RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780263|ref|YP_003064676.1| translation elongation factor Tu [Candidatus Liberibacter asiaticus str. psy62] (392 letters) >gnl|CDD|178823 PRK00049, PRK00049, elongation factor Tu; Reviewed. Length = 396 Score = 620 bits (1601), Expect = e-178 Identities = 239/397 (60%), Positives = 295/397 (74%), Gaps = 6/397 (1%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLTAAITKYYSE----EKKEYGDIDSAPEEKLRG 56 M ++++ R K + + TIGHVDHGKTTLTAAITK ++ E K Y ID APEEK RG Sbjct: 1 MAKEKFERTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARG 60 Query: 57 ITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHI 116 ITI TAHV YET+KR Y+H+DCPGHADYVKNMITGA Q DGAILV +A DGP PQTREHI Sbjct: 61 ITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHI 120 Query: 117 LLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKY-SDDTPIIRGSALCALQ 175 LLARQ+G+ IVV++NK D VDD+ELL++ E E+R+LL ++ + DDTPIIRGSAL AL+ Sbjct: 121 LLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALE 180 Query: 176 GTNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIK 235 G + E E I LM AVD++IPTP+R++D PFLM IE I GRGTVVTG ++RG IK Sbjct: 181 GDDDEEWEKKILELMDAVDSYIPTPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIIK 240 Query: 236 AGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGVNRADVPRGRVVCAPG 295 G +VEI+G+ + K T VEMFRK LDE AGDNVG LLRG+ R DV RG+V+ PG Sbjct: 241 VGEEVEIVGIRDTQ-KTTVTGVEMFRKLLDEGQAGDNVGALLRGIKREDVERGQVLAKPG 299 Query: 296 SIQEYSRFRASVYILTASEGGRTTGFMDNYRPQFFMDTADVTGRIILSPGSQAVMPGDRV 355 SI +++F A VY+L+ EGGR T F + YRPQF+ T DVTG I L G + VMPGD V Sbjct: 300 SITPHTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDVTGVIELPEGVEMVMPGDNV 359 Query: 356 DLEVELIYPIAMEPNQTFSMREGGKTVGAGLILEIIE 392 ++ VELI PIAME F++REGG+TVGAG++ +IIE Sbjct: 360 EMTVELIAPIAMEEGLRFAIREGGRTVGAGVVTKIIE 396 >gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed. Length = 396 Score = 611 bits (1578), Expect = e-175 Identities = 235/397 (59%), Positives = 293/397 (73%), Gaps = 6/397 (1%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLTAAITKYYSE----EKKEYGDIDSAPEEKLRG 56 M ++++ R K + + TIGHVDHGKTTLTAAITK ++ E K Y ID+APEEK RG Sbjct: 1 MAKEKFERTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARG 60 Query: 57 ITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHI 116 ITI T+HV YET R Y+H+DCPGHADYVKNMITGA Q DGAILV +A DGP PQTREHI Sbjct: 61 ITINTSHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHI 120 Query: 117 LLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKY-SDDTPIIRGSALCALQ 175 LLARQ+G+ IVV++NK D VDD+ELL++ E E+R+LL ++ + DDTPIIRGSAL AL+ Sbjct: 121 LLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALE 180 Query: 176 GTNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIK 235 G + E E I LM AVD++IP P+R++D PFLM IE I GRGTVVTG ++RG +K Sbjct: 181 GDDDEEWEAKILELMDAVDSYIPEPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIVK 240 Query: 236 AGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGVNRADVPRGRVVCAPG 295 G +VEI+G+ + K T VEMFRK LDE AGDNVG+LLRG R DV RG+V+ PG Sbjct: 241 VGDEVEIVGIKETQ-KTTVTGVEMFRKLLDEGQAGDNVGVLLRGTKREDVERGQVLAKPG 299 Query: 296 SIQEYSRFRASVYILTASEGGRTTGFMDNYRPQFFMDTADVTGRIILSPGSQAVMPGDRV 355 SI+ +++F A VY+L+ EGGR T F + YRPQF+ T DVTG I L G + VMPGD V Sbjct: 300 SIKPHTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNV 359 Query: 356 DLEVELIYPIAMEPNQTFSMREGGKTVGAGLILEIIE 392 + VELI PIAME F++REGG+TVGAG++ +IIE Sbjct: 360 KMTVELIAPIAMEEGLRFAIREGGRTVGAGVVAKIIE 396 >gnl|CDD|183709 PRK12736, PRK12736, elongation factor Tu; Reviewed. Length = 394 Score = 596 bits (1540), Expect = e-171 Identities = 240/397 (60%), Positives = 301/397 (75%), Gaps = 8/397 (2%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLTAAITKYYSE----EKKEYGDIDSAPEEKLRG 56 M ++++ R+K + + TIGHVDHGKTTLTAAITK +E + K+Y ID+APEEK RG Sbjct: 1 MAKEKFDRSKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERG 60 Query: 57 ITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHI 116 ITI TAHV YET+KR Y+H+DCPGHADYVKNMITGA Q DGAILV AA DGP PQTREHI Sbjct: 61 ITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHI 120 Query: 117 LLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKY-SDDTPIIRGSALCALQ 175 LLARQ+G+ +VV++NKVD VDD+ELL++ E E+R+LL E+ + DD P+IRGSAL AL+ Sbjct: 121 LLARQVGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSALKALE 180 Query: 176 GTNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIK 235 G K ED+I LM AVD +IPTP+R D PFLM +E I GRGTVVTG ++RG +K Sbjct: 181 GDPKW--EDAIMELMDAVDEYIPTPERDTDKPFLMPVEDVFTITGRGTVVTGRVERGTVK 238 Query: 236 AGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGVNRADVPRGRVVCAPG 295 G +VEI+G+ + K T VEMFRK LDE AGDNVG+LLRGV+R +V RG+V+ PG Sbjct: 239 VGDEVEIVGIKETQ-KTVVTGVEMFRKLLDEGQAGDNVGVLLRGVDRDEVERGQVLAKPG 297 Query: 296 SIQEYSRFRASVYILTASEGGRTTGFMDNYRPQFFMDTADVTGRIILSPGSQAVMPGDRV 355 SI+ +++F+A VYILT EGGR T F +NYRPQF+ T DVTG I L G++ VMPGD V Sbjct: 298 SIKPHTKFKAEVYILTKEEGGRHTPFFNNYRPQFYFRTTDVTGSIELPEGTEMVMPGDNV 357 Query: 356 DLEVELIYPIAMEPNQTFSMREGGKTVGAGLILEIIE 392 + VELI+PIAME F++REGG+TVGAG + EI++ Sbjct: 358 TITVELIHPIAMEQGLKFAIREGGRTVGAGTVTEILD 394 >gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional. Length = 447 Score = 554 bits (1428), Expect = e-158 Identities = 237/393 (60%), Positives = 296/393 (75%), Gaps = 6/393 (1%) Query: 6 YVRNKESLGLSTIGHVDHGKTTLTAAITKYYSEEKKE----YGDIDSAPEEKLRGITIAT 61 + R K + + TIGHVDHGKTTLTAAITK +EE K + +ID APEEK RGITIAT Sbjct: 55 FTRTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIAT 114 Query: 62 AHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQ 121 AHV YET KR Y+H+DCPGHADYVKNMITGA Q DG ILV +A DGP PQT+EHILLARQ Sbjct: 115 AHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQ 174 Query: 122 IGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKY-SDDTPIIRGSALCALQGTNKE 180 +G+ S+VV++NKVD VDD+ELL++ E E+R+LL +K+ D+ PIIRGSAL ALQGTN E Sbjct: 175 VGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDE 234 Query: 181 LGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDV 240 +G+++I LM AVD +IP P R LD PFLM IE I+GRGTV TG +++G IK G +V Sbjct: 235 IGKNAILKLMDAVDEYIPEPVRVLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEV 294 Query: 241 EIIGMG-GKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGVNRADVPRGRVVCAPGSIQE 299 EI+G+ G LK T VEMF+K LD+ AGDNVGLLLRG+ R DV RG+V+C PGSI+ Sbjct: 295 EIVGLRPGGPLKTTVTGVEMFKKILDQGQAGDNVGLLLRGLKREDVQRGQVICKPGSIKT 354 Query: 300 YSRFRASVYILTASEGGRTTGFMDNYRPQFFMDTADVTGRIILSPGSQAVMPGDRVDLEV 359 Y +F A +Y+LT EGGR T F NYRPQF++ TADVTG++ L G + VMPGD V Sbjct: 355 YKKFEAEIYVLTKDEGGRHTPFFSNYRPQFYLRTADVTGKVELPEGVKMVMPGDNVTAVF 414 Query: 360 ELIYPIAMEPNQTFSMREGGKTVGAGLILEIIE 392 ELI P+ +EP Q F++REGG+TVGAG++ +++ Sbjct: 415 ELISPVPLEPGQRFALREGGRTVGAGVVSKVLS 447 >gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation. Length = 394 Score = 527 bits (1358), Expect = e-150 Identities = 233/397 (58%), Positives = 289/397 (72%), Gaps = 8/397 (2%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLTAAITKYYSEE----KKEYGDIDSAPEEKLRG 56 M ++++ R K + + TIGHVDHGKTTLTAAIT ++E + Y ID+APEEK RG Sbjct: 1 MAKEKFERTKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARG 60 Query: 57 ITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHI 116 ITI TAHV YET+ R Y+H+DCPGHADYVKNMITGA Q DGAILV +A DGP PQTREHI Sbjct: 61 ITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHI 120 Query: 117 LLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKY-SDDTPIIRGSALCALQ 175 LLARQ+G+ IVV++NK D VDD+ELL++ E E+R+LL E+ + DDTPIIRGSAL AL+ Sbjct: 121 LLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGSALKALE 180 Query: 176 GTNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIK 235 G + E I LM AVD +IPTP+R D PFLM IE I GRGTVVTG ++RG +K Sbjct: 181 GDAE--WEAKILELMDAVDEYIPTPERETDKPFLMPIEDVFSITGRGTVVTGRVERGIVK 238 Query: 236 AGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGVNRADVPRGRVVCAPG 295 G +VEI+G+ + K T VEMFRK+LDE AGDNVGLLLRG+ R ++ RG V+ PG Sbjct: 239 VGEEVEIVGLKDTR-KTTVTGVEMFRKELDEGRAGDNVGLLLRGIKREEIERGMVLAKPG 297 Query: 296 SIQEYSRFRASVYILTASEGGRTTGFMDNYRPQFFMDTADVTGRIILSPGSQAVMPGDRV 355 SI+ +++F A VY+L EGGR T F YRPQF+ T DVTG I L G + VMPGD V Sbjct: 298 SIKPHTKFEAEVYVLKKEEGGRHTPFFSGYRPQFYFRTTDVTGSITLPEGVEMVMPGDNV 