|++..|++.|+++.|...-...|.|++|.+|.+|..++ T Consensus 168 --------------~~~g~kl~~~~~~l~~~~d~~gkvsl~d~l~~~i~~~GENvkvrR~~~~ka~~ 220 (340) T KOG1071 168 --------------DGRGFKLSESLSLLPNLPDVEGKVSLKDQLALAIGKLGENVKVRRAACMKAPS 220 (340) T ss_pred --------------CCHHHHHHHHHHHCCCCCCCCCCEEHHHHHHHHHHHHCCCEEEEEEEEEECCC T ss_conf --------------64377766777524377776664339999999998735661786777786488 No 10 >pfam00627 UBA UBA/TS-N domain. This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin and the ubiquitination pathway. The structure of the UBA domain consists of a compact three helix bundle. This domain is found at the N terminus of EF-TS hence the name TS-N. The structure of EF-TS is known and this domain is implicated in its interaction with EF-TU. The domain has been found in non EF-TS proteins such as alpha-NAC and MJ0280. Probab=97.66 E-value=6.6e-05 Score=53.45 Aligned_cols=36 Identities=31% Similarity=0.424 Sum_probs=34.2 Q ss_pred CHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 5899999998719998999999996299989999999 Q gi|254780778|r 5 SAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDIL 41 (296) Q Consensus 5 t~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~L 41 (296) ..+.|+.|+++ |.+..+|++||..|+||++.|++|| T Consensus 2 ~~~~i~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~~L 37 (37) T pfam00627 2 DEELIKQLREM-GFSREEAKKALRATNGNVERAVEYL 37 (37) T ss_pred CHHHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHC T ss_conf 88999999990-9999999999998279999997549 No 11 >pfam00889 EF_TS Elongation factor TS. Probab=97.24 E-value=0.00061 Score=47.01 Aligned_cols=46 Identities=28% Similarity=0.521 Sum_probs=25.0 Q ss_pred CCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHH Q ss_conf 22100000135323460344344430354321---578999885655667654332 Q gi|254780778|r 149 SEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPS 201 (296) Q Consensus 149 ~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~ 201 (296) .+|.++.|+|++ .|++|++.+.++- .+.+..|+++|++++++.+|. T Consensus 2 ~EGlI~~~~~~~-------~~~~vElncETDFVAkne~F~~l~~~ia~~~l~~~~~ 50 (177) T pfam00889 2 AEGLVAVYIDGN-------KGVLVEVNCETDFVAKNEKFQALVNKVAEAALAAKPA 50 (177) T ss_pred CCCEEEEEECCC-------EEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCC T ss_conf 873799997399-------6999999705654578878999999999999873964 No 12 >COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis] Probab=96.99 E-value=0.002 Score=43.55 Aligned_cols=92 Identities=21% Similarity=0.291 Sum_probs=73.2 Q ss_pred CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHH Q ss_conf 222100000135323460344344430354321---57899988565566765433204587836277776656667763 Q gi|254780778|r 148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEA 224 (296) Q Consensus 148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~ 224 (296) +.+|.+..|++++ |+.|++|++++.++- ++.++.|+++|+-+++..+|..+. . T Consensus 57 AaEGli~~~~~~~-----~~~av~vEvN~ETDFVAkN~~F~~la~~ia~~~l~~~~~~ve--~----------------- 112 (296) T COG0264 57 AAEGLIAAKVDGD-----GKKAVLVEVNCETDFVAKNAEFQELANKIAKAALEKKPADVE--E----------------- 112 (296) T ss_pred HHCCEEEEEECCC-----CCEEEEEEEECCCCCEECCHHHHHHHHHHHHHHHHHCCCCHH--H----------------- T ss_conf 1021699997188-----867899998546420457746899999999999983856589--9----------------- Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECC Q ss_conf 1257867899777401676664233302560002777439999987764207982899889876224 Q gi|254780778|r 225 LDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGK 291 (296) Q Consensus 225 ~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE 291 (296) |+.+ ..++.+||.+++.+...+.|.+|.+.+|.+|+.+. T Consensus 113 --------------------------l~~~--~~~~~~tvee~~~~~~AkIGENi~lRR~~~~~~~~ 151 (296) T COG0264 113 --------------------------LKAA--FEPGGKTVEEEIAALIAKIGENISLRRFAVLEAGD 151 (296) T ss_pred --------------------------HHHH--HCCCCCCHHHHHHHHHHHHCCCEEEEEEEEEECCC T ss_conf --------------------------9864--40368629999999998752341688888761576 No 13 >PRK09377 tsf elongation factor Ts; Provisional Probab=96.72 E-value=0.0048 Score=41.02 Aligned_cols=86 Identities=23% Similarity=0.341 Sum_probs=67.2 Q ss_pred CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHHH Q ss_conf 222100000135323460344344430354321---57899988565566765433204587836277776656667763 Q gi|254780778|r 148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEA 224 (296) Q Consensus 148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~---~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~Ek~i~~~~~ 224 (296) +.+|.++.|++ |+.|++|++.+.++- ++.+..|+.+++.++...+|..+. T Consensus 57 a~EG~i~~~~~-------~~~~~~vElncETDFVArne~F~~l~~~ia~~~l~~~~~~~e-------------------- 109 (288) T PRK09377 57 AAEGLVAVKVD-------GNKAALVEVNSETDFVAKNEDFQALANEVAEAALANKPADVE-------------------- 109 (288) T ss_pred CCCCEEEEEEC-------CCEEEEEEEECCCCCHHCCHHHHHHHHHHHHHHHHCCCCCHH-------------------- T ss_conf 22716999975-------986999999446631106888999999999999865943399-------------------- Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEE Q ss_conf 1257867899777401676664233302560002777439999987764207982899889876 Q gi|254780778|r 225 LDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFV 288 (296) Q Consensus 225 ~~~gKp~~i~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~ 288 (296) -|+.+++ +..||.+++.+.-..+|.+|.|.+|.