RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|255764461|ref|YP_003064629.2| methionyl-tRNA synthetase [Candidatus Liberibacter asiaticus str. psy62] (511 letters) >gnl|CDD|183364 PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed. Length = 511 Score = 725 bits (1875), Expect = 0.0 Identities = 277/512 (54%), Positives = 367/512 (71%), Gaps = 10/512 (1%) Query: 5 EKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQN 64 +K YI+T I YPN +PHIGHAY + ADVLARF RL G DV F TGTDEHGQKI + A+ Sbjct: 1 KKFYITTPIYYPNGKPHIGHAYTTLAADVLARFKRLRGYDVFFLTGTDEHGQKIQRKAEE 60 Query: 65 AGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKGCY 124 AG++ + D+NS F+ + + L+ISYDDFIRTT+ RH + + +++++ GDIY G Y Sbjct: 61 AGISPQELADRNSAAFKRLWEALNISYDDFIRTTDPRHKEAVQEIFQRLLANGDIYLGKY 120 Query: 125 SGWYSLRDEAYYNDDEVYKGADGQYYNAQHN-PVQWMEEEGYFFRLSAYQDKLLSYYESH 183 GWY +R E +Y + E+ + Y PV+W+EEE YFFRLS YQDKLL YE++ Sbjct: 121 EGWYCVRCEEFYTESEL---IEDGYRCPPTGAPVEWVEEESYFFRLSKYQDKLLELYEAN 177 Query: 184 PEFILPIERRNEVISFVKSGLKDLSLSRKTFDWGIKIPDDPQYIMYVWIDALTNYLTTTG 243 P+FI P RRNEVISFVKSGLKDLS+SR FDWGI +P DP++++YVW DALTNYLT G Sbjct: 178 PDFIQPASRRNEVISFVKSGLKDLSISRTNFDWGIPVPGDPKHVIYVWFDALTNYLTALG 237 Query: 244 YLDNP---DGSKAKFWPADLHVIGKDILRFHAIYWPAFLLSANLPLPKKVFSHGFILHKG 300 Y D+ K+WPAD+H+IGKDILRFHA+YWPAFL++A LPLPK+VF+HGF+ G Sbjct: 238 YPDDEELLAELFNKYWPADVHLIGKDILRFHAVYWPAFLMAAGLPLPKRVFAHGFLTLDG 297 Query: 301 EKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIGN 360 EK+SKSLGNVIDP ++++E GVDA+RYFL+REI G+DG + ++ R+NADLAN +GN Sbjct: 298 EKMSKSLGNVIDPFDLVDEYGVDAVRYFLLREIPFGQDGDFSREAFINRINADLANDLGN 357 Query: 361 LVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVISL 420 L R++SMI K++DG +P PGA TE+DE++L + +L+ +R M N +AL +++L Sbjct: 358 LAQRTLSMIAKNFDGKVPEPGALTEADEALLEAAAALLERVRAAMDNLAFDKALEAILAL 417 Query: 421 VSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDIL-FV 479 V ++Y D Q PW L KT+P+R +TVLY +EV+R +A+LLQ +P+LA KI D L Sbjct: 418 VRAANKYIDEQAPWSLAKTDPERLATVLYTLLEVLRGIAVLLQPVMPELAAKILDQLGVE 477 Query: 480 ADENRCFQSL-DQRLKPGFMLHKTFDPIFPRF 510 DENR F +L RL PG L K +PIFPR Sbjct: 478 EDENRDFAALSWGRLAPGTTLPKP-EPIFPRL 508 >gnl|CDD|183389 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed. Length = 648 Score = 681 bits (1759), Expect = 0.0 Identities = 246/513 (47%), Positives = 351/513 (68%), Gaps = 9/513 (1%) Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKA 61 ++ YI+T I YPN +PHIGHAY I AD LAR+ RL G DV F TGTDEHGQKI +A Sbjct: 1 MMKKTFYITTPIYYPNGKPHIGHAYTTIAADALARYKRLQGYDVFFLTGTDEHGQKIQQA 60 Query: 62 AQNAGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYK 121 A+ AG T + +VD+ S F+++ LDISYD FIRTT++RH + +++K+ ++GDIYK Sbjct: 61 AEKAGKTPQEYVDEISAGFKELWKKLDISYDKFIRTTDERHKKVVQKIFEKLYEQGDIYK 120 Query: 122 GCYSGWYSLRDEAYYNDDEVYKGADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLLSYYE 181 G Y GWY + E ++ + ++ DG V+ ++EE YFFR+S YQD+LL YYE Sbjct: 121 GEYEGWYCVSCETFFTESQL---VDGGKCPDCGREVELVKEESYFFRMSKYQDRLLEYYE 177 Query: 182 SHPEFILPIERRNEVI-SFVKSGLKDLSLSRKTFDWGIKIPDDPQYIMYVWIDALTNYLT 240 +P+FI P R+NE+I +F+K GL+DLS+SR +FDWGI +P DP++++YVWIDAL NY+T Sbjct: 178 ENPDFIQPESRKNEMINNFIKPGLEDLSISRTSFDWGIPVPFDPKHVVYVWIDALLNYIT 237 Query: 241 TTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIYWPAFLLSANLPLPKKVFSHGFILHKG 300 GY + D KFWPAD+H++GKDILRFHAIYWP L++ LPLPKKVF+HG+ L K Sbjct: 238 ALGYGSDDDELFKKFWPADVHLVGKDILRFHAIYWPIMLMALGLPLPKKVFAHGWWLMKD 297 Query: 301 EKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIGN 360 K+SKS GNV+DP E+++ G+DALRY+L+RE+ G DG + + L +R+N+DLAN +GN Sbjct: 298 GKMSKSKGNVVDPEELVDRYGLDALRYYLLREVPFGSDGDFSPEALVERINSDLANDLGN 357 Query: 361 LVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVISL 420 L++R+V+MI K +DG IP PG TE DE ++++ L+ E M+ RAL +V L Sbjct: 358 LLNRTVAMINKYFDGEIPAPGNVTEFDEELIALAEETLKNYEELMEELQFSRALEEVWKL 417 Query: 421 VSEVDRYFDAQKPWELKK--TNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDILF 478 +S ++Y D PW L K +R +TV+Y E +R++A+LL F+P+ + KIF+ L Sbjct: 418 ISRANKYIDETAPWVLAKDEGKKERLATVMYHLAESLRKVAVLLSPFMPETSKKIFEQLG 477 Query: 479 VADENRCFQSLDQ--RLKPGFMLHKTFDPIFPR 509 + +E ++SL + L G + K +P+FPR Sbjct: 478 LEEELTSWESLLEWGGLPAGTKVAKG-EPLFPR 509 >gnl|CDD|161858 TIGR00398, metG, methionyl-tRNA synthetase. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model appears to recognize the methionyl-tRNA synthetase of every species, including eukaryotic cytosolic and mitochondrial forms. The UPGMA difference tree calculated after search and alignment according to this model shows an unusual deep split between two families of MetG. One family contains forms from the Archaea, yeast cytosol, spirochetes, and E. coli, among others. The other family includes forms from yeast mitochondrion, Synechocystis sp., Bacillus subtilis, the Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori. The E. coli enzyme is homodimeric, although monomeric forms can be prepared that are fully active. Activity of this enzyme in bacteria includes aminoacylation of fMet-tRNA with Met; subsequent formylation of the Met to fMet is catalyzed by a separate enzyme. Note that the protein from Aquifex aeolicus is split into an alpha (large) and beta (small) subunit; this model does not include the C-terminal region corresponding to the beta chain. Length = 530 Score = 488 bits (1258), Expect = e-138 Identities = 198/533 (37%), Positives = 300/533 (56%), Gaps = 37/533 (6%) Query: 8 YISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGV 67 I+TA+ Y N +PH+GHAY I+ADV AR+ RL G +VLF GTDEHG KI A+ G+ Sbjct: 2 LITTALPYANGKPHLGHAYTTILADVYARYKRLRGYEVLFVCGTDEHGTKIELKAEQEGL 61 Query: 68 TTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKGCYSGW 127 T K VD+ F+D L+IS+D FIRTT++ H + + +++K+ + G IY+ Sbjct: 62 TPKELVDKYHEEFKDDWKWLNISFDRFIRTTDEEHKEIVQKIFQKLKENGYIYEKEIKQL 121 Query: 128 YSLRDEAYYNDDEV-----YKGADGQYYNAQHN------PVQ--------------WMEE 162 Y E + D V G++ + P + + Sbjct: 122 YCPECEMFLPDRYVEGTCPKCGSEDARGDHCEVCGRHLEPTELINPRCKICGAKPELRDS 181 Query: 163 EGYFFRLSAYQDKLLSYYESHPEFILPIERRNEVI-SFVKSGLKDLSLSRKTFDWGIKIP 221 E YFFRLSA++ +L + +PE P +++K GLKDL+++R WGI +P Sbjct: 182 EHYFFRLSAFEKELEEWIRKNPESGSPASNVKNKAQNWLKGGLKDLAITRDLVYWGIPVP 241 Query: 222 DDPQYIMYVWIDALTNYLTTTGYLDNPDGSKAKFWPAD-----LHVIGKDILRFHAIYWP 276 +DP ++YVW DAL Y+++ G L K+W D +H IGKDI+RFH IYWP Sbjct: 242 NDPNKVVYVWFDALIGYISSLGILSGDTEDWKKWWNNDEDAELIHFIGKDIVRFHTIYWP 301 Query: 277 AFLLSANLPLPKKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACG 336 A L+ LPLP +VFSHG++ +G K+SKSLGNV+DP +++ G D LRY+L++E G Sbjct: 302 AMLMGLGLPLPTQVFSHGYLTVEGGKMSKSLGNVVDPSDLLARFGADILRYYLLKERPLG 361 Query: 337 KDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSR 396 KDG + + +RVNADLAN +GNL++R++ I K ++G++P+ E D+ +L + + Sbjct: 362 KDGDFSWEDFVERVNADLANKLGNLLNRTLGFIKKYFNGVLPSEDITDEEDKKLLKLINE 421 Query: 397 VLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVIR 456 L++I E +++ +AL +++ L ++Y D KPWEL K +P R +L V +IR Sbjct: 422 ALEQIDEAIESFEFRKALREIMKLADRGNKYIDENKPWELFKQSP-RLKELLAVCSMLIR 480 Query: 457 QLAILLQAFVPKLANKIFDILFVADENRCFQSLDQRLKPGFMLHKTFDPIFPR 509 L+ILL +PKL+ KI L E L + G L+K +P+F + Sbjct: 481 VLSILLYPIMPKLSEKILKFLNFELEWDFKLKLLE----GHKLNK-AEPLFSK 528 >gnl|CDD|117876 pfam09334, tRNA-synt_1g, tRNA synthetases class I (M). This family includes methionyl tRNA synthetases. Length = 388 Score = 460 bits (1187), Expect = e-130 Identities = 182/390 (46%), Positives = 243/390 (62%), Gaps = 34/390 (8%) Query: 8 YISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGV 67 I+TA+ Y N PHIGH Y I ADV AR+ RL G DVLF TGTDEHG KI AA+ GV Sbjct: 2 LITTALPYVNGPPHIGHLYTTIPADVYARYLRLRGYDVLFVTGTDEHGTKIELAAEKEGV 61 Query: 68 TTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKGCYSGW 127 T + VD+ F+++ +IS+DDFIRTT +RH + + + K+ +KGDIY+G Y GW Sbjct: 62 TPQELVDRYHEEFKELFKKFNISFDDFIRTTSERHKELVQEFFLKLYEKGDIYEGEYEGW 121 Query: 128 YSLRDEAYYNDDEV--------YKGADG-QYYNAQH--------NPV-------QWM-EE 162 Y + DE + D V + A G Q NP + EE Sbjct: 122 YCVSDERFLPDRYVEGTCPYCGSEDARGDQCEVCGRPLEPTELINPRSAISGSTPELKEE 181 Query: 163 EGYFFRLSAYQDKLLSYYESHPEFILPIERRNEVI-SFVKSGLKDLSLSRKTFDWGIKIP 221 E YFFRLS +QDKLL + + +P+ P NEV+ S++K GLKDLS++R DWGI +P Sbjct: 182 EHYFFRLSKFQDKLLEWIKENPD--EPPSNVNEVVLSWLKEGLKDLSITR-DLDWGIPVP 238 Query: 222 DDPQYIMYVWIDALTNYLTTTGYLDNPDGSKAKFWPAD-----LHVIGKDILRFHAIYWP 276 DP ++YVW DAL Y++ T YL KFW D +H IGKDI+RFHAIYWP Sbjct: 239 GDPGKVIYVWFDALIGYISATKYLSGNPEKWKKFWADDPDTEIVHFIGKDIIRFHAIYWP 298 Query: 277 AFLLSANLPLPKKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACG 336 A L++A LPLP +VF+HG++ +G K+SKS GNV+DP E+++ GVDALRY+L RE G Sbjct: 299 AMLMAAGLPLPTQVFAHGWLTVEGGKMSKSRGNVVDPDELLDRYGVDALRYYLAREAPEG 358 Query: 337 KDGFYDKDGLKKRVNADLANGIGNLVSRSV 366 KDG + + +RVN++LAN +GNLV+R++ Sbjct: 359 KDGDFSWEDFVERVNSELANDLGNLVNRTL 388 >gnl|CDD|183390 PRK12268, PRK12268, methionyl-tRNA synthetase; Reviewed. Length = 556 Score = 433 bits (1115), Expect = e-122 Identities = 172/545 (31%), Positives = 275/545 (50%), Gaps = 46/545 (8%) Query: 4 REKLYISTAIAYPNAQPHIGHAYE-MIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAA 62 ++ I++A Y N H+GH + ADV AR+ RL G +VLF +G+DEHG I AA Sbjct: 2 MMRILITSAWPYANGPLHLGHLAGSGLPADVFARYQRLKGNEVLFVSGSDEHGTPIELAA 61 Query: 63 QNAGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKG 122 + GVT + D+ ++ L ISYD F RTT HH+ + + K+ + G IYK Sbjct: 62 KKEGVTPQELADKYHEEHKEDFKKLGISYDLFTRTTSPNHHEVVQEFFLKLYENGYIYKK 121 Query: 123 CYSGWYSLRDEAYYNDDEV-----YKGADGQYYN------AQHNPVQ------------- 158 Y D + D V Y G +G + A +P Sbjct: 122 TIEQAYCPSDGRFLPDRYVEGTCPYCGYEGARGDQCDNCGALLDPTDLINPRSKISGSTP 181 Query: 159 -WMEEEGYFFRLSAYQDKLLSYYESHPEFILPIERRNEVISFVKSGLKDLSLSRKTFDWG 217 + E E +F L A+ ++L ++ ES P N ++++K GLK +++R DWG Sbjct: 182 EFRETEHFFLDLPAFAERLRAWIES--SGDWPPNVLNFTLNWLKEGLKPRAITR-DLDWG 238 Query: 218 IKIP--DDPQYIMYVWIDALTNYLTTTGYL----DNPDGSKAKFWP----ADLHVIGKDI 267 I +P + YVW DA+ Y++ + +P+ K +FW + IGKD Sbjct: 239 IPVPWPGFEGKVFYVWFDAVIGYISASKEWAERTGDPEAWK-EFWLDPETKSYYFIGKDN 297 Query: 268 LRFHAIYWPAFLLSAN--LPLPKKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDAL 325 + FH+I WPA LL + L LP ++ S ++ +G K SKS G I + +E D L Sbjct: 298 IPFHSIIWPAMLLGSGEPLKLPDEIVSSEYLTLEGGKFSKSRGWGIWVDDALERYPPDYL 357 Query: 326 RYFLVREIACGKDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTE 385 RY+L D + + +RVN++LA+ GNLV+R +S I K + G I PG + Sbjct: 358 RYYLAANAPENSDTDFTWEEFVRRVNSELADKYGNLVNRVLSFIEKYFGG-IVPPGELGD 416 Query: 386 SDESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTNPDRAS 445 D +++ + +E+ E ++ +AL +++ L E ++Y D + PW+L KT+ +RA+ Sbjct: 417 EDRELIAEAEALFKEVGELLEAGEFKKALEEIMELAREANKYLDEKAPWKLAKTDRERAA 476 Query: 446 TVLYVTVEVIRQLAILLQAFVPKLANKIFDIL-FVADENRCFQSLDQRLKPGFMLHKTFD 504 TVLY + ++R LA+LL F+P A KI+++L E ++SL L PG ++K + Sbjct: 477 TVLYTALNLVRLLAVLLYPFLPFSAQKIWEMLGGENIEKLTWESLK-PLLPGHPINK-PE 534 Query: 505 PIFPR 509 P+F + Sbjct: 535 PLFKK 539 >gnl|CDD|177869 PLN02224, PLN02224, methionine-tRNA ligase. Length = 616 Score = 359 bits (921), Expect = 1e-99 Identities = 195/517 (37%), Positives = 291/517 (56%), Gaps = 14/517 (2%) Query: 3 EREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAA 62 E + ++T + Y NA PH+G AY I AD +ARF RL G V+F TGTDEHG+KIA +A Sbjct: 67 EADTFVLTTPLYYVNAPPHMGSAYTTIAADSIARFQRLLGKKVIFITGTDEHGEKIATSA 126 Query: 63 QNAGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYKG 122 G D S+++R + LDI+YD FIRTT+ +H + + ++ GDIY+ Sbjct: 127 AANGRNPPEHCDIISQSYRTLWKDLDIAYDKFIRTTDPKHEAIVKEFYARVFANGDIYRA 186 Query: 123 CYSGWYSLRDEAYYNDDEVYKGADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLLSYYES 182 Y G Y + E Y ++ E+ + P +E+ YFF LS YQ L Sbjct: 187 DYEGLYCVNCEEYKDEKELL---ENNCCPVHQMPCVARKEDNYFFALSKYQKPLEDILAQ 243 Query: 183 HPEFILPIERRNEVISFVKSGLKDLSLSRKTFDWGIKIPDDPQYIMYVWIDALTNY---L 239 +P F+ P R NEV S++KSGL+D S+SR DWGI +PDD + +YVW DAL Y L Sbjct: 244 NPRFVQPSYRLNEVQSWIKSGLRDFSISRALVDWGIPVPDDDKQTIYVWFDALLGYISAL 303 Query: 240 TTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIYWPAFLLSANLPLPKKVFSHGFILHK 299 T N + + + WPA LH+IGKDILRFHA+YWPA L+SA L LPK VF HGF+ Sbjct: 304 TEDNKQQNLETAVSFGWPASLHLIGKDILRFHAVYWPAMLMSAGLELPKMVFGHGFLTKD 363 Query: 300 GEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIG 359 G K+ KSLGN ++P E++++ G DA+RYF +RE+ G DG Y +D K VNA LAN IG Sbjct: 364 GMKMGKSLGNTLEPFELVQKFGPDAVRYFFLREVEFGNDGDYSEDRFIKIVNAHLANTIG 423 Query: 360 NLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVIS 419 NL++R++ ++ K+ + + + +++++ + N +N + A V+ Sbjct: 424 NLLNRTLGLLKKNCESTLVEDSTVAAEGVPLKDTVEKLVEKAQTNYENLSLSSACEAVLE 483 Query: 420 LVSEVDRYFDAQKPWELKK---TNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDI 476 + + + Y D + PW L K + + A+ L + +EV+R +A+ L P L+ +I+ Sbjct: 484 IGNAGNTYMDQRAPWFLFKQGGVSAEEAAKDLVIILEVMRVIAVALSPIAPCLSLRIYSQ 543 Query: 477 L-FVADENRCFQSLDQR---LKPGFMLHKTFDPIFPR 509 L + D+ D + LK G ++ + P+F R Sbjct: 544 LGYSEDQFNSITWSDTKWGGLKGGQVMEQA-SPVFAR 579 >gnl|CDD|178889 PRK00133, metG, methionyl-tRNA synthetase; Reviewed. Length = 673 Score = 236 bits (605), Expect = 1e-62 Identities = 100/331 (30%), Positives = 164/331 (49%), Gaps = 26/331 (7%) Query: 161 EEEGYFFRLSAYQDKLLSYYESHPEFILPIERRNEVISFVKSGLKDLSLSRKTFDW-GIK 219 E E +FF+L +++ L + E L N++ +++ GL+D +SR + G + Sbjct: 183 ESEHFFFKLPRFEEFLKEWITRSGE--LQPNVANKMKEWLEEGLQDWDISR-DAPYFGFE 239 Query: 220 IPDDPQYIMYVWIDALTNYLTTT-GYLDNPDGSK-AKFWPAD-----LHVIGKDILRFHA 272 IP P + YVW+DA Y+++T D G ++W D H IGKDI+ FH Sbjct: 240 