357 Query: 356 DLEVELIYPIAMEPNQTFSMREGGKTVGAGLILEIIE 392 + VELI PIA+E F++REGG+TVGAG++ +IIE Sbjct: 358 KMTVELISPIALEQGMRFAIREGGRTVGAGVVSKIIE 394 >gnl|CDD|178672 PLN03126, PLN03126, Elongation factor Tu; Provisional. Length = 478 Score = 452 bits (1163), Expect = e-128 Identities = 219/406 (53%), Positives = 283/406 (69%), Gaps = 19/406 (4%) Query: 5 RYVRNKESLGLSTIGHVDHGKTTLTAAITKYY----SEEKKEYGDIDSAPEEKLRGITIA 60 ++ R K + + TIGHVDHGKTTLTAA+T K+Y +ID+APEE+ RGITI Sbjct: 74 KFERKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITIN 133 Query: 61 TAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLAR 120 TA V YET+ R Y+H+DCPGHADYVKNMITGA Q DGAILV + DGP PQT+EHILLA+ Sbjct: 134 TATVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAK 193 Query: 121 QIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKY-SDDTPIIRGSALCALQG--T 177 Q+G+ ++VV++NK D VDD+ELL++ E E+R+LL +++ DD PII GSAL AL+ Sbjct: 194 QVGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSALLALEALME 253 Query: 178 NKEL--GE----DSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKR 231 N + G+ D I+ LM AVD++IP PQR D PFL+ +E I GRGTV TG ++R Sbjct: 254 NPNIKRGDNKWVDKIYELMDAVDSYIPIPQRQTDLPFLLAVEDVFSITGRGTVATGRVER 313 Query: 232 GRIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGVNRADVPRGRVV 291 G +K G V+I+G+ + T VEMF+K LDEA+AGDNVGLLLRG+ +AD+ RG V+ Sbjct: 314 GTVKVGETVDIVGLRETR-STTVTGVEMFQKILDEALAGDNVGLLLRGIQKADIQRGMVL 372 Query: 292 CAPGSIQEYSRFRASVYILTASEGGRTTGFMDNYRPQFFMDTADVTGRIILSPG-----S 346 PGSI +++F A VY+L EGGR + F YRPQF+M T DVTG++ S Sbjct: 373 AKPGSITPHTKFEAIVYVLKKEEGGRHSPFFAGYRPQFYMRTTDVTGKVTSIMNDKDEES 432 Query: 347 QAVMPGDRVDLEVELIYPIAMEPNQTFSMREGGKTVGAGLILEIIE 392 + VMPGDRV + VELI P+A E F++REGGKTVGAG+I IIE Sbjct: 433 KMVMPGDRVKMVVELIVPVACEQGMRFAIREGGKTVGAGVIQSIIE 478 >gnl|CDD|183433 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed. Length = 425 Score = 235 bits (602), Expect = 1e-62 Identities = 151/440 (34%), Positives = 224/440 (50%), Gaps = 82/440 (18%) Query: 10 KESLGLSTIGHVDHGKTTLT-----------AAITKYYSEEKKEYGD--------IDSAP 50 K L L+ IGHVDHGK+TL I + EE KE G +D Sbjct: 4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLK 63 Query: 51 EEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAED--GP 108 EE+ RG+TI AH +ETDK +++ +DCPGH D+VKNMITGA+QAD A+LV AA+D G Sbjct: 64 EERERGVTIDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGV 123 Query: 109 KPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEY-----EIRDLLKEHKY-SDD 162 PQTREH+ LAR +GI+ ++V +NK+DAV+ DE Y E+ LLK Y DD Sbjct: 124 MPQTREHVFLARTLGINQLIVAINKMDAVNYDE----KRYEEVKEEVSKLLKMVGYKPDD 179 Query: 163 TPIIRGSALCALQGTNKELGEDSIH-------ALMKAVDTHIPTPQRSLDAPFLMHIEGS 215 P I S A +G N + + S + L++A+D + P++ D P + I+ Sbjct: 180 IPFIPVS---AFEGDN--VVKKSENMPWYNGPTLLEALDN-LKPPEKPTDKPLRIPIQDV 233 Query: 216 CGIEGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGL 275 I G GTV G ++ G +K G V + G +VK +EM ++L +A GDN+G Sbjct: 234 YSISGVGTVPVGRVETGVLKVGDKV-VFMPAGVVGEVK--SIEMHHEELPQAEPGDNIGF 290 Query: 276 LLRGVNRADVPRGRVVCA---PGSIQEYSRFRASVYIL---TASEGGRTTGFMDNYRPQF 329 +RGV + D+ RG V P ++ E F A + +L +A G Y P F Sbjct: 291 NVRGVGKKDIKRGDVCGHPDNPPTVAE--EFTAQIVVLQHPSAITVG--------YTPVF 340 Query: 330 FMDTADVTGRII-----LSPGS--------QAVMPGDRVDLEVELIYPIAMEPNQ----- 371 TA V L P + Q + GD ++++ P+ +E + Sbjct: 341 HAHTAQVACTFEELVKKLDPRTGQVAEENPQFIKTGDAAIVKIKPTKPLVIEKVKEIPQL 400 Query: 372 -TFSMREGGKTVGAGLILEI 390 F++R+ G+T+ AG+++++ Sbjct: 401 GRFAIRDMGQTIAAGMVIDV 420 >gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels. Length = 426 Score = 189 bits (481), Expect = 1e-48 Identities = 141/432 (32%), Positives = 226/432 (52%), Gaps = 61/432 (14%) Query: 8 RNKESLGLSTIGHVDHGKTTLTA-------AITKYYSEE-KKEYGD-----------IDS 48 + KE + ++ IGHVDHGK+T AI + E+ +KE + +D Sbjct: 3 KEKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDR 62 Query: 49 APEEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGP 108 EE+ RG+TI AH +ETDK + +DCPGH D++KNMITGA+QAD A+LV A DG Sbjct: 63 LKEERERGVTIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGE 122 Query: 109 ---KPQTREHILLARQIGISSIVVYMNKVDAVD-DDELLDISEYEIRDLLKEHKYS-DDT 163 +PQTREH LAR +GI+ ++V +NK+D+V+ D+E + + E+ +L+K+ Y+ D Sbjct: 123 FEVQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTV 182 Query: 164 PIIRGSALCALQGTNKELGEDSI-----HALMKAVDTHIPTPQRSLDAPFLMHIEGSCGI 218 P I + A G N ++ L++A+D + P++ D P + I+ I Sbjct: 183 PFI---PISAWNGDNVIKKSENTPWYKGKTLLEALDA-LEPPEKPTDKPLRIPIQDVYSI 238 Query: 219 EGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLR 278 G GTV G ++ G +K G D + G +VK +EM +++++A GDN+G +R Sbjct: 239 TGVGTVPVGRVETGVLKPG-DKVVFEPAGVSGEVK--SIEMHHEQIEQAEPGDNIGFNVR 295 Query: 279 GVNRADVPRGRVVCAPGSIQEYSR-FRASVYILTASEGGRTTGFMDNYRPQFFMDTADVT 337 GV++ D+ RG V P + + ++ F A + +L G T G Y P F TA + Sbjct: 296 GVSKKDIRRGDVCGHPDNPPKVAKEFTAQIVVLQ-HPGAITVG----YTPVFHCHTAQIA 350 Query: 338 GRII-----LSPGSQAVM--------PGDRVDLEVELIYPIAME------PNQTFSMREG 378 R P + V+ GD ++ + P+ +E P F++R+ Sbjct: 351 CRFDELLKKNDPRTGQVLEENPQFLKTGDAAIVKFKPTKPMVIEAVKEIPPLGRFAIRDM 410 Query: 379 GKTVGAGLILEI 390 G+TV AG+I+++ Sbjct: 411 GQTVAAGMIIDV 422 >gnl|CDD|129567 TIGR00475, selB, selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes. Length = 581 Score = 160 bits (407), Expect = 4e-40 Identities = 81/280 (28%), Positives = 136/280 (48%), Gaps = 26/280 (9%) Query: 17 TIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYETDKRFYSHI 76 T GHVDHGKTTL A+T D PEEK RG+TI + I