++. T Consensus 110 -------------------------~l~~~~~---~~~tv~d~~~~~i~~iGEnI~lrR~~~~~ 145 (288) T PRK09377 110 -------------------------ALLALKL---DGGTVEEARKELIAKIGENISLRRFAVLV 145 (288) T ss_pred -------------------------HHHHCCC---CCCCHHHHHHHHHHHHCCEEEEEEEEEEC T ss_conf -------------------------9971656---89819999999998634416754589981 No 14 >COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription] Probab=95.96 E-value=0.019 Score=37.11 Aligned_cols=40 Identities=30% Similarity=0.277 Sum_probs=37.3 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 3558999999987199989999999962999899999999 Q gi|254780778|r 3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR 42 (296) Q Consensus 3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR 42 (296) .||..+||-.-+.||++.-+.+|||.|++||+-.||--|- T Consensus 82 ~i~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~L~ 121 (122) T COG1308 82 DISEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMKLT 121 (122) T ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHC T ss_conf 8988999999998189999999999983886999998741 No 15 >TIGR00264 TIGR00264 alpha-NAC homolog; InterPro: IPR005231 Eukaryotic NAC, an abundant heterodimer composed of two homologous subunits, reversibly binds eukaryotic ribosomes and is located in direct proximity to nascent polypeptides as they emerge from the ribosome . Despite being implicated in diverse cellular functions, its role in vivo is still not completely understood. It is thought that NAC may function as a shield protecting the nascent chain from inappropriate interactions with cytosolic factors, and could regulate further translation of the polypeptide through its interaction with the ribosome. Archaeal NAC is a homodimer which appears to be functionally analogous to the eukaryotic form, associating with ribosomes and contacting the nascent polypeptide chain emerging on the ribosome . It has two domains; the NAC domain, which it shares with eukaryotic NAC, and a C-terminal UBA domain also found on the alpha, but not beta, subunit of eukaryotic NAC. The NAC domain forms a six-stranded beta-barrel structure which shows some similarities to the OB fold. This domain appears to be responsible for dimerisation, nucleic acid binding, and nascent polypeptide binding. The UBA domain is typical of ubiquitin or polyubquitin-binding proteins; its physiological role is unclear but it was suggested that it may compete with the proteosome for ubiquitin, thus inhibiting ubiquitin-mediated protein degradation. . Probab=95.76 E-value=0.014 Score=37.97 Aligned_cols=40 Identities=25% Similarity=0.250 Sum_probs=37.1 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 3558999999987199989999999962999899999999 Q gi|254780778|r 3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR 42 (296) Q Consensus 3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR 42 (296) +||=.+|+-.-+.||++==+.++||+||+||+..||--|. T Consensus 85 eI~EdDieLvm~Q~nvs~E~ArrALeE~gGDlAEAimkL~ 124 (125) T TIGR00264 85 EISEDDIELVMEQANVSKEEARRALEEAGGDLAEAIMKLE 124 (125) T ss_pred ECCHHHHHHHHHHCCCCHHHHHHHHHHCCCHHHHHHHHHC T ss_conf 4075579999976599988989998631851888987505 No 16 >cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins. Probab=95.39 E-value=0.032 Score=35.55 Aligned_cols=35 Identities=20% Similarity=0.255 Sum_probs=30.5 Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 999999987199989999999962999899999999 Q gi|254780778|r 7 VAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR 42 (296) Q Consensus 7 ~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR 42 (296) +.|.+|.+ -|-+--+|++||..++||++.|++||. T Consensus 3 ~~v~~L~~-MGF~~~~~~~AL~~~~~n~e~A~~~Ll 37 (38) T cd00194 3 EKLEQLLE-MGFSREEARKALRATNNNVERAVEWLL 37 (38) T ss_pred HHHHHHHH-CCCCHHHHHHHHHHHCCCHHHHHHHHH T ss_conf 98999998-599999999999985899999999873 No 17 >smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin. Probab=95.15 E-value=0.04 Score=34.94 Aligned_cols=34 Identities=26% Similarity=0.286 Sum_probs=30.8 Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 99999998719998999999996299989999999 Q gi|254780778|r 7 VAVKELRGKTGAGIMDCKNALLEAKGDSELAIDIL 41 (296) Q Consensus 7 ~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~L 41 (296) +.|.+|..+ |-+-..|++||..|+||++.|.+|| T Consensus 3 e~i~~L~~M-GF~~~~~~~AL~~~~~n~e~A~~~L 36 (37) T smart00165 3 EKIDQLLEM-GFSREEALKALRAANGNVERAAEYL 36 (37) T ss_pred HHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHH T ss_conf 889999985-9999999999998159999999876 No 18 >PRK06369 nac nascent polypeptide-associated complex protein; Reviewed Probab=94.45 E-value=0.11 Score=31.96 Aligned_cols=40 Identities=28% Similarity=0.312 Sum_probs=37.0 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 3558999999987199989999999962999899999999 Q gi|254780778|r 3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILR 42 (296) Q Consensus 3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LR 42 (296) .|+-.+|.-.-++||++--..++||.+++||+-.||--|. T Consensus 76 ~iseeDi~lv~~q~gvs~~~A~~AL~~~~gDia~AI~~L~ 115 (116) T PRK06369 76 EIPEEDIELVMEQTGVSEEEARKALEEANGDLAEAILKLT 115 (116) T ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHH T ss_conf 8888999999988099999999999983896999999861 No 19 >PRK12332 tsf elongation factor Ts; Reviewed Probab=88.03 E-value=0.28 Score=29.29 Aligned_cols=57 Identities=21% Similarity=0.432 Sum_probs=37.6 Q ss_pred CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHH Q ss_conf 2221000001353234603443444303543215789998856556676543320458783627 Q gi|254780778|r 148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPS 211 (296) Q Consensus 148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhiaA~~P~~l~~~~v~~~ 211 (296) +.