IPGAPGKVFYVWLDAPIGYISSTKNLCDKRGGLDWDEYWKKDSDTELYHFIGKDIIYFHT 299 Query: 273 IYWPAFLLSANLPLPKKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVRE 332 ++WPA L A LP VF+HGF+ +G K+SKS G I ++ + D LRY+L Sbjct: 300 LFWPAMLEGAGYRLPTNVFAHGFLTVEGAKMSKSRGTFIWARTYLDHLDPDYLRYYLA-- 357 Query: 333 IACGKDGFYDKD------GLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTES 386 K D ++RVN++L + N SR+ I K +DG +P + Sbjct: 358 ---AKLPETIDDLDFNWEDFQQRVNSELVGKVVNFASRTAGFINKRFDGKLPD----ALA 410 Query: 387 DESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTNPDRAST 446 D +L ++I E + + +AL ++++L ++Y D +PW+L K + +R Sbjct: 411 DPELLEEFEAAAEKIAEAYEAREFRKALREIMALADFANKYVDDNEPWKLAKQDGERLQA 470 Query: 447 VLYVTVEVIRQLAILLQAFVPKLANKIFDIL 477 V V + + R LAI L+ +P+LA + L Sbjct: 471 VCSVGLNLFRALAIYLKPVLPELAERAEAFL 501 Score = 95.2 bits (238), Expect = 4e-20 Identities = 34/120 (28%), Positives = 62/120 (51%), Gaps = 8/120 (6%) Query: 6 KLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNA 65 K+ ++ A+ Y N H+GH E I AD+ R+ R+ G +VLF D HG I A+ Sbjct: 3 KILVTCALPYANGPIHLGHLVEYIQADIWVRYQRMRGHEVLFVCADDAHGTPIMLKAEKE 62 Query: 66 GVTTKVFVD----QNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGDIYK 121 G+T + + ++ R+F IS+D++ T + + + + ++ K+ + G IY+ Sbjct: 63 GITPEELIARYHAEHKRDFAGF----GISFDNYGSTHSEENRELAQEIYLKLKENGYIYE 118 >gnl|CDD|178220 PLN02610, PLN02610, probable methionyl-tRNA synthetase. Length = 801 Score = 141 bits (357), Expect = 4e-34 Identities = 133/530 (25%), Positives = 237/530 (44%), Gaps = 77/530 (14%) Query: 4 REKLYISTAIAYPNAQPHIGHAYEMII-----ADVLARFHRLDGLDVLFTTGTDEHGQKI 58 + + I++A+ Y N PH+G+ II ADV AR+ RL G + ++ GTDE+G Sbjct: 16 KRNILITSALPYVNNVPHLGN----IIGCVLSADVFARYCRLRGYNAIYICGTDEYGTAT 71 Query: 59 AKAAQNAGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKISDKGD 118 A T K D+ +++ D DIS+D F RT+ + + C+ ++KK+ + Sbjct: 72 ETKALEENCTPKEICDKYHAIHKEVYDWFDISFDKFGRTSTPQQTEICQAIFKKLMENNW 131 Query: 119 IYKGCYSGWYSLRDEAYYNDDEV----------YKGADG-QYYNAQH--NPVQWM----- 160 + + Y + + D V Y A G Q NP + + Sbjct: 132 LSENTMQQLYCDTCQKFLADRLVEGTCPTEGCNYDSARGDQCEKCGKLLNPTELIDPKCK 191 Query: 161 ---------EEEGYFFRLSAYQDKLLSYYESHPEFILPIERRNEVI---SFVKSGLKDLS 208 + + F L +DKL+ Y + +N + ++++ GLK Sbjct: 192 VCKNTPRIRDTDHLFLELPLLKDKLVEYINETS--VAGGWSQNAIQTTNAWLRDGLKPRC 249 Query: 209 LSRKTFDWGIKIPDDPQY---IMYVWIDALTNYLT-TTGYLDNPDGSKAKFW--PADLHV 262 ++R WG+ +P +Y + YVW DA Y++ T Y P+ K +W P ++ + Sbjct: 250 ITRD-LKWGVPVPL-EKYKDKVFYVWFDAPIGYVSITACY--TPEWEK--WWKNPENVEL 303 Query: 263 ---IGKDILRFHAIYWPAFLL--SANLPLPKKVFSHGFILHKGEKISKS-----LGNVID 312 +GKD + FH + +P+ LL N + K + ++ ++G K SKS GN Sbjct: 304 YQFMGKDNVPFHTVMFPSTLLGTGENWTMMKTISVTEYLNYEGGKFSKSKGVGVFGNDAK 363 Query: 313 PIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIGNLVSRSVSMILKD 372 + EV RY+L+ D + L+ ++N++L N +GN ++R +S I K Sbjct: 364 DTNIPVEV----WRYYLLTNRPEVSDTLFTWADLQAKLNSELLNNLGNFINRVLSFIAKP 419 Query: 373 ----YDGMIP-TPGAFTESDESILSVCSRV---LQEIRENMQNQLIHRALAQVISLVSEV 424 Y +IP PGA ES + +V +++ E M+ + + L +S+ SE Sbjct: 420 PGAGYGSVIPDAPGA--ESHPLTKKLAEKVGKLVEQYVEAMEKVKLKQGLKTAMSISSEG 477 Query: 425 DRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIF 474 + Y + W+L K + + V+ +V ++ LA LL+ F+P + ++ Sbjct: 478 NAYLQESQFWKLYKEDKPSCAIVVKTSVGLVYLLACLLEPFMPSFSKEVL 527 >gnl|CDD|161872 TIGR00422, valS, valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase. Length = 861 Score = 113 bits (285), Expect = 1e-25 Identities = 93/376 (24%), Positives = 156/376 (41%), Gaps = 54/376 (14%) Query: 154 HNPVQWMEEEGYFFRLSAYQDKLL-SYYESHPEFILPIERRNEVISFVKSGLKDLSLSRK 212 V+ + + +F ++ DK L + E +F+ P ++++++ +KD +SR+ Sbjct: 347 GTVVEPLLSKQWFVKVEKLADKALEAAEEGEIKFV-PKRMEKRYLNWLRN-IKDWCISRQ 404 Query: 213 TFDWGIKIP-------------------DDPQYIMYV------------WIDALTNYLTT 241 WG +IP DD W + +T Sbjct: 405 LI-WGHRIPVWYCKECGEVYVAKEEPLPDDKTNTGPSVELEQDTDVLDTWFSSSLWPFST 463 Query: 242 TGYLDNPDGSKAKFWPADLHVIGKDILRFHAIY--WPAFLLSANLPLPKKVFSHGFIL-H 298 G+ D K KF+P DL V G DI+ F + + L+ +P K+V+ HG + Sbjct: 464 LGWPDETKDLK-KFYPTDLLVTGYDIIFFWVARMIFRSLALTGQVPF-KEVYIHGLVRDE 521 Query: 299 KGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGI 358 +G K+SKSLGNVIDP++VIE+ G DALR+ L + G D +D ++ + N + Sbjct: 522 QGRKMSKSLGNVIDPLDVIEKYGADALRFTLASLVTPGDDINFDWKRVES--ARNFLNKL 579 Query: 359 GNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVI 418 N SR V M L D + + +D ILS +R ++E+R+ + A+ Sbjct: 580 WN-ASRFVLMNLSDDLELSGGEEKLSLADRWILSKLNRTIKEVRKALDK----YRFAEAA 634 Query: 419 SLVSE------VDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANK 472 + E D Y + K L N V+ + LL F+P + + Sbjct: 635 KALYEFIWNDFCDWYIELVKY-RLYNGNEAEKKAARDTLYYVLDKALRLLHPFMPFITEE 693 Query: 473 IFDILFVADENRCFQS 488 I+ ++ QS Sbjct: 694 IWQHFKEGADSIMLQS 709 Score = 53.5 bits (129), Expect = 1e-07 Identities = 28/90 (31%), Positives = 37/90 (41%), Gaps = 5/90 (5%) Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIA---KAAQNAGVTTKV 71 HIGHA I D++AR+ R+ G +VL+ GTD G IA K + G K Sbjct: 43 NVTGSLHIGHALNWSIQDIIARYKRMKGYNVLWLPGTDHAG--IATQVKVEKKLGAEGKT 100 Query: 72 FVDQNSRNFRDMADVLDISYDDFIRTTEKR 101 D FR+ I+ KR Sbjct: 101 KHDLGREEFREKIWEWKEESGGTIKNQIKR 130 >gnl|CDD|180364 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed. Length = 975 Score = 90.6 bits (226), Expect = 1e-18 Identities = 59/211 (27%), Positives = 97/211 (45%), Gaps = 24/211 (11%) Query: 288 KKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGL 346 K V HG +L G+K+SKSLGN +DP EV ++ G DALR++L+ A +D + +DG+ Sbjct: 577 KNVLVHGHVLDEDGQKMSKSLGNYVDPFEVFDKYGADALRWYLLSSSAPWEDLRFSEDGV 636 Query: 347 KKRVNADLANGIGNLVSRSVS-MILKDYDGMIPTP--GAFTESDESILSVCSRVLQEIRE 403 ++ V L + N+ S V L +D + E D ILS + +++E+ E Sbjct: 637 REVVRKFL-LTLWNVYSFFVLYANLDGFDYPPAEDEVDSLNELDRWILSRLNSLVKEVTE 695 Query: 404 NMQNQLIHRALAQVISLVSEV---------DRYFDAQKPWELKKTNPDRAS-TVLYVTVE 453 + N I +A + V ++ R+ W+ + A+ LY Sbjct: 696 ALDNYDITKAARAIRDFVDDLSNWYIRRSRRRF------WKEEDDPDKLAAYATLY---T 746 Query: 454 VIRQLAILLQAFVPKLANKIFDILFVADENR 484 V+ L+ L F P +A +I+ L D Sbjct: 747 VLETLSRLAAPFTPFIAEEIYQNLTREDAPE 777 Score = 40.5 bits (96), Expect = 0.001 Identities = 32/148 (21%), Positives = 51/148 (34%), Gaps = 39/148 (26%) Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNA-GVTTK--- 70 N PH GH I DV+ R+ + G V G D HG + + G++ K Sbjct: 51 TANGLPHYGHLLTRTIKDVVPRYKTMKGYKVERRAGWDTHGLPVELEVEKELGISGKKDI 110 Query: 71 ---------------VF--VDQNSRNFRDMADVLD-----ISYD-DFIRTTEKRHHDTCR 107 V D+ + +D + D +++ + Sbjct: 111 EEYGIEKFNEKCRESVLRYTDEWEEYTERLGRWVDFDNPYKTLDNEYMES---------- 160 Query: 108 ILW--KKISDKGDIYKGCYSGWYSLRDE 133 + W K++ DKG +YKG Y R E Sbjct: 161 VWWALKQLYDKGLLYKGYRVVPYCPRCE 188 >gnl|CDD|161854 TIGR00392, ileS, isoleucyl-tRNA synthetase. The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms. Length = 861 Score = 87.4 bits (217), Expect = 8e-18 Identities = 75/294 (25%), Positives = 128/294 (43%), Gaps = 23/294 (7%) Query: 218 IKIPDDPQYIMYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILR--FHAIYW 275 ++PD ++ VW D+ + + Y + + +PAD + G D R F++ Sbjct: 530 RRVPD----VLDVWFDSGSMPYASIHYPFENE-KFKEVFPADFILEGSDQTRGWFYSSLA 584 Query: 276 PAFLLSANLPLPKKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIA 334 L P K V +HGF L KG K+SKSLGNV+DP++VI + G D LR ++ Sbjct: 585 IGTALFGQAPY-KNVITHGFTLDEKGRKMSKSLGNVVDPLKVINKYGADILRLYVASS-D 642 Query: 335 CGKDGFYDKDGLKKRVNADLANGIGNLVSRSVS-MILKDYDGM--IPTPGAFTESDESIL 391 +D + + L K+V N ++ L +D + F E D IL Sbjct: 643 PWEDLRFSDEIL-KQVVEKYRKIRWNTYRFLLTYANLDKFDPLFNSVAVEKFPEEDRWIL 701 Query: 392 SVCSRVLQEIRENMQNQLIHRALAQVISLVSEV--DRYFDAQKP--WELKKTNPDRAS-T 446 S + +++E+ E ++ H+ L + + E + Y + + K N RA+ T Sbjct: 702 SRLNSLVEEVNEALEKYNFHKVLRALQDFIVEELSNWYIRIIRDRLYCEAKDNDKRAAQT 761 Query: 447 VLYVTVEVIRQLAILLQAFVPKLANKIF-DILFVADENRCFQSLDQRLKPGFML 499 LY + L LL F+P A +I+ ++ +E +L + F+ Sbjct: 762 TLY---YALLTLVRLLAPFLPHTAEEIYQNLPGGEEEESVHLNLWPEVDEEFID 812 Score = 42.4 bits (100), Expect = 3e-04 Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 1/57 (1%) Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIA-KAAQNAGVTTK 70 Y N H+GHA I+ D++ R+ + G +V G D HG I K + G++ K Sbjct: 46 YANGSIHLGHALNKILKDIILRYKTMQGFNVTRKPGWDTHGLPIEHKVEKKLGISGK 102 >gnl|CDD|180225 PRK05729, valS, valyl-tRNA synthetase; Reviewed. Length = 874 Score = 85.5 bits (213), Expect = 3e-17 Identities = 68/247 (27%), Positives = 107/247 (43%), Gaps = 48/247 (19%) Query: 245 LDNPDGSK--AKFWPADLHVIGKDILRFHAIYWPA--------------FLLSANLPLPK 288 L P+ ++ +F+P + V G DI+ F W A F K Sbjct: 459 LGWPEKTEDLKRFYPTSVLVTGFDIIFF----WVARMIMMGLHFTGQVPF---------K 505 Query: 289 KVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLK 347 V+ HG + +G K+SKS GNVIDP+++I++ G DALR+ L + G+D +D++ Sbjct: 506 DVYIHGLVRDEQGRKMSKSKGNVIDPLDLIDKYGADALRFTLAALASPGRDIRFDEE--- 562 Query: 348 KRVNA--DLANGIGNLVSRSVSM-ILKDYDGMIPTPGAFTESDESILSVCSRVLQEIREN 404 RV + AN + N SR V M + G +P P + +D ILS +R + E+ E Sbjct: 563 -RVEGYRNFANKLWN-ASRFVLMNLEGADVGELPDPEELSLADRWILSRLNRTVAEVTEA 620 Query: 405 MQNQLIHRALAQVISLVSEVDRYFDAQKPW--ELKKT--NPDRASTVLYVTVEVIRQLAI 460 + A + + + + D W EL K V+ Q+ Sbjct: 621 LDKYRFDEAARALYEFI--WNEFCD----WYLELAKPVLQEAAKRATRATLAYVLEQILR 674 Query: 461 LLQAFVP 467 LL F+P Sbjct: 675 LLHPFMP 681 Score = 45.5 bits (109), Expect = 4e-05 Identities = 13/32 (40%), Positives = 20/32 (62%) Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTD 52 H+GHA + D+L R+ R+ G + L+ GTD Sbjct: 52 HMGHALNNTLQDILIRYKRMQGYNTLWLPGTD 83 >gnl|CDD|183895 PRK13208, valS, valyl-tRNA synthetase; Reviewed. Length = 800 Score = 80.2 bits (199), Expect = 1e-15 Identities = 59/194 (30%), Positives = 93/194 (47%), Gaps = 17/194 (8%) Query: 227 IMYVWID-ALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIY--WPAFLLSAN 283 +M W ++T L TG+ + D + F P DL G DI+R Y A+LL+ Sbjct: 457 VMDTWATSSIT-PLIVTGWERDEDLFEKVF-PMDLRPQGHDIIRTWLFYTILRAYLLTGK 514 Query: 284 LPLPKKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYD 342 LP K + G +L G+K+SKS GNV+ P E++E+ G DA+RY+ G D +D Sbjct: 515 LPW-KNIMISGMVLDPDGKKMSKSKGNVVTPEELLEKYGADAVRYWAA-SARLGSDTPFD 572 Query: 343 KDGLK--KRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQE 400 + +K +R L + N SR V D + D IL+ ++V+++ Sbjct: 573 EKQVKIGRR----LLTKLWN-ASRFVLHFSADPE--PDKAEVLEPLDRWILAKLAKVVEK 625 Query: 401 IRENMQNQLIHRAL 414 E ++N +AL Sbjct: 626 ATEALENYDFAKAL 639 Score = 50.2 bits (121), Expect = 1e-06 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 5/83 (6%) Query: 3 EREKLY-ISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKA 61 ER+ +Y I T + HIGH + D +AR+ R+ G +V F G D++G + Sbjct: 35 ERKPVYSIDTPPPTVSGSLHIGHVFSYTHTDFIARYQRMRGYNVFFPQGWDDNGLPTERK 94 Query: 62 AQNAGVTTKVFVDQNSR-NFRDM 83 + + D SR F ++ Sbjct: 95 VEK---YYGIRKDDISREEFIEL 114 >gnl|CDD|184893 PRK14900, valS, valyl-tRNA synthetase; Provisional. Length = 1052 Score = 73.9 bits (181), Expect = 1e-13 Identities = 73/252 (28%), Positives = 114/252 (45%), Gaps = 25/252 (9%) Query: 239 LTTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIYWPAFLLSANLPLPKKVFSHGFILH 298 +T G+ + D + F+P + G DI+ F W A ++ L +V LH Sbjct: 474 FSTMGWPEQTDTLRT-FYPTSVMETGHDIIFF----WVARMMMMGLHFMGEVPFRTVYLH 528 Query: 299 ------KGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKD---GLKKR 349 KG+K+SK+ GNVIDP+ + E+ G DALR+ L A G+D K+ G + Sbjct: 529 PMVRDEKGQKMSKTKGNVIDPLVITEQYGADALRFTLAALTAQGRDIKLAKERIEGYRA- 587 Query: 350 VNADLANGIGNLVSRSVSMILKDY--DGMIPTPGAFTESDESILSVCSRVLQEIRENMQN 407 AN + N SR M L Y G P A T +D IL+ R + E E ++ Sbjct: 588 ----FANKLWN-ASRFALMNLSGYQERGEDPARLARTPADRWILARLQRAVNETVEALEA 642 Query: 408 QLIHRALAQVISLV-SEV-DRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAF 465 + A V + V E+ D Y + K L +P+ +V V V ++ LL F Sbjct: 643 FRFNDAANAVYAFVWHELCDWYIELAKE-ALASEDPEARRSVQAVLVHCLQTSYRLLHPF 701 Query: 466 VPKLANKIFDIL 477 +P + +++ +L Sbjct: 702 MPFITEELWHVL 713 Score = 39.2 bits (91), Expect = 0.003 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 11/58 (18%) Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQNSR 78 H+GHA + DVL R+ R+ G + L+ GTD +AG+ T++ V++ + Sbjct: 64 HLGHALTATLQDVLIRWKRMSGFNTLWLPGTD-----------HAGIATQMIVEKELK 110 >gnl|CDD|184337 PRK13804, ileS, isoleucyl-tRNA synthetase; Provisional. Length = 961 Score = 66.9 bits (164), Expect = 1e-11 Identities = 39/115 (33%), Positives = 53/115 (46%), Gaps = 34/115 (29%) Query: 227 IMYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKD--------------ILRFHA 272 I+ VW D+ + + L++ K WPADL++ G D R A Sbjct: 559 ILDVWFDSGSTH---AFVLEDRPDLK---WPADLYLEGSDQHRGWFNSSLLESCGTRGRA 612 Query: 273 IYWPAFLLSANLPLPKKVFSHGFIL-HKGEKISKSLGNVIDPIEVIEEVGVDALR 326 Y K V +HGF L KGEK+SKSLGN + P +VI++ G D LR Sbjct: 613 PY-------------KAVLTHGFTLDEKGEKMSKSLGNTVSPQDVIKQSGADILR 654 Score = 41.9 bits (99), Expect = 4e-04 Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 4/57 (7%) Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHG----QKIAKAAQNAGV 67 Y N HIGHA I+ DV+ R ++ G D + G D HG KI + + G Sbjct: 64 YANGNIHIGHALNKILKDVIVRSKQMLGFDANYVPGWDCHGLPIEWKIEEKYRAKGK 120 >gnl|CDD|161857 TIGR00396, leuS_bact, leucyl-tRNA synthetase, eubacterial and mitochondrial family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both eubacterial and mitochondrial leucyl-tRNA synthetases. It generates higher scores for some valyl-tRNA synthetases than for any archaeal or eukaryotic cytosolic leucyl-tRNA synthetase. Note that the enzyme from Aquifex aeolicus is split into alpha and beta chains; neither chain is long enough to score above the trusted cutoff, but the alpha