+|.+++|+|++ ++.|++|++++.++-......| .+++-+|| |.-.+.++.-++++ T Consensus 56 a~eG~v~~~i~~~-----~~~~~ivEln~ETDFVAkne~F-~~lak~IA-MhIAA~~P~~l~~~ 112 (216) T PRK12332 56 AAEGIVGSYIHTG-----GRIGVLVELNCETDFVARNDEF-QELVKDIA-MQIAAMNPEYVSRE 112 (216) T ss_pred HCCCEEEEEEECC-----CCEEEEEEEEECCCHHHCCHHH-HHHHHHHH-HHHHCCCCCCCCHH T ss_conf 3157058898079-----9789999997135212157279-99999999-99970498763467 No 20 >CHL00098 tsf elongation factor Ts Probab=86.74 E-value=0.37 Score=28.50 Aligned_cols=43 Identities=30% Similarity=0.536 Sum_probs=34.6 Q ss_pred CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 2221000001353234603443444303543215789998856556676 Q gi|254780778|r 148 VSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKELLSAIGEKIAVHVM 196 (296) Q Consensus 148 ~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~~~~~~~~~ak~iAmhia 196 (296) +.+|.+++|+|.+ |++|++|++++.++-......| .++|-||| T Consensus 53 a~eG~v~~~i~~~-----~~~~~ivEln~ETDFVAkn~~F-~~lak~IA 95 (207) T CHL00098 53 ATEGRIESYIHTG-----GRLGVLVEVNCETDFVARREEF-QKLAKNIA 95 (207) T ss_pred HCCCCEEEEEECC-----CCEEEEEEEECCCCHHHHHHHH-HHHHHHHH T ss_conf 4278558999469-----9689999984377177651358-99999999 No 21 >smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain. Probab=86.20 E-value=2.3 Score=23.21 Aligned_cols=38 Identities=18% Similarity=0.162 Sum_probs=34.6 Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 89999999871999899999999629998999999998 Q gi|254780778|r 6 AVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRT 43 (296) Q Consensus 6 ~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRk 43 (296) -++|.+|-..||--.-=|.+.|+++++|+++|+....+ T Consensus 13 q~mv~~~s~~T~mn~~~s~~cLe~~~Wdy~~A~~~F~~ 50 (63) T smart00804 13 QEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTE 50 (63) T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 99999999996999999999999859899999999999 No 22 >KOG0944 consensus Probab=78.11 E-value=2.7 Score=22.71 Aligned_cols=26 Identities=27% Similarity=0.317 Sum_probs=12.3 Q ss_pred CCCHHHHHHHHHHC-CCCHHHHHHHHH Q ss_conf 99989999999962-999899999999 Q gi|254780778|r 17 GAGIMDCKNALLEA-KGDSELAIDILR 42 (296) Q Consensus 17 gag~~dCKkAL~e~-~gD~e~Ai~~LR 42 (296) |.|+-.|++||--+ |+|.|.|..||- T Consensus 582 GFp~eac~rAly~tgN~~aEaA~NWl~ 608 (763) T KOG0944 582 GFPEEACRRALYYTGNSGAEAASNWLM 608 (763) T ss_pred CCCHHHHHHHHHHHCCCCHHHHHHHHH T ss_conf 899899999884416862788988999 No 23 >KOG2561 consensus Probab=77.69 E-value=4.7 Score=21.12 Aligned_cols=44 Identities=27% Similarity=0.311 Sum_probs=34.5 Q ss_pred CCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99989999999962999899999999823889986510336422 Q gi|254780778|r 17 GAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEG 60 (296) Q Consensus 17 gag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a~eG 60 (296) |.-=.|.|-||-.|+||+|.|++++.++-...|.+|.-..+.|- T Consensus 314 GfeesdaRlaLRsc~g~Vd~AvqfI~erre~laq~R~k~~a~Er 357 (568) T KOG2561 314 GFEESDARLALRSCNGDVDSAVQFIIERREKLAQKREKDLARER 357 (568) T ss_pred CCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 77816778988754445889999999999999998776578889 No 24 >pfam02845 CUE CUE domain. CUE domains have been shown to bind ubiquitin. It has been suggested that CUE domains are related to pfam00627 and this has been confirmed by the structure of the domain. CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Probab=76.97 E-value=6.3 Score=20.27 Aligned_cols=37 Identities=19% Similarity=0.177 Sum_probs=32.1 Q ss_pred HHHHHHHHHH-CCCHHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 9999999871-999899999999629998999999998 Q gi|254780778|r 7 VAVKELRGKT-GAGIMDCKNALLEAKGDSELAIDILRT 43 (296) Q Consensus 7 ~~iK~LR~~T-gag~~dCKkAL~e~~gD~e~Ai~~LRk 43 (296) +.|..|++.= +.+.-.-+..|.+++||+|.|++.|-+ T Consensus 3 ~~v~~L~emFP~~~~~~I~~~L~~~~g~ve~ai~~LLe 40 (42) T pfam02845 3 EMLETLKEMFPDLDEEVIRAVLQASNGNVEAAINALLE 40 (42) T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHC T ss_conf 78999999867688899999999919988999999876 No 25 >pfam00542 Ribosomal_L12 Ribosomal protein L7/L12 C-terminal domain. Probab=75.16 E-value=4.1 Score=21.53 Aligned_cols=29 Identities=24% Similarity=0.310 Sum_probs=23.9 Q ss_pred CHHHHHHHHHHHCCCHHHHHHHHHHCCCC Q ss_conf 58999999987199989999999962999 Q gi|254780778|r 5 SAVAVKELRGKTGAGIMDCKNALLEAKGD 33 (296) Q Consensus 5 t~~~iK~LR~~Tgag~~dCKkAL~e~~gD 33 (296) ..+.||.+|+.||.|+++.|+..+..... T Consensus 13 Ki~vIK~VR~itglgLkeAK~lVe~~P~~ 41 (68) T pfam00542 13 KIAVIKVVREITGLGLKEAKDLVEGAPKV 41 (68) T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHCCCHH T ss_conf 44999999997699889999998728899 No 26 >pfam03943 TAP_C TAP C-terminal domain. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for nuclear export of mRNA. Tap has a modular structure, and its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling. The structure of the C-terminal domain is composed of four helices. The structure is related to the UBA domain. Probab=72.78 E-value=8.3 Score=19.49 Aligned_cols=37 Identities=14% Similarity=0.162 Sum_probs=33.2 Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 9999999871999899999999629998999999998 Q gi|254780778|r 7 VAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRT 43 (296) Q Consensus 7 ~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRk 43 (296) ++|.++-..||--.-=-++.|+++++|.++|+....+ T Consensus 2 qmv~~~s~qTgmn~e~S~kcL~~n~Wdy~~A~~~F~~ 38 (51) T pfam03943 2 EMVQAFSAQSGMNLEWSQKCLEDNNWDYNRAAQAFTE 38 (51) T ss_pred HHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 7899999997989999999998859889999999999 No 27 >KOG1364 consensus Probab=58.67 E-value=15 Score=17.71 Aligned_cols=45 Identities=20% Similarity=0.162 Sum_probs=39.1 Q ss_pred CCHHHHHHHHHHHC-CCHHHHHHHHHHCCCCHHHHHHHHHHHHHHH Q ss_conf 55899999998719-9989999999962999899999999823889 Q gi|254780778|r 4 VSAVAVKELRGKTG-AGIMDCKNALLEAKGDSELAIDILRTKGAMA 48 (296) Q Consensus 4 it~~~iK~LR~~Tg-ag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~ 48 (296) --.++|++.+..|+ ..+-..++-|..++||++.||.+.++.|... T Consensus 5 ~~~~lv~~fl~It~~~t~e~A~q~L~~~~~~le~ai~Lffe~~~~~ 50 (356) T KOG1364 5 AQRALVSKFLAITVQQTVEIATQYLSAADWDLEAAINLFFEHGGFT 50 (356) T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCC T ss_conf 2789999999873112289999998732774899999999855554 No 28 >cd01788 ElonginB Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain. Probab=52.40 E-value=8.7 Score=19.35 Aligned_cols=35 Identities=23% Similarity=0.321 Sum_probs=26.2 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHH Q ss_conf 97774016766642333025600027774399999 Q gi|254780778|r 234 VEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFL 268 (296) Q Consensus 234 ~ekIv~Gkl~Kf~~E~~LleQ~fv~D~~~tV~~~l 268 (296) +.+|++|=+++--.+..|+...-++|+.+|.+++= T Consensus 27 LK~iieGIlK~pp~dQ~L~Kd~qlldd~kTL~dcG 61 (119) T cd01788 27 LKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCG 61 (119) T ss_pred HHHHHHHHHCCCHHHHHHCCCCCCCCCCCCHHHCC T ss_conf 99999888539827751002776035667797748 No 29 >pfam08285 DPM3 Dolichol-phosphate mannosyltransferase subunit 3 (DPM3). This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex. Probab=46.41 E-value=6.8 Score=20.04 Aligned_cols=24 Identities=38% Similarity=0.472 Sum_probs=10.8 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 999999962999899999999823 Q gi|254780778|r 22 DCKNALLEAKGDSELAIDILRTKG 45 (296) Q Consensus 22 dCKkAL~e~~gD~e~Ai~~LRkkG 45 (296) ||.+|-.|=..+|+.|.+-||+|| T Consensus 65 dcpea~~eL~~eI~eAk~dL~~kG 88 (91) T pfam08285 65 DCPEAAKELQKEIKEAKADLRSKG 88 (91) T ss_pred CCHHHHHHHHHHHHHHHHHHHHCC T ss_conf 888999999999999999999838 No 30 >pfam07442 Ponericin Ponericin. This family contains a number of ponericin peptides (approximately 30 residues long) from the venom of the predatory ant Pachycondyla goeldii. These peptides exhibit antibacterial and insecticidal properties, and may adopt an amphipathic alpha-helical structure in polar environments such as cell membranes. Probab=45.01 E-value=20 Score=17.02 Aligned_cols=20 Identities=25% Similarity=0.315 Sum_probs=14.8 Q ss_pred HHHHHHHHHHHH--HHHHHHHH Q ss_conf 899999999823--88998651 Q gi|254780778|r 34 SELAIDILRTKG--AMAASKRE 53 (296) Q Consensus 34 ~e~Ai~~LRkkG--~~~A~Kk~ 53 (296) +.+|-+||+++| +.+|+-++ T Consensus 6 ~kkagewlkkkgpgi~kaalka 27 (29) T pfam07442 6 MKKAGEWLKKKGPGILKAALKA 27 (29) T ss_pred HHHHHHHHHHCCCHHHHHHHHH T ss_conf 9998899983085699999872 No 31 >pfam06972 DUF1296 Protein of unknown function (DUF1296). This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function. Probab=43.59 E-value=26 Score=16.15 Aligned_cols=37 Identities=16% Similarity=0.178 Sum_probs=31.7 Q ss_pred HHHHHHHHHHHCC-CHHHHHHHHHHCCCCHHHHHHHHH Q ss_conf 8999999987199-989999999962999899999999 Q gi|254780778|r 6 AVAVKELRGKTGA-GIMDCKNALLEAKGDSELAIDILR 42 (296) Q Consensus 6 ~~~iK~LR~~Tga-g~~dCKkAL~e~~gD~e~Ai~~LR 42 (296) -..|..+|+.||- +=.|...+|.+|+-|-+.|.+-|- T Consensus 6 rk~iQ~iKEiv~~hSd~eIYa~L~ecnMDPnEtvqkLL 43 (60) T pfam06972 6 RKTIQSIKEVVGKHSDADIYAMLKECNMDPNETVQKLL 43 (60) T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHH T ss_conf 99999999998489789999999996798679999988 No 32 >TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein; InterPro: IPR005675 This model represents largely uncharacterised proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distinct. ; GO: 0046912 transferase activity transferring acyl groups acyl groups converted into alkyl on transfer, 0019752 carboxylic acid metabolic process. Probab=40.50 E-value=29 Score=15.86 Aligned_cols=113 Identities=24% Similarity=0.347 Sum_probs=71.3 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCC----------------C-- Q ss_conf 1000014677899998543431024443102222100000135323460344344430354----------------3-- Q gi|254780778|r 117 DHSGITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSS----------------A-- 178 (296) Q Consensus 117 ~~~~~tv~d~i~~~ia~iGEnI~l~R~~~~~~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~----------------~-- 178 (296) +-+|.|+-..+.+.+..+.+.+.+..-. .....+|.-.||+....+ .-+|.++... + T Consensus 175 DTNGGTLP~~I~EI~~~Vk~~~gldg~s---dk~p~lGIHAHNDS~~AV--ANsL~AV~~GA~~V~GTING~GER~GNAN 249 (543) T TIGR00977 175 DTNGGTLPHEIEEITKKVKKSLGLDGQS---DKDPQLGIHAHNDSETAV--ANSLLAVEAGATQVQGTINGLGERCGNAN 249 (543) T ss_pred ECCCCCCCHHHHHHHHHHHHHHCCCCCC---CCCCCCCEEEECCCHHHH--HHHHHHHHHCCCEECCEECCCCCCCCCCC T ss_conf 0787998504789999999861778655---567666525555630789--99999997343154220425555657641 Q ss_pred -------------------CHHHHHH------------------------HHHHHHHHHHHHHHHHHCCHHHCCHHHHHH Q ss_conf -------------------2157899------------------------988565566765433204587836277776 Q gi|254780778|r 179 -------------------EDKELLS------------------------AIGEKIAVHVMLASPSVISVQMLDPSIVAN 215 (296) Q Consensus 179 -------------------~~~~~~~------------------------~~ak~iAmhiaA~~P~~l~~~~v~~~~i~~ 215 (296) ++-..