chain scores well above the noise cutoff. The beta chain must be found by a model and search designed for partial length matches. Length = 842 Score = 65.9 bits (161), Expect = 2e-11 Identities = 44/178 (24%), Positives = 81/178 (45%), Gaps = 5/178 (2%) Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKA 61 + K YI YP+ H+GH I DVL+R++R+ G +VL G D G A Sbjct: 26 SNKPKYYILDMFPYPSGALHMGHVRNYTITDVLSRYYRMKGYNVLHPMGWDAFGLPAENA 85 Query: 62 AQNAGVTTKVFVDQNSRNFRDMADVL--DISYDDFIRTTEKRHHDTCRILWKKISDKGDI 119 A G+ + +N N + L +D I T + ++ + ++ ++ +KG Sbjct: 86 AIKRGIHPAKWTYENIANMKKQLQALGFSYDWDREIATCDPEYYKWTQWIFLELFEKGLA 145 Query: 120 YKGCYSGWYSLRDEAYYNDDEVYKGADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLL 177 Y + D +++V +DG+ + PV+ E + +F +++AY ++LL Sbjct: 146 YVKEADVNWCPNDGTVLANEQVD--SDGRSWRGGT-PVEKKELKQWFLKITAYAEELL 200 Score = 46.3 bits (110), Expect = 2e-05 Identities = 41/149 (27%), Positives = 59/149 (39%), Gaps = 51/149 (34%) Query: 228 MYVWIDALTNYLTTTGYLD--NP----DGSKAKFW-PADLHVIGKDILRFHAIY---WPA 277 M + + YL YLD N D KA++W P DL++ G + H +Y W Sbjct: 487 MDTFAGSSWYYL---RYLDPKNTDQPFDKEKAEYWLPVDLYIGGAEHAILHLLYARFWHK 543 Query: 278 FLLSANL-----PLPKKVFSHGFIL--------------------------------HKG 300 FL P KK+ + G +L Sbjct: 544 FLYDIGYVSTKEPF-KKLINQGMVLGFYYPPNGKSPPDELTERDEKAKDKSGGELVVVGY 602 Query: 301 EKISKSLGNVIDPIEVIEEVGVDALRYFL 329 EK+SKS GN IDP E++++ G DALR ++ Sbjct: 603 EKMSKSKGNGIDPQEIVKKHGADALRLYI 631 >gnl|CDD|180231 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed. Length = 912 Score = 64.0 bits (157), Expect = 1e-10 Identities = 43/136 (31%), Positives = 62/136 (45%), Gaps = 42/136 (30%) Query: 214 FDWGIK--IPDDP-QY-----IMYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGK 265 F+ K +PD+ +Y I+ VW D+ + + L+ +PADL++ G Sbjct: 500 FELDAKELLPDEADEYEKETDILDVWFDSGS---SHAAVLEQRPELG---YPADLYLEGS 553 Query: 266 D--------------ILRFHAIYWPAFLLSANLPLPKKVFSHGFIL-HKGEKISKSLGNV 310 D R A Y K+V +HGF + KG K+SKSLGNV Sbjct: 554 DQHRGWFQSSLLTSVATRGKAPY-------------KQVLTHGFTVDGKGRKMSKSLGNV 600 Query: 311 IDPIEVIEEVGVDALR 326 IDP +VI++ G D LR Sbjct: 601 IDPQDVIKKYGADILR 616 Score = 35.5 bits (83), Expect = 0.030 Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 4/50 (8%) Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHG----QKIAK 60 Y N HIGHA I+ D++ + + G D + G D HG K+ K Sbjct: 59 YANGDIHIGHALNKILKDIIVKSKTMSGFDAPYVPGWDCHGLPIELKVEK 108 >gnl|CDD|166584 PLN02943, PLN02943, aminoacyl-tRNA ligase. Length = 958 Score = 63.0 bits (153), Expect = 2e-10 Identities = 57/209 (27%), Positives = 89/209 (42%), Gaps = 52/209 (24%) Query: 165 YFFRLSAYQDKLLSYYESHPEFILPIERRNEVISFVKSGLKDLSLSRKTFDWGIKIP--- 221 +F + +K L E+ I+P ER ++ + S +KD +SR+ + WG +IP Sbjct: 410 WFVTMEPLAEKALKAVENGELTIIP-ERFEKIYNHWLSNIKDWCISRQLW-WGHRIPVWY 467 Query: 222 ----------------------------------DDPQYIMYVWIDALTNYLTTTGYLDN 247 DP ++ W + +T G+ D Sbjct: 468 IVGKDCEEDYIVARSAEEALEKAREKYGKDVEIYQDPD-VLDTWFSSALWPFSTLGWPDV 526 Query: 248 PDGSKAKFWPADLHVIGKDILRFHAIYWPAFLL------SANLPLPKKVFSHGFILH-KG 300 KF+P + G DIL F W A ++ + +P V+ HG I +G Sbjct: 527 SAEDFKKFYPTTVLETGHDILFF----WVARMVMMGIEFTGTVPF-SYVYLHGLIRDSQG 581 Query: 301 EKISKSLGNVIDPIEVIEEVGVDALRYFL 329 K+SK+LGNVIDP++ I+E G DALR+ L Sbjct: 582 RKMSKTLGNVIDPLDTIKEFGTDALRFTL 610 Score = 36.8 bits (85), Expect = 0.012 Identities = 16/55 (29%), Positives = 31/55 (56%), Gaps = 11/55 (20%) Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQ 75 H+GHA + + D++ R++R+ G L+ GTD +AG+ T++ V++ Sbjct: 104 HMGHAMFVTLEDIMVRYNRMKGRPTLWIPGTD-----------HAGIATQLVVEK 147 >gnl|CDD|185605 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein; Provisional. Length = 995 Score = 57.7 bits (140), Expect = 6e-09 Identities = 34/79 (43%), Positives = 42/79 (53%), Gaps = 12/79 (15%) Query: 254 KFWPADLHVIGKDILRFHAIYWPA------FLLSANLPLPKKVFSHGFILHK-GEKISKS 306 +F+P L G DIL F W A L+ LP K VF H + GEK+SKS Sbjct: 535 RFFPTSLLETGSDILFF----WVARMVMMSLHLTDKLPF-KTVFLHAMVRDSQGEKMSKS 589 Query: 307 LGNVIDPIEVIEEVGVDAL 325 GNVIDP+EVIE + + L Sbjct: 590 KGNVIDPLEVIEGISLQDL 608 Score = 43.1 bits (102), Expect = 2e-04 Identities = 22/53 (41%), Positives = 28/53 (52%), Gaps = 11/53 (20%) Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFV 73 HIGHA I D L R+HR+ G + L+ GTD H AG+ T+V V Sbjct: 76 HIGHALTGAIQDSLIRYHRMKGDETLWVPGTD-H----------AGIATQVVV 117 >gnl|CDD|178436 PLN02843, PLN02843, isoleucyl-tRNA synthetase. Length = 974 Score = 57.5 bits (139), Expect = 9e-09 Identities = 38/96 (39%), Positives = 55/96 (57%), Gaps = 14/96 (14%) Query: 228 MYVWIDALTNYLTTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIYWPAFLLS---ANL 284 M VW D+ +++ G L + +G +PADL++ G D H ++ + LL+ Sbjct: 541 MDVWFDSGSSW---AGVLGSREGLS---YPADLYLEGSDQ---HRGWFQSSLLTSVATKG 591 Query: 285 PLP-KKVFSHGFIL-HKGEKISKSLGNVIDPIEVIE 318 P K V +HGF+L KG K+SKSLGNV+DP VIE Sbjct: 592 KAPYKSVLTHGFVLDEKGFKMSKSLGNVVDPRLVIE 627 Score = 37.8 bits (88), Expect = 0.007 Identities = 18/44 (40%), Positives = 22/44 (50%) Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKI 58 Y N HIGHA I+ D + R+ L G V + G D HG I Sbjct: 42 YANGDLHIGHALNKILKDFINRYQLLQGKKVHYVPGWDCHGLPI 85 >gnl|CDD|178007 PLN02381, PLN02381, valyl-tRNA synthetase. Length = 1066 Score = 56.1 bits (135), Expect = 2e-08 Identities = 47/127 (37%), Positives = 64/127 (50%), Gaps = 17/127 (13%) Query: 239 LTTTGYLDNPDGSKAKFWPADLHVIGKDILRFHAIYWPAFL------LSANLPLPKKVFS 292 L+ G+ D+ D KA F+P + G DIL F W A + L ++P +KV+ Sbjct: 591 LSVLGWPDDTDDLKA-FYPTSVLETGHDILFF----WVARMVMMGMQLGGDVPF-RKVYL 644 Query: 293 HGFILH-KGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVN 351 H I G K+SKSLGNVIDP+EVI + ++ L L K+ K+G KK Sbjct: 645 HPMIRDAHGRKMSKSLGNVIDPLEVINGISLEGLHKRLEEGNLDPKELVVAKEGQKK--- 701 Query: 352 ADLANGI 358 D NGI Sbjct: 702 -DFPNGI 707 Score = 36.8 bits (85), Expect = 0.015 Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 11/55 (20%) Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQ 75 HIGHA I D + R+ R+ G + L+ G D +AG+ T+V V++ Sbjct: 144 HIGHALTAAIEDTIIRWKRMSGYNALWVPGVD-----------HAGIATQVVVEK 187 >gnl|CDD|161856 TIGR00395, leuS_arch, leucyl-tRNA synthetase, archaeal and cytosolic family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both archaeal and cytosolic eukaryotic leucyl-tRNA synthetases; the eubacterial and mitochondrial forms differ so substantially that some other tRNA ligases score higher by this model than does any eubacterial LeuS. Length = 938 Score = 51.7 bits (124), Expect = 4e-07 Identities = 20/50 (40%), Positives = 27/50 (54%) Query: 1 MKEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTG 50 +REK +++ A Y N H GH I +V ARF R+ G +VLF G Sbjct: 21 PDDREKFFLTMAYPYLNGVMHAGHCRTFTIPEVSARFERMKGKNVLFPLG 70 Score = 47.5 bits (113), Expect = 7e-06 Identities = 49/229 (21%), Positives = 95/229 (41%), Gaps = 29/229 (12%) Query: 255 FWPADLHVIGKDILRFHAIYWPAFLLSANLP---LPKKVFSHGFILHKGEKISKSLGNVI 311 ++P D + GKD++ H ++ F A P P+ + +G+++ +G+K+SKS GNV+ Sbjct: 571 WYPLDWRISGKDLIPNHLTFY-IFHHVAIFPEKFWPRGIVVNGYVMLEGKKMSKSKGNVL 629 Query: 312 DPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNADLANGIGNL--VSRSVSMI 369 + +E+ G D R + IA + D D + V + L + ++ Sbjct: 630 TLEQAVEKFGADVARLY----IADAAETVQDADWKESEVEG-TILRLERLYEFAEEITKE 684 Query: 370 LKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRAL-AQVISLVSEVDRYF 428 G + D + S + ++E E M+N +A+ + L ++VD Y Sbjct: 685 SNLETGEE-----TSFIDRWLESRMNAAIKETYEAMENFQTRKAVKYALFDLQADVDWY- 738 Query: 429 DAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDIL 477 ++ VL +E LL F P A ++++ + Sbjct: 739 --------RRRGGVNHKDVLARYLETW---IKLLAPFAPHFAEEMWEEV 776 >gnl|CDD|178544 PLN02959, PLN02959, aminoacyl-tRNA ligase. Length = 1084 Score = 50.1 bits (120), Expect = 1e-06 Identities = 29/79 (36%), Positives = 42/79 (53%), Gaps = 5/79 (6%) Query: 255 FW-PADLHVIGKDILRFH---AIYWPAFLLSANLPLPKKVFSHGFILHKGEKISKSLGNV 310 +W P DL V GKD+++ H AIY + A P+ +G ++ EK+SKS GN Sbjct: 668 YWYPFDLRVSGKDLIQNHLTFAIYNHTAIW-AEEHWPRGFRCNGHLMLNSEKMSKSTGNF 726 Query: 311 IDPIEVIEEVGVDALRYFL 329 + + IEE DA R+ L Sbjct: 727 LTLRQAIEEFSADATRFAL 745 Score = 37.0 bits (86), Expect = 0.012 Identities = 16/46 (34%), Positives = 24/46 (52%) Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLF 47 K EK + + Y N H+GHA+ + + A +HRL G +VL Sbjct: 42 KPGEKFFGNFPYPYMNGLLHLGHAFSLSKLEFAAAYHRLRGANVLL 87 >gnl|CDD|178177 PLN02563, PLN02563, aminoacyl-tRNA ligase. Length = 963 Score = 49.4 bits (118), Expect = 2e-06 Identities = 51/183 (27%), Positives = 76/183 (41%), Gaps = 21/183 (11%) Query: 6 KLYISTAIAYPN-AQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQN 64 K Y+ YP+ A H+GH D+LAR+ R+ G +VL G D G + A Sbjct: 111 KFYVLDMFPYPSGAGLHVGHPEGYTATDILARYKRMQGYNVLHPMGWDAFGLPAEQYAIE 170 Query: 65 AGVTTKVFVDQNSRNFRDMADVLDISYD--DFIRTTEKRHHDTCRILWKKISDKGDIYKG 122 G K+ +N FR L SYD I TTE ++ + ++ ++ +G Y+ Sbjct: 171 TGTHPKITTLKNIARFRSQLKSLGFSYDWDREISTTEPEYYKWTQWIFLQLLKRGLAYQA 230 Query: 123 CYS-GWYSLRDEAYYNDDEVYKGADGQYYNAQHNPV------QWMEEEGYFFRLSAYQDK 175 W N++ V DG H PV QWM +++AY D+ Sbjct: 231 EVPVNWCPALGTVLANEEVV----DGLSERGGH-PVIRKPMRQWM------LKITAYADR 279 Query: 176 LLS 178 LL Sbjct: 280 LLE 282 Score = 37.9 bits (88), Expect = 0.007 Identities = 14/27 (51%), Positives = 21/27 (77%) Query: 302 KISKSLGNVIDPIEVIEEVGVDALRYF 328 K+SKS GNV++P +V+ E G D+LR + Sbjct: 723 KMSKSRGNVVNPDDVVSEYGADSLRLY 749 >gnl|CDD|183418 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed. Length = 897 Score = 49.1 bits (118), Expect = 2e-06 Identities = 44/184 (23%), Positives = 73/184 (39%), Gaps = 22/184 (11%) Query: 294 GFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKDGLKKRVNAD 353 GF+L +G+K+SKS GNVI + IEE G D +R + + + D D Sbjct: 569 GFVLLEGKKMSKSKGNVIPLRKAIEEYGADVVRLY----LTSSAELLQDAD-----WREK 619 Query: 354 LANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEIRENMQNQLIHRA 413 + + R + + + I D+ +LS +R+++E E M++ A Sbjct: 620 EVESVRRQLERFYELAKELIE--IGGEEELRFIDKWLLSRLNRIIKETTEAMESFQTRDA 677 Query: 414 LAQVISLVSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAILLQAFVPKLANKI 473 V E+ W L++ V EV+ LL F P LA ++ Sbjct: 678 ---VQEAFYELLNDLR----WYLRRVG----EANNKVLREVLEIWIRLLAPFTPHLAEEL 726 Query: 474 FDIL 477 + L Sbjct: 727 WHKL 730 Score = 46.4 bits (111), Expect = 2e-05 Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 5/37 (13%) Query: 20 PHIGHAYEMIIADVLARFHRLDGLDVLFT-----TGT 51 H+GH I DV+AR+ R+ G +VLF TGT Sbjct: 1 LHVGHGRTYTIGDVIARYKRMRGYNVLFPMAFHVTGT 37 >gnl|CDD|178996 PRK00390, leuS, leucyl-tRNA synthetase; Validated. Length = 805 Score = 47.4 bits (114), Expect = 9e-06 Identities = 44/189 (23%), Positives = 79/189 (41%), Gaps = 41/189 (21%) Query: 288 KKVFSHGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREIACGKDGFYDKD--- 344 KK+ + G + K+SKS GNV+DP ++IE+ G D R F + G +KD Sbjct: 561 KKLLTQGMV-----KMSKSKGNVVDPDDIIEKYGADTARLFEMF------AGPPEKDLEW 609 Query: 345 ---GLKKRVNADLANGIGNLVSRSVSMILKDYDGMIPTPGAFTESDESILSVCSRVLQEI 401 G++ G + R +++ A D+ + + ++++ Sbjct: 610 SDSGVE---------GAYRFLQRVWRLVVDAKGEAGALDVAALSEDKELRRKLHKTIKKV 660 Query: 402 RENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTNPDRASTVLYVTVEVIRQLAIL 461 E+++ + A+A ++ LV+ + + D Q D+A V E + L L Sbjct: 661 TEDIERLRFNTAIAALMELVNALYKAEDEQ----------DKA-----VLREALEILVRL 705 Query: 462 LQAFVPKLA 470 L F P LA Sbjct: 706 LAPFAPHLA 714 Score = 43.2 bits (103), Expect = 2e-04 Identities = 27/86 (31%), Positives = 38/86 (44%), Gaps = 16/86 (18%) Query: 15 YPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKA----AQNAGVTTK 70 YP+ H+GH I DV+AR+ R+ G +VL G D A A+NA + T Sbjct: 42 YPSGGLHMGHVRNYTIGDVIARYKRMQGYNVLHPMGWD--------AFGLPAENAAIKTG 93 Query: 71 V----FVDQNSRNFRDMADVLDISYD 92 + +N N + L SYD Sbjct: 94 THPAEWTYENIANMKKQLKSLGFSYD 119 >gnl|CDD|178951 PRK00260, cysS, cysteinyl-tRNA synthetase; Validated. Length = 463 Score = 44.7 bits (107), Expect = 6e-05 Identities = 15/36 (41%), Positives = 24/36 (66%) Query: 294 GFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFL 329 GF+ GEK+SKSLGN +++++ + LR+FL Sbjct: 258 GFVTVNGEKMSKSLGNFFTIRDLLKKYDPEVLRFFL 293 Score = 40.9 bits (97), Expect = 8e-04 Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 6/73 (8%) Query: 20 PHIGHAYEMIIADVLARFHRLDGLDVLFT---TGTDEHGQKIAKAAQNAGVTTKVFVDQN 76 HIGHA ++ DVL R+ R G V + T D+ KI K A G + K ++ Sbjct: 37 AHIGHARSFVVFDVLRRYLRYLGYKVTYVRNITDIDD---KIIKRANEEGESIKELTERY 93 Query: 77 SRNFRDMADVLDI 89 F + D L++ Sbjct: 94 IAAFHEDMDALNV 106 >gnl|CDD|178470 PLN02882, PLN02882, aminoacyl-tRNA ligase. Length = 1159 Score = 42.0 bits (99), Expect = 3e-04 Identities = 18/31 (58%), Positives = 24/31 (77%) Query: 300 GEKISKSLGNVIDPIEVIEEVGVDALRYFLV 330 G+K+SKSL N DP EVI++ G DALR +L+ Sbjct: 612 GKKMSKSLKNYPDPNEVIDKYGADALRLYLI 642 >gnl|CDD|149360 pfam08264, Anticodon_1, Anticodon-binding domain. This domain is found valyl and leucyl tRNA synthetases. It binds to the anticodon of the tRNA. Length = 148 Score = 42.0 bits (99), Expect = 3e-04 Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 7/95 (7%) Query: 387 DESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEV--DRYFDAQKP--WELKKTNPD 442 D ILS +++++E+ E + + A + + D Y + K + Sbjct: 1 DRWILSRLNKLIKEVTEAYEKYRFNTAASALYEFFWNDLSDWYLELSKDRLYGEDPDESK 60 Query: 443 RASTVLYVTVEVIRQLAILLQAFVPKLANKIFDIL 477 R +T LY EV+ L LL F+P + +++ L Sbjct: 61 RRATTLY---EVLETLLRLLAPFMPFITEELWQKL 92 >gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional. Length = 1205 Score = 41.1 bits (96), Expect = 6e-04 Identities = 28/84 (33%), Positives = 46/84 (54%), Gaps = 4/84 (4%) Query: 254 KFWPADLHVIGKDILR--FHAIYWPAFLLSANLPLPKKVFSHGFIL-HKGEKISKSLGNV 310 K +PAD G D R F+ + + LL P K + +G +L G+K+SK L N Sbjct: 670 KIFPADFIAEGLDQTRGWFYTLLVISTLLFDKAPF-KNLICNGLVLASDGKKMSKRLKNY 728 Query: 311 IDPIEVIEEVGVDALRYFLVREIA 334 DP+ ++++ G D+LR +L+ +A Sbjct: 729 PDPLYILDKYGADSLRLYLINSVA 752 Score = 28.4 bits (63), Expect = 4.7 Identities = 15/39 (38%), Positives = 17/39 (43%) Query: 20 PHIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKI 58 PH GH II D + R+ G V G D HG I Sbjct: 117 PHYGHLLAGIIKDCVTRYFYQCGFSVERKFGWDCHGLPI 155 >gnl|CDD|161877 TIGR00435, cysS, cysteinyl-tRNA synthetase. This model finds the cysteinyl-tRNA synthetase from most but not from all species. The enzyme from one archaeal species, Archaeoglobus fulgidus, is found but the equivalent enzymes from some other Archaea, including Methanococcus jannaschii, are not found, although biochemical evidence suggests that tRNA(Cys) in these species are charged directly with Cys rather than through a misacylation and correction pathway as for tRNA(Gln). Length = 465 Score = 39.3 bits (92), Expect = 0.003 Identities = 30/107 (28%), Positives = 46/107 (42%), Gaps = 7/107 (6%) Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQNSRNF 80 HIGHA I+ DVL R+ R G V + + KI K A+ G + ++ + Sbjct: 36 HIGHARTAIVFDVLRRYLRYLGYKVQYVQNITDIDDKIIKRARENGESVYEVSERFIEAY 95 Query: 81 RDMADVLDISYDDF-IRTTEKRHH--DTCRILWKK----ISDKGDIY 120 + L++ D R TE + L +K +SD GD+Y Sbjct: 96 FEDMKALNVLPPDLEPRATEHIDEIIEFIEQLIEKGYAYVSDNGDVY 142 Score = 37.0 bits (86), Expect = 0.013 Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 1/42 (2%) Query: 289 KVFSH-GFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFL 329 K + H GF++ EK+SKSLGN +V++ + LRYFL Sbjct: 251 KYWMHNGFLMIDNEKMSKSLGNFFTVRDVLKNYDPEILRYFL 292 >gnl|CDD|179109 PRK00750, lysK, lysyl-tRNA synthetase; Reviewed. Length = 510 Score = 36.7 bits (86), Expect = 0.013 Identities = 17/35 (48%), Positives = 23/35 (65%) Query: 295 FILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFL 329 F+ KGEKISKS GNVI + +E ++LR F+ Sbjct: 273 FLDKKGEKISKSKGNVITIEDWLEYAPPESLRLFM 307 >gnl|CDD|173001 PRK14535, cysS, cysteinyl-tRNA synthetase; Provisional. Length = 699 Score = 36.6 bits (84), Expect = 0.017 Identities = 17/39 (43%), Positives = 27/39 (69%) Query: 293 HGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVR 331 +GFI GEK+SKSLGN EV+++ + +R+F++R Sbjct: 499 NGFIRVDGEKMSKSLGNFFTIREVLKQYDPEVVRFFILR 537 Score = 31.6 bits (71), Expect = 0.48 Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 1/46 (2%) Query: 21 HIGHAYEMIIADVLARFHRLDGLDVLFTTG-TDEHGQKIAKAAQNA 65 H+GHA M++ D++AR+ R G + + TD + IA+AA+N Sbjct: 263 HLGHARVMVVFDMIARWLRECGYPLTYVRNITDIDDKIIARAAENG 308 >gnl|CDD|130808 TIGR01747, diampropi_NH3ly, diaminopropionate ammonia-lyase family. This small subfamily includes diaminopropionate ammonia-lyase from Salmonella typhimurium and a small number of close homologs, about 50 % identical in sequence. The enzyme is a pyridoxal phosphate-binding homodimer homologous to threonine dehydratase (threonine deaminase). Length = 376 Score = 32.6 bits (74), Expect = 0.23 Identities = 26/103 (25%), Positives = 43/103 (41%), Gaps = 11/103 (10%) Query: 44 DVLFTTGTD-EHGQKIAKAAQNAGVTTKVFVDQNSRNFRDMA--------DVLDISYDDF 94 F T TD HG+ +A AAQ G V++ + S R + D++YDD Sbjct: 94 QATFATATDGNHGRGVAWAAQQLGQKAVVYMPKGSAQERVENILNLGAECTITDMNYDDT 153 Query: 95 IRTTEKRHHDTCRILWKKISDKG--DIYKGCYSGWYSLRDEAY 135 +R + ++ + + +G I G+ +L DEA Sbjct: 154 VRLAMQMAQQHGWVVVQDTAWEGYEKIPTWIMQGYATLADEAV 196 >gnl|CDD|179308 PRK01611, argS, arginyl-tRNA synthetase; Reviewed. Length = 507 Score = 32.4 bits (75), Expect = 0.30 Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 17/50 (34%) Query: 299 KGEKISKSLGNVIDPIEVIEE-----------------VGVDALRYFLVR 331 +G K+S GNV+ ++++E VG+DA+RYF + Sbjct: 319 EGVKMSTRAGNVVTLDDLLDEAVGRARELIEEKEIAEAVGIDAVRYFDLS 368 >gnl|CDD|178532 PLN02946, PLN02946, cysteine-tRNA ligase. Length = 557 Score = 32.2 bits (73), Expect = 0.33 Identities = 17/38 (44%), Positives = 23/38 (60%) Query: 293 HGFILHKGEKISKSLGNVIDPIEVIEEVGVDALRYFLV 330 +GF+ EK+SKSLGN +VI+ ALR FL+ Sbjct: 314 NGFVTVDSEKMSKSLGNFFTIRQVIDLYHPLALRLFLL 351 Score = 29.9 bits (67), Expect = 1.6 Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 3/58 (5%) Query: 7 LYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVLFTTG-TDEHGQKIAKAAQ 63 +Y+ AY + HIGHA + DVL R+ + G +V + TD + IA+A + Sbjct: 83 MYVCGVTAYDLS--HIGHARVYVTFDVLYRYLKHLGYEVRYVRNFTDVDDKIIARANE 138 >gnl|CDD|106966 PHA00657, PHA00657, crystallin beta/gamma motif-containing protein. Length = 2052 Score = 32.1 bits (72), Expect = 0.40 Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 1/47 (2%) Query: 31 ADVLARFHRLDGLDVLFTTGTDEHGQKIAKAAQNAGVTTKVFVDQNS 77 A++LAR ++L D + D Q +A AA+N G +VF+D N+ Sbjct: 396 AELLARLNQLAAADKVLARDPDTFEQFVANAAEN-GPVQQVFIDANT 441 >gnl|CDD|161886 TIGR00456, argS, arginyl-tRNA synthetase. This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori. Length = 566 Score = 31.2 bits (71), Expect = 0.67 Identities = 17/45 (37%), Positives = 22/45 (48%) Query: 2 KEREKLYISTAIAYPNAQPHIGHAYEMIIADVLARFHRLDGLDVL 46 + +K+ I + A P HIGH II D LAR G DV+ Sbjct: 109 LKNKKIIIEFSSANPAGPLHIGHLRNAIIGDSLARILEFLGYDVI 153 >gnl|CDD|152856 pfam12422, Condensin2nSMC, Condensin II non structural maintenance of chromosomes subunit. This domain family is found in eukaryotes, and is approximately 150 amino acids in length. This family is part of a non-SMC subunit of condensin II which is involved in maintenance of the structural integrity of chromosomes. Condensin II is made up of SMC (structural maintenance of chromosomes) and non-SMC subunits. The non-SMC subunits bind to the catalytic ends of the SMC subunit dimer. The condensin holocomplex is able to introduce superhelical tension into DNA in an ATP hydrolysis- dependent manner, resulting in the formation of positive supercoils in the presence of topoisomerase I and of positive knots in the presence of topoisomerase II. Length = 152 Score = 30.3 bits (69), Expect = 1.3 Identities = 29/130 (22%), Positives = 55/130 (42%), Gaps = 22/130 (16%) Query: 382 AFTESDESILSVCSRVLQEIRENMQNQLIHRALAQVISLVSEVDRYFDAQKPWELKKTNP 441 +F S SIL +EI ++NQ+ + + V+ E+ F A W K + Sbjct: 21 SFLFSLSSILI------KEIHTLIKNQIPKLSKS-VLEAYGEI--LFRA---W--KNASG 66 Query: 442 DRASTVLYVTVEVIRQLAILLQAFVPKLANKIFDILFVADENRCFQSLDQRLKPGFMLHK 501 + V ++ + + AI + P LA K ++L + + +D+ +L + Sbjct: 67 ALKEEIEEVIIQDLMEGAIHAET--PLLAKKFREVLSSFHNKKARKGVDK------LLLR 118 Query: 502 TFDPIFPRFL 511 ++PI R L Sbjct: 119 LYEPILWRAL 128 >gnl|CDD|184153 PRK13572, PRK13572, anthranilate synthase component I; Provisional. Length = 435 Score = 30.1 bits (68), Expect = 1.4 Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 10/88 (11%) Query: 160 MEEEGYFFRL-SAYQDKL---LSYYESHPEFILPIERR----NEVISFVKSGLKDLSLSR 211 + +EGY F L SA + + +Y ++PEF++ I + E IS + K L + Sbjct: 18 LRDEGYPFILESAEKGQRKARYTYISANPEFMVRIGNKTKVDGETISKESNPFKALKENF 77 Query: 212 KTFDWGIKIPDDPQYIMYVWIDALTNYL 239 K G + ++ Y+ DA+ NY+ Sbjct: 78 KITQSGDRFTGG--FVGYIAYDAVHNYI 103 >gnl|CDD|179068 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional. Length = 1156 Score = 29.7 bits (68), Expect = 1.9 Identities = 12/36 (33%), Positives = 25/36 (69%), Gaps = 3/36 (8%) Query: 298 HKGEKISKSLGNVIDPIEVIEEVGVDALRYFLVREI 333 G+K++ G+ IDP +++ +GV+A++ +LV E+ Sbjct: 979 EAGDKLTD--GS-IDPHDILRVLGVEAVQNYLVNEV 1011 >gnl|CDD|182559 PRK10573, PRK10573, type IV pilin biogenesis protein; Provisional. Length = 399 Score = 28.7 bits (65), Expect = 3.7 Identities = 11/15 (73%), Positives = 12/15 (80%) Query: 453 EVIRQLAILLQAFVP 467 E IRQLA LLQA +P Sbjct: 63 EFIRQLATLLQAGLP 77 >gnl|CDD|163345 TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members. Length = 276 Score = 28.6 bits (65), Expect = 3.9 Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 23/87 (26%) Query: 55 GQKIAKAAQNAGVTTKVFVDQNSRNFRDMADVLDISYDDFIRTTEKRHHDTCRILWKKIS 114 G+K+AK GVT + + ++D L++ DT ILW K Sbjct: 140 GKKVAKVGNRPGVTK-------GQQWIKLSDGLELL-------------DTPGILWPKFE 179 Query: 115 DKGDIYKGCYSGWYSLRDEAYYNDDEV 141 D+ K +G +++DEA + ++V Sbjct: 180 DQEVGLKLAATG--AIKDEA-LDLEDV 203 >gnl|CDD|163338 TIGR03588, PseC, UDP-4-keto-6-deoxy-N-acetylglucosamine 4-aminotransferase. This family of enzymes are aminotransferases of the pfam01041 family involved in the biosynthesis of pseudaminic acid. They convert UDP-4-keto-6-deoxy-N-acetylglucosamine into UDP-4-amino-4,6-dideoxy-N-acetylgalactose. Pseudaminic acid has a role in surface polysaccharide in Pseudomonas as well as in the modification of flagellin in Campylobacter and Helicobacter species. Length = 380 Score = 28.4 bits (64), Expect = 4.7 Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 7/57 (12%) Query: 155 NPVQW---MEEEGYFFRLSAYQDKL-LSYYESHPEFILPIERRNEVISFVKSGLKDL 207 + W +E G+ +R++ Q L LS + F+ +R E+ + LKDL Sbjct: 225 DEGPWYYEQQELGFNYRMTDIQAALGLSQLKKLDRFV---AKRREIAARYDRLLKDL 278 >gnl|CDD|177900 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED. Length = 590 Score = 28.1 bits (63), Expect = 4.8 Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 4/30 (13%) Query: 376 MIPTPGAFTESDESILSVCSRVLQEIRENM 405 M P F ESDES+ S VL EIR N+ Sbjct: 423 MTPPDSIFNESDESLRS----VLSEIRLNL 448 >gnl|CDD|147899 pfam05990, DUF900, Alpha/beta hydrolase of unknown function (DUF900). This family consists of several hypothetical proteins of unknown function mostly found in Rhizobium species. Members of this family have an alpha/beta hydrolase fold. Length = 230 Score = 28.1 bits (63), Expect = 4.9 Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 3/37 (8%) Query: 449 YVTVEVIRQLAILLQAFVPKLANKIFD-ILFVADENR 484 ++ +E +RQLAI +A P + KI + IL D + Sbjct: 106 WLVMEALRQLAI--EADEPDVVAKIGNVILAAPDIDV 140 >gnl|CDD|132323 TIGR03280, methan_mark_11, putative methanogenesis marker protein 11. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. Length = 292 Score = 28.2 bits (63), Expect = 5.4 Identities = 9/29 (31%), Positives = 16/29 (55%) Query: 185 EFILPIERRNEVISFVKSGLKDLSLSRKT 213 EF + E + ++ K LK+ +LS +T Sbjct: 194 EFAVYPEYKEKLAREFKKLLKEYTLSDET 222 >gnl|CDD|129509 TIGR00415, serS_MJ, seryl-tRNA synthetase, Methanococcus jannaschii family. The seryl-tRNA synthetases from a few of the Archaea, represented by this model, are very different from the set of mutually more closely related seryl-tRNA synthetases from Eubacteria, Eukaryotes, and other Archaea. Although distantly homologous, the present set differs enough not to be recognized by the pfam model tRNA-synt_2b that recognizes the remainder of seryl-tRNA synthetases among oither class II amino-acyl tRNA synthetases. Length = 520 Score = 28.0 bits (62), Expect = 6.5 Identities = 25/115 (21%), Positives = 47/115 (40%), Gaps = 26/115 (22%) Query: 142 YKGADGQYYNAQHNPVQWMEEEGYFFRLSAYQDKLLS----------YYESHPEFILPIE 191 Y+ +G+ +A+ P+++ + G+ +R A K L + + PE E Sbjct: 321 YQFFEGEVIDAEDKPIKFFDRSGWTYRWEAGGAKGLDRVHEFLRVECVWIAEPEETE--E 378 Query: 192 RRNEVISFVKSGLKDLSLS--------------RKTFDWGIKIPDDPQYIMYVWI 232 R++ + + +L L RK D GI+ PD P+Y M + + Sbjct: 379 IRDKTLELAEDAADELDLEWWTEVGDDPFYLEGRKKEDRGIEFPDVPKYEMRLSL 433 >gnl|CDD|178741 PLN03200, PLN03200, cellulose synthase-interactive protein; Provisional. Length = 2102 Score = 27.8 bits (62), Expect = 6.5 Identities = 14/27 (51%), Positives = 14/27 (51%) Query: 242 TGYLDNPDGSKAKFWPADLHVIGKDIL 268 TG L N GS FW A L G DIL Sbjct: 168 TGALRNLCGSTDGFWSATLEAGGVDIL 194 >gnl|CDD|150150 pfam09381, Porin_OmpG, Outer membrane protein G (OmpG). Porins are channel proteins in the outer membrane of gram negative bacteria which mediate the uptake of molecules required for growth and survival. Escherichia coli OmpG forms a 14 stranded beta-barrel and in contrast to most porins, appears to function as a monomer. The central pore of OmpG is wider than other E. coli porins and it is speculated that it may form a non-specific channel for the transport of larger oligosaccharides. Length = 280 Score = 27.7 bits (61), Expect = 7.0 Identities = 12/32 (37%), Positives = 19/32 (59%) Query: 215 DWGIKIPDDPQYIMYVWIDALTNYLTTTGYLD 246 DW +K+ DD ++ ++ + N L TTGY D Sbjct: 117 DWDVKLTDDLRFNGWLSMYKFANDLNTTGYAD 148 >gnl|CDD|180405 PRK06110, PRK06110, hypothetical protein; Provisional. Length = 322 Score = 27.7 bits (62), Expect = 7.0 Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%) Query: 54 HGQKIAKAAQNAGVTTKVFVDQ-NSR 78 HGQ +A AA+ G+ + V NS Sbjct: 81 HGQSVAFAARRHGLAATIVVPHGNSV 106 >gnl|CDD|178163 PLN02548, PLN02548, adenosine kinase. Length = 332 Score = 27.4 bits (61), Expect = 8.4 Identities = 9/28 (32%), Positives = 17/28 (60%) Query: 50 GTDEHGQKIAKAAQNAGVTTKVFVDQNS 77 G D+ G+++ K A AGV + D+++ Sbjct: 79 GKDKFGEEMKKCATAAGVNVHYYEDEST 106 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.322 0.139 0.422 Gapped Lambda K H 0.267 0.0829 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 8,705,655 Number of extensions: 583510 Number of successful extensions: 1293 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1241 Number of HSP's successfully gapped: 91 Length of query: 511 Length of database: 5,994,473 Length adjustment: 98 Effective length of query: 413 Effective length of database: 3,876,889 Effective search space: 1601155157 Effective search space used: 1601155157 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 59 (26.3 bits)