+. +||+.=..|+.|..-..-+.+-|+|++|-+ T Consensus 250 LCs~IPNL~LKl~~dvI~~E~L~~L~~~a~lvaEi~n~~~~~~~PyVG~~AFAHKGGvHvSAv~r~p~TYEHI~P~LVGN 329 (543) T TIGR00977 250 LCSVIPNLQLKLGYDVIPKENLKKLTEVARLVAEIVNLPLDENMPYVGESAFAHKGGVHVSAVKRNPKTYEHIDPELVGN 329 (543) T ss_pred HHHHCCCHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCC T ss_conf 11110010210266456866678899899999998548853467823663220258657765505887423458643177 Q ss_pred HHHHHHHHHHCCCCHHHHHHHH Q ss_conf 6566677631257867899777 Q gi|254780778|r 216 KRAHYMTEALDSGKSGNIVEKI 237 (296) Q Consensus 216 Ek~i~~~~~~~~gKp~~i~ekI 237 (296) +|.|...+. +|+ .|+++|+ T Consensus 330 ~R~I~vSe~--aG~-SNvl~K~ 348 (543) T TIGR00977 330 KRKIVVSEL--AGK-SNVLEKL 348 (543) T ss_pred EEEEEEECC--CCC-HHHHHHH T ss_conf 137998235--573-1489999 No 33 >PRK11478 hypothetical protein; Provisional Probab=39.19 E-value=13 Score=18.20 Aligned_cols=10 Identities=10% Similarity=0.072 Sum_probs=4.5 Q ss_pred CHHHHHHHHH Q ss_conf 9899999999 Q gi|254780778|r 33 DSELAIDILR 42 (296) Q Consensus 33 D~e~Ai~~LR 42 (296) |+++++.|-+ T Consensus 16 Dl~~S~~FY~ 25 (129) T PRK11478 16 DYAVSKAFYC 25 (129) T ss_pred CHHHHHHHHH T ss_conf 8999999999 No 34 >TIGR02124 hypE hydrogenase expression/formation protein HypE; InterPro: IPR011854 This family contains HypE (or HupE), a protein required for expression of catalytically active hydrogenase in many systems. It appears to be an accessory protein involved in maturation rather than a regulatory protein involved in expression. HypE shows considerable homology to the thiamine-monophosphate kinase ThiL (IPR006283 from INTERPRO) and other enzymes.. Probab=38.68 E-value=20 Score=17.02 Aligned_cols=26 Identities=27% Similarity=0.427 Sum_probs=15.8 Q ss_pred CCCCCC-CHHHHHHHHHHHCCCCEEEE Q ss_conf 027774-39999987764207982899 Q gi|254780778|r 257 VVDPSK-TVSDFLKESEKSIGASIEVV 282 (296) Q Consensus 257 v~D~~~-tV~~~l~e~~k~~g~~i~I~ 282 (296) +.|+.. =++.+|+|++++.|..|+|. T Consensus 225 ~RD~TRGGLA~vLNE~A~~sg~~i~l~ 251 (345) T TIGR02124 225 MRDATRGGLAAVLNEIAESSGVGIELE 251 (345) T ss_pred EECCCCCCHHHHHHHHHHHHCCCEEEE T ss_conf 616785504789999999619927998 No 35 >PRK00157 rplL 50S ribosomal protein L7/L12; Reviewed Probab=36.58 E-value=13 Score=18.09 Aligned_cols=14 Identities=7% Similarity=0.057 Sum_probs=6.6 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99998543431024 Q gi|254780778|r 128 KQQIAITGECIKLR 141 (296) Q Consensus 128 ~~~ia~iGEnI~l~ 141 (296) .+++..|.|...+. T Consensus 21 ~eLv~~lee~fgv~ 34 (124) T PRK00157 21 SELVKALEEKFGVS 34 (124) T ss_pred HHHHHHHHHHHCCC T ss_conf 99999999996999 No 36 >TIGR03081 metmalonyl_epim methylmalonyl-CoA epimerase. Members of this protein family are the enzyme methylmalonyl-CoA epimerase (EC 5.1.99.1), also called methylmalonyl-CoA racemase. This enzyme converts (2R)-methylmalonyl-CoA to (2S)-methylmalonyl-CoA, which is then a substrate for methylmalonyl-CoA mutase (TIGR00642). It is known in bacteria, archaea, and as a mitochondrial protein in animals. It is closely related to lactoylglutathione lyase (TIGR00068), which is also called glyoxylase I, and is also a homodimer. Probab=36.16 E-value=16 Score=17.65 Aligned_cols=16 Identities=31% Similarity=0.275 Sum_probs=12.5 Q ss_pred CCHHHHHHHHHHH-HHH Q ss_conf 9989999999982-388 Q gi|254780778|r 32 GDSELAIDILRTK-GAM 47 (296) Q Consensus 32 gD~e~Ai~~LRkk-G~~ 47 (296) .|+|+|+.|.+.. |.. T Consensus 10 ~Dld~a~~fy~~~lG~~ 26 (128) T TIGR03081 10 PDLEEAAKLYEDVLGAH 26 (128) T ss_pred CCHHHHHHHHHHHHCCC T ss_conf 99999999999970995 No 37 >TIGR00855 L12 ribosomal protein L7/L12; InterPro: IPR000206 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This family of large subunit ribosomal proteins is called the L7/L12 family. L7/L12 is present in each 50S subunit in four copies organised as two dimers. The L8 protein complex consisting of two dimers of L7/L12 and L10 in Escherichia coli ribosomes is assembled on the conserved region of 23 S rRNA termed the GTPase-associated domain . The L7/L12 dimer probably interacts with EF-Tu. L7 and L12 only differ in a single post translational modification of the addition an acetyl group to the N terminus of L7.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome. Probab=34.42 E-value=14 Score=17.97 Aligned_cols=25 Identities=28% Similarity=0.448 Sum_probs=21.3 Q ss_pred HHHHHHHH-HHCCCHHHHHHHHHHCC Q ss_conf 99999998-71999899999999629 Q gi|254780778|r 7 VAVKELRG-KTGAGIMDCKNALLEAK 31 (296) Q Consensus 7 ~~iK~LR~-~Tgag~~dCKkAL~e~~ 31 (296) +-||-.|+ .||-|+++-|..-+.+. T Consensus 77 ~ViKvVR~~ITGLGLkEAK~LVe~aP 102 (131) T TIGR00855 77 AVIKVVREVITGLGLKEAKDLVEKAP 102 (131) T ss_pred EEEEEECHHHCCCHHHHHHHHHHHCC T ss_conf 21233200021423688999986068 No 38 >cd02636 R3H_sperm-antigen R3H domain of a group of metazoan proteins that is related to the sperm-associated antigen 7. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Probab=30.08 E-value=43 Score=14.75 Aligned_cols=48 Identities=21% Similarity=0.362 Sum_probs=32.1 Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCC--CCHHHHHHHHHHHCCCCEEEEEEEEEEECCCCCC Q ss_conf 401676664233302560002777--4399999877642079828998898762241247 Q gi|254780778|r 238 VNGKMQSFCKECVLLHQGFVVDPS--KTVSDFLKESEKSIGASIEVVGVSHFVVGKENDD 295 (296) Q Consensus 238 v~Gkl~Kf~~E~~LleQ~fv~D~~--~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE~~~d 295 (296) ++-++.+|+++.. +++.+-+. +--+.++.+.. ++-++.-|..||+++| T Consensus 4 ~E~~v~~F~~d~~---~~~~kf~pm~kv~RSivhdva-------EvaGl~a~SFGeee~d 53 (61) T cd02636 4 MEKEVSKFIKDSV---RTREKFQPMDKVERSIVHDVA-------EVAGLTSFSFGEDEVD 53 (61) T ss_pred HHHHHHHHHCCCC---CCCCCCCCHHHHHHHHHHHHH-------HHCCCEEEEECCCCCC T ss_conf 9999999970665---201337967899999999999-------8748256650676651 No 39 >pfam03474 DMA DMRTA motif. This region is found to the C-terminus of the pfam00751. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown. Probab=29.60 E-value=38 Score=15.12 Aligned_cols=17 Identities=35% Similarity=0.388 Sum_probs=13.4 Q ss_pred HHHHHCCCCHHHHHHHH Q ss_conf 99996299989999999 Q gi|254780778|r 25 NALLEAKGDSELAIDIL 41 (296) Q Consensus 25 kAL~e~~gD~e~Ai~~L 41 (296) --|+-|+||+=.|||.+ T Consensus 22 liL~~C~GDvvqAIE~~ 38 (39) T pfam03474 22 LVLKRCKGDVLQAIELA 38 (39) T ss_pred HHHHHCCCCHHHHHHHH T ss_conf 99998477299999987 No 40 >TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH; InterPro: IPR011909 Glutaredoxins , , , also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system . Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond . It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterised by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase .; GO: 0006118 electron transport, 0045454 cell redox homeostasis. Probab=27.28 E-value=37 Score=15.18 Aligned_cols=23 Identities=30% Similarity=0.222 Sum_probs=16.3 Q ss_pred HHHHHHCCCCH--------HHHHHHHHHHHH Q ss_conf 99999629998--------999999998238 Q gi|254780778|r 24 KNALLEAKGDS--------ELAIDILRTKGA 46 (296) Q Consensus 24 KkAL~e~~gD~--------e~Ai~~LRkkG~ 46 (296) ||||++.|=++ ..|++|||..|= T Consensus 16 Kk~L~~~~i~Fe~inid~~pea~d~vk~lGF 46 (72) T TIGR02194 16 KKALEEHGIAFEEINIDEQPEAVDYVKALGF 46 (72) T ss_pred HHHHHHCCCCEEEEECCCCHHHHHHHHHCCC T ss_conf 7667637996157635888437899987486 No 41 >COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism] Probab=26.17 E-value=48 Score=14.42 Aligned_cols=37 Identities=11% Similarity=0.293 Sum_probs=27.6 Q ss_pred HHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECCC Q ss_conf 3025600027774399999877642079828998898762241 Q gi|254780778|r 250 VLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGKE 292 (296) Q Consensus 250 ~LleQ~fv~D~~~tV~~~l~e~~k~~g~~i~I~~F~R~~lGE~ 292 (296) ..+--||+..-++...+|+..+ +++|++|.-+.+-+. T Consensus 121 i~vlTPY~~evn~~e~ef~~~~------Gfeiv~~~~Lgi~dn 157 (238) T COG3473 121 ISVLTPYIDEVNQREIEFLEAN------GFEIVDFKGLGITDN 157 (238) T ss_pred EEEECCCHHHHHHHHHHHHHHC------CEEEEEEECCCCCCC T ss_conf 8985253054415899999848------927997541577665 No 42 >PRK04101 fosfomycin resistance protein FosB; Provisional Probab=26.09 E-value=42 Score=14.79 Aligned_cols=12 Identities=17% Similarity=0.252 Sum_probs=8.5 Q ss_pred CCHHHHHHHHHH Q ss_conf 998999999998 Q gi|254780778|r 32 GDSELAIDILRT 43 (296) Q Consensus 32 gD~e~Ai~~LRk 43 (296) .|+++++++.++ T Consensus 13 ~DL~~s~~FY~~ 24 (139) T PRK04101 13 SNLEKSIHFYEK 24 (139) T ss_pred CCHHHHHHHHHH T ss_conf 798999999997 No 43 >PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed Probab=25.72 E-value=51 Score=14.25 Aligned_cols=18 Identities=22% Similarity=0.204 Sum_probs=10.4 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 578999885655667654 Q gi|254780778|r 181 KELLSAIGEKIAVHVMLA 198 (296) Q Consensus 181 ~~~~~~~ak~iAmhiaA~ 198 (296) ++.+.+=+..|-|++... T Consensus 227 N~KL~~Ra~rIv~~~t~~ 244 (296) T PRK12570 227 NEKLVARATRIVMQATGC 244 (296) T ss_pred HHHHHHHHHHHHHHHHCC T ss_conf 399999999999998792 No 44 >smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241. Probab=25.65 E-value=51 Score=14.25 Aligned_cols=26 Identities=42% Similarity=0.382 Sum_probs=19.0 Q ss_pred HHHHHHHHHC--CCCHHHHHHHHHH-HHH Q ss_conf 9999999962--9998999999998-238 Q gi|254780778|r 21 MDCKNALLEA--KGDSELAIDILRT-KGA 46 (296) Q Consensus 21 ~dCKkAL~e~--~gD~e~Ai~~LRk-kG~ 46 (296) ...|.|...+ .||+++|..|+|- |++ T Consensus 9 ~~Yk~Aa~~AK~~Gd~~kAr~~~R~~K~~ 37 (59) T smart00685 9 EQYKQAALQAKRAGDEEKARRHLRIAKQF 37 (59) T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 99999999999838899999999988219 No 45 >PHA01735 hypothetical protein Probab=25.46 E-value=23 Score=16.48 Aligned_cols=19 Identities=21% Similarity=0.225 Sum_probs=12.0 Q ss_pred HHCCCCHHHHHHHHHHHHH Q ss_conf 9629998999999998238 Q gi|254780778|r 28 LEAKGDSELAIDILRTKGA 46 (296) Q Consensus 28 ~e~~gD~e~Ai~~LRkkG~ 46 (296) +.+..|+..|.+||+.+|+ T Consensus 29 eAttaDL~aA~~~LKdN~I 47 (76) T PHA01735 29 EATTADLRAACDWLKSNDI 47 (76) T ss_pred CCCHHHHHHHHHHHHHCCC T ss_conf 8879999999999998796 No 46 >TIGR02448 TIGR02448 conserverd hypothetical protein; InterPro: IPR012661 This family consists of small hypothetical proteins, about 100 amino acids in length. The family includes five members (three in tandem) in Pseudomonas aeruginosa PAO1, and also in Pseudomonas putida (strain KT2440), four in Pseudomonas syringae DC3000, and single members in several other Proteobacteria. The function is unknown.. Probab=25.00 E-value=49 Score=14.34 Aligned_cols=12 Identities=8% Similarity=-0.141 Sum_probs=4.6 Q ss_pred HHHHHHHHHHHH Q ss_conf 014677899998 Q gi|254780778|r 121 ITVGDGIKQQIA 132 (296) Q Consensus 121 ~tv~d~i~~~ia 132 (296) |-|.+...+..+ T Consensus 54 K~v~~ARDDAAs 65 (107) T TIGR02448 54 KLVIAARDDAAS 65 (107) T ss_pred CEEHHHHHHHHH T ss_conf 010413543442 No 47 >TIGR00979 fumC_II fumarate hydratase, class II; InterPro: IPR005677 Fumarase C catalyzes the stereospecific interconversion of fumarate to L-malate as part of the metabolic citric acid or Kreb's cycle. The recent three-dimensional structure of fumarase C from Escherichia coli has identified a binding site for anions which is generated by side chains from three of the four subunits within the tetramer. These same side chains are found in the three most highly conserved regions within the class II fumarate hydratase family. Putative fumarases from several species (Mycobacterium tuberculosis, Streptomyces coelicolor, Pseudomonas aeruginosa) branch deeply, although within the same branch of a phylogenetic tree rooted by aspartate ammonia-lyase sequences.; GO: 0004333 fumarate hydratase activity, 0006106 fumarate metabolic process, 0045239 tricarboxylic acid cycle enzyme complex. Probab=24.81 E-value=29 Score=15.85 Aligned_cols=18 Identities=22% Similarity=0.350 Sum_probs=10.7 Q ss_pred HHHHHHHHHHHHCCHHHCCH Q ss_conf 55667654332045878362 Q gi|254780778|r 191 IAVHVMLASPSVISVQMLDP 210 (296) Q Consensus 191 iAmhiaA~~P~~l~~~~v~~ 210 (296) =||||||. ..|...-||. T Consensus 144 TAMHIAAv--~~~~~~LIP~ 161 (459) T TIGR00979 144 TAMHIAAV--LAIKEQLIPA 161 (459) T ss_pred CHHHHHHH--HHHHHHHHHH T ss_conf 78999999--9998753167 No 48 >TIGR02928 TIGR02928 orc1/cdc6 family replication initiation protein; InterPro: IPR014277 This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. The proteins in this entry are found exclusively in the archaea. Several members may be found in a genome and interact with each other.. Probab=23.72 E-value=55 Score=14.01 Aligned_cols=55 Identities=9% Similarity=0.133 Sum_probs=29.0 Q ss_pred CC-EEEEEEEEECCHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 85-3699998403101022679999998887531033565778640041000014677899998543 Q gi|254780778|r 70 KK-ASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQQIAITG 135 (296) Q Consensus 70 ~~-a~liEincETDFVAkn~~F~~l~~~i~~~~l~~~~~~~~~~~~~~~~~~~tv~d~i~~~ia~iG 135 (296) .. .+.+.|||+.+= ..-..|..|++++. ..+.. ..++..|.+-++....+...+. T Consensus 76 ~~D~~~~~~NC~~~~-T~y~~~~~L~~~ln----~~~~~------~~vP~tG~s~~~~~~~l~~~l~ 131 (383) T TIGR02928 76 VRDVSTVYINCQILD-TSYQVLVELANQLN----RRGSG------EEVPTTGLSTSEVFRELYKELN 131 (383) T ss_pred CCCEEEEEECCCCCC-CHHHHHHHHHHHHC----CCCCC------CCCCCCCCCHHHHHHHHHHHHH T ss_conf 971589997785468-46999999999851----57788------8898877878999999999983 No 49 >TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family; InterPro: IPR003282 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior. There have been four secretion systems described in animal enteropathogens such as Salmonella and Yersinia, with further sequence similarities in plant pathogens like Ralstonia and Erwinia. The type III secretion system is of great interest as it is used to transport virulence factors from the pathogen directly into the host cell and is only triggered when the bacterium comes into close contact with the host. The protein subunits of the system are very similar to those of bacterial flagellar biosynthesis . However, while the latter forms a ring structure to allow secretion of flagellin and is an integral part of the flagellum itself, type III subunits in the outer membrane translocate secreted proteins through a channel-like structure. One of the outer membrane protein subunit families, termed "K" here for nomenclature purposes, aids in the structural assembly of the invasion complex . It is also described as a lipoprotein. Members of this family include the Salmonella PrgK and SsaJ genes, MxiJ from Shigella, YscJ from Yersinia, and from the plant enteropathogens NolT (Rhizobium) and HrcJ Erwinia). The flagellar M-ring protein FliF also shares a low level of similarity, presumably due to evolution of the type III secretion system from the flagellar biosynthetic pathway.; GO: 0009306 protein secretion. Probab=23.03 E-value=29 Score=15.85 Aligned_cols=15 Identities=13% Similarity=0.224 Sum_probs=9.6 Q ss_pred HHHHHHHHHHCCCCC Q ss_conf 034434443035432 Q gi|254780778|r 165 LGSIGVLVALQSSAE 179 (296) Q Consensus 165 ~GkigvlV~l~~~~~ 179 (296) .-+++|++-+....+ T Consensus 152 P~sAsVfikY~~~~~ 166 (203) T TIGR02544 152 PSSASVFIKYRPGLN 166 (203) T ss_pred CCEEEEEEEECCCCC T ss_conf 543889998668978 No 50 >pfam03738 GSP_synth Glutathionylspermidine synthase. This region contains the Glutathionylspermidine synthase enzymatic activity EC:6.3.1.8. This is the C-terminal region in bienzymes. Glutathionylspermidine (GSP) synthetases of Trypanosomatidae and Escherichia coli couple hydrolysis of ATP (to ADP and Pi) with formation of an amide bond between spermidine and the glycine carboxylate of glutathione (gamma-Glu-Cys-Gly). In the pathogenic trypanosomatids, this reaction is the penultimate step in the biosynthesis of the antioxidant metabolite, trypanothione (N1,N8-bis-(glutathionyl)spermidine), and is a target for drug design. Probab=22.93 E-value=57 Score=13.91 Aligned_cols=77 Identities=19% Similarity=0.158 Sum_probs=48.3 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHEECCCCCEEEE Q ss_conf 3558999999987199989999999962999899999999823889986510336-------422000044078853699 Q gi|254780778|r 3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKV-------SEGLIGIARDGYKKASIV 75 (296) Q Consensus 3 ~it~~~iK~LR~~Tgag~~dCKkAL~e~~gD~e~Ai~~LRkkG~~~A~Kk~~R~a-------~eG~v~~~~~~~~~a~li 75 (296) .+|.+.|.+|++.|..=-.-|.+|....=.+ | +.|+.-|+-......=|.. -=|+.=++.++.+-.=|+ T Consensus 31 ~ft~~eie~le~at~elh~m~l~a~~~v~~~-d---~~l~~lgIP~~~~~~Ir~SW~~~~~slyGRfDfa~dg~g~~KlL 106 (372) T pfam03738 31 QFSLEEIEALEDATNELHQMCLEAVDYVIES-D---ELLARLGIPEELWPLIRESWERRHPSLYGRFDFAYDGDGPIKLL 106 (372) T ss_pred ECCHHHHHHHHHHHHHHHHHHHHHHHHHHCC-H---HHHHHCCCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCEEEE T ss_conf 7589999999999999999999999999709-6---87987498999999999986067977577888997599976899 Q ss_pred EEEEECCH Q ss_conf 99840310 Q gi|254780778|r 76 EVNVETDS 83 (296) Q Consensus 76 EincETDF 83 (296) |.||+|=- T Consensus 107 E~NaDTPT 114 (372) T pfam03738 107 EYNADTPT 114 (372) T ss_pred EECCCCCH T ss_conf 95279846 No 51 >KOG1715 consensus Probab=22.26 E-value=59 Score=13.82 Aligned_cols=21 Identities=14% Similarity=0.332 Sum_probs=10.3 Q ss_pred HHCCHHHHHHHHHHHHHHHHC Q ss_conf 102267999999888753103 Q gi|254780778|r 84 LAKNTDFQSLVSNIAGIALST 104 (296) Q Consensus 84 VAkn~~F~~l~~~i~~~~l~~ 104 (296) +..++.-..++++|+...|.. T Consensus 54 ~~~~~KI~~iv~eIssLtLlE 74 (187) T KOG1715 54 VPPPPKISKIVDEISSLTLLE 74 (187) T ss_pred CCCCHHHHHHHHHHHHCCHHH T ss_conf 688777999999998557999 No 52 >TIGR02749 prenyl_cyano solanesyl diphosphate synthase; InterPro: IPR014120 This entry contains solanesyl diphosphate synthases from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterised by heterologous expression as a solanesyl diphosphate synthase.. Probab=21.71 E-value=60 Score=13.75 Aligned_cols=65 Identities=22% Similarity=0.184 Sum_probs=35.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHH-HHCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCC---------HHHHHHHHHHHHH Q ss_conf 467789999854343102444-310222210000013532346034434443035432---------1578999885655 Q gi|254780778|r 123 VGDGIKQQIAITGECIKLRRS-ALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAE---------DKELLSAIGEKIA 192 (296) Q Consensus 123 v~d~i~~~ia~iGEnI~l~R~-~~~~~~~~~v~~Y~H~~~~~~~GkigvlV~l~~~~~---------~~~~~~~~ak~iA 192 (296) |=..+..+|.=++|= .|++. ..++ ++-.+-.|+--|+ -|.++||+-++... --+.+=++||++. T Consensus 137 VVKLls~VI~DFAEG-EI~Qg~~~FD-~d~~le~YleKSy----YKTASL~AaSskaAAvLS~~~~~v~n~LY~yGkhLG 210 (325) T TIGR02749 137 VVKLLSKVITDFAEG-EIKQGLNRFD-SDLSLEDYLEKSY----YKTASLVAASSKAAAVLSDVDSKVANDLYEYGKHLG 210 (325) T ss_pred EEHHHHHHHHHHHHH-HHHHHHHHCC-CCCCHHHHHHHHH----HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHC T ss_conf 001454787564117-8886555257-8878887665644----678999999989988851143899999877656616 Q ss_pred H Q ss_conf 6 Q gi|254780778|r 193 V 193 (296) Q Consensus 193 m 193 (296) + T Consensus 211 L 211 (325) T TIGR02749 211 L 211 (325) T ss_pred C T ss_conf 3 No 53 >pfam08549 SWI-SNF_Ssr4 Fungal domain of unknown function (DUF1750). This is a fungal domain of unknown function. Probab=21.06 E-value=62 Score=13.66 Aligned_cols=108 Identities=18% Similarity=0.204 Sum_probs=55.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCH--------HHC--CHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 5789998856556676543320458--------783--627777665666776312578678997774016766642333 Q gi|254780778|r 181 KELLSAIGEKIAVHVMLASPSVISV--------QML--DPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECV 250 (296) Q Consensus 181 ~~~~~~~ak~iAmhiaA~~P~~l~~--------~~v--~~~~i~~Ek~i~~~~~~~~gKp~~i~ekIv~Gkl~Kf~~E~~ 250 (296) .+...+|++.++-||+.++-.-=.- +.+ ...+.+.|++.-..-...+..-.++|- +|||+.-.-+|-. T Consensus 359 p~kAeeF~~RV~~kva~~~aEIEkmKa~Hakrm~Kfkr~s~l~~AE~~LR~a~~dp~~~G~E~WR--lEGr~~~~~ee~~ 436 (669) T pfam08549 359 PEVADEFADRVAKKVADMTAEIEKLKKRHARRMEKFNRTSALKDAEQRLRDAAADPADTGSEIWR--LEGRLEIDTEDDS 436 (669) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCHHHCCCCCEE--ECCCCCCCCCCCC T ss_conf 77899999999998888899999999999999998630027888999988740585433750024--2352257655677 Q ss_pred HCCCCCCC-CCCCCHHHHHHHHHHHCCCCE-EEEEEEEEEECC Q ss_conf 02560002-777439999987764207982-899889876224 Q gi|254780778|r 251 LLHQGFVV-DPSKTVSDFLKESEKSIGASI-EVVGVSHFVVGK 291 (296) Q Consensus 251 LleQ~fv~-D~~~tV~~~l~e~~k~~g~~i-~I~~F~R~~lGE 291 (296) ..+.++- ..+.+|.++++++.|.+|..| -+....|.+-|- T Consensus 437 -~~~~~~~~~~k~kVddIv~~vE~~~gk~iv~~~~V~cVqkGG 478 (669) T pfam08549 437 -SRQGPREHKAKYKVDDIVREVEKSWGKPIVPEPDVSCVEKGG 478 (669) T ss_pred -CCCCCCCCCCCCCHHHHHHHHHHHHCCCEEECCCEEEECCCC T ss_conf -765545665546699999999998688324215504862576 No 54 >PRK10291 glyoxalase I; Provisional Probab=20.81 E-value=44 Score=14.69 Aligned_cols=12 Identities=33% Similarity=0.551 Sum_probs=6.7 Q ss_pred CCHHHHHHHHHH Q ss_conf 998999999998 Q gi|254780778|r 32 GDSELAIDILRT 43 (296) Q Consensus 32 gD~e~Ai~~LRk 43 (296) .|+++++.|-++ T Consensus 5 ~Dle~Sl~FY~~ 16 (129) T PRK10291 5 GDLQRSIDFYTN 16 (129) T ss_pred CCHHHHHHHHHH T ss_conf 588998999986 No 55 >KOG1161 consensus Probab=20.03 E-value=65 Score=13.52 Aligned_cols=55 Identities=20% Similarity=0.318 Sum_probs=43.8 Q ss_pred HHHHHHHHHHCC---------CHHHHHHHHHHCCCCHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH Q ss_conf 999999987199---------98999999996299989999999982--388998651033642200 Q gi|254780778|r 7 VAVKELRGKTGA---------GIMDCKNALLEAKGDSELAIDILRTK--GAMAASKREGRKVSEGLI 62 (296) Q Consensus 7 ~~iK~LR~~Tga---------g~~dCKkAL~e~~gD~e~Ai~~LRkk--G~~~A~Kk~~R~a~eG~v 62 (296) .-+++||+++.+ .|.+-+++|.++.+|+-.=..+-|=+ |.+|.-||-|.-+. +++ T Consensus 73 ~Rl~~L~e~~~~~~~~~~~~~~~~~lr~~l~~~~~em~~L~~fs~LN~tGf~KILKK~DKrtg-~~l 138 (310) T KOG1161 73 IRLKELEEKIDALSLEPPSAEEMKELREELVDFHGEMVLLENFSRLNYTGFAKILKKHDKRTG-YRL 138 (310) T ss_pred HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CCC T ss_conf 999999987612445885466899999999999999999999998868999999998722266-433 Done!