Sbjct: 5 TAGHVDHGKTTLLKALTGI---------AADRLPEEKKRGMTIDLGFAYFPLPDYRLGFI 55 Query: 77 DCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNKVDA 136 D PGH ++ N I G D A+LV A++G QT EH+ + +GI +V + K D Sbjct: 56 DVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADR 115 Query: 137 VDDDELLDISEYEIRDLLKEHKYSDDTPIIRGSALCALQGTNKELGE--DSIHALMKAVD 194 V ++E + +E ++ +L + + + I + SA T + +GE + L++++D Sbjct: 116 V-NEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAK-----TGQGIGELKKELKNLLESLD 169 Query: 195 THIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKC 254 + + P M I+ + ++G GTVVTG G +K G ++ ++ + +++VK Sbjct: 170 I------KRIQKPLRMAIDRAFKVKGAGTVVTGTAFSGEVKVGDNLRLLPI-NHEVRVK- 221 Query: 255 TDVEMFRKKLDEAIAGDNVGLLLRGVNRADVPRGRVVCAP 294 ++ + ++ A AG + L L V + RG ++ P Sbjct: 222 -AIQAQNQDVEIAYAGQRIALNLMDVEPESLKRGLLILTP 260 >gnl|CDD|185474 PTZ00141, PTZ00141, elongation factor 1- alpha; Provisional. Length = 446 Score = 156 bits (397), Expect = 7e-39 Identities = 114/342 (33%), Positives = 170/342 (49%), Gaps = 48/342 (14%) Query: 8 RNKESLGLSTIGHVDHGKTTLTAAIT-----------KYYSEEKKEYGD--------IDS 48 + K + L IGHVD GK+T T + + + +E E G +D Sbjct: 3 KEKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDK 62 Query: 49 APEEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDG- 107 E+ RGITI A +ET K +++ ID PGH D++KNMITG +QAD AILV A+ G Sbjct: 63 LKAERERGITIDIALWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGE 122 Query: 108 ------PKPQTREHILLARQIGISSIVVYMNKVD--AVD-DDELLDISEYEIRDLLKEHK 158 QTREH LLA +G+ ++V +NK+D V+ E D + E+ LK+ Sbjct: 123 FEAGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVG 182 Query: 159 YS-DDTPIIRGSALCALQGTNKELGEDSIH-------ALMKAVDTHIPTPQRSLDAPFLM 210 Y+ + P I + QG N + E S + L++A+DT P P+R +D P + Sbjct: 183 YNPEKVPFI---PISGWQGDN--MIEKSDNMPWYKGPTLLEALDTLEP-PKRPVDKPLRL 236 Query: 211 HIEGSCGIEGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAG 270 ++ I G GTV G ++ G +K G V G + + VEM ++L EA+ G Sbjct: 237 PLQDVYKIGGIGTVPVGRVETGILKPGMVVTFAPSG---VTTEVKSVEMHHEQLAEAVPG 293 Query: 271 DNVGLLLRGVNRADVPRGRVVCAPGS--IQEYSRFRASVYIL 310 DNVG ++ V+ D+ RG V + +E + F A V +L Sbjct: 294 DNVGFNVKNVSVKDIKRGYVASDSKNDPAKECADFTAQVIVL 335 >gnl|CDD|179703 PRK04000, PRK04000, translation initiation factor IF-2 subunit gamma; Validated. Length = 411 Score = 153 bits (388), Expect = 1e-37 Identities = 108/335 (32%), Positives = 158/335 (47%), Gaps = 82/335 (24%) Query: 16 STIGHVDHGKTTLTAAI----TKYYSEEKKEYGDIDSAPEEKLRGITI----ATAHVS-- 65 +GHVDHGKTTL A+ T +SEE K RGITI A A + Sbjct: 13 GMVGHVDHGKTTLVQALTGVWTDRHSEELK-------------RGITIRLGYADATIRKC 59 Query: 66 --------YETDK------------RFYSHIDCPGHADYVKNMITGATQADGAILVCAA- 104 Y T+ R S +D PGH + M++GA DGAILV AA Sbjct: 60 PDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGAILVIAAN 119 Query: 105 EDGPKPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYSDDTP 164 E P+PQT+EH++ IGI +IV+ NK+D V + L+ + +I++ +K +++ P Sbjct: 120 EPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKERALE-NYEQIKEFVKG-TVAENAP 177 Query: 165 IIRGSALCALQGTNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGT- 223 II S AL N I AL++A++ IPTP+R LD P M++ S + GT Sbjct: 178 IIPVS---ALHKVN-------IDALIEAIEEEIPTPERDLDKPPRMYVARSFDVNKPGTP 227 Query: 224 -------VVTGCIKRGRIKAGSDVEI-----IGMGGKK----LKVKCTDVEMFRKKLDEA 267 V+ G + +G +K G ++EI + GGK + K + +K++EA Sbjct: 228 PEKLKGGVIGGSLIQGVLKVGDEIEIRPGIKVEEGGKTKWEPITTKIVSLRAGGEKVEEA 287 Query: 268 IAGDNVGLLLRG------VNRADVPRGRVVCAPGS 296 G GL+ G + +AD G V PG+ Sbjct: 288 RPG---GLVGVGTKLDPSLTKADALAGSVAGKPGT 319 >gnl|CDD|163393 TIGR03680, eif2g_arch, translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. Length = 406 Score = 148 bits (376), Expect = 2e-36 Identities = 109/330 (33%), Positives = 165/330 (50%), Gaps = 68/330 (20%) Query: 15 LSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITI------ATAHVSYET 68 + +GHVDHGKTTLT A+T ++ D+ EE RGI+I A + E Sbjct: 7 IGMVGHVDHGKTTLTKALTGVWT---------DTHSEELKRGISIRLGYADAEIYKCPEC 57 Query: 69 DK--------------------RFYSHIDCPGHADYVKNMITGATQADGAILVCAA-EDG 107 D R S +D PGH + M++GA DGA+LV AA E Sbjct: 58 DGPECYTTEPVCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPC 117 Query: 108 PKPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYSDDTPIIR 167 P+PQT+EH++ IGI +IV+ NK+D V ++ L+ E EI++ +K +++ PII Sbjct: 118 PQPQTKEHLMALEIIGIKNIVIVQNKIDLVSKEKALENYE-EIKEFVKG-TVAENAPIIP 175 Query: 168 GSALCALQGTNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGT---- 223 S AL N I AL++A++ IPTP+R LD P LM++ S + GT Sbjct: 176 VS---ALHNAN-------IDALLEAIEKFIPTPERDLDKPPLMYVARSFDVNKPGTPPEK 225 Query: 224 ----VVTGCIKRGRIKAGSDVEI-----IGMGGK----KLKVKCTDVEMFRKKLDEAIAG 270 V+ G + +G++K G ++EI + GGK + + T + K++EA G Sbjct: 226 LKGGVIGGSLIQGKLKVGDEIEIRPGIKVEKGGKTKWEPIYTEITSLRAGGYKVEEARPG 285 Query: 271 DNVGL---LLRGVNRADVPRGRVVCAPGSI 297 VG+ L + +AD G+VV PG++ Sbjct: 286 GLVGVGTKLDPALTKADALAGQVVGKPGTL 315 >gnl|CDD|162336 TIGR01394, TypA_BipA, GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown. Length = 594 Score = 122 bits (307), Expect = 2e-28 Identities = 86/274 (31%), Positives = 129/274 (47%), Gaps = 32/274 (11%) Query: 18 IGHVDHGKTTLTAAITKYYSEEKKEYGDI-----DSAPEEKLRGITIATAHVSYETDKRF 72 I HVDHGKTTL A+ K S + + DS E+ RGITI + + + Sbjct: 7 IAHVDHGKTTLVDALLKQ-SGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTK 65 Query: 73 YSHIDCPGHADY------VKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISS 126 + +D PGHAD+ V M+ DG +L+ A +GP PQTR + A ++G+ Sbjct: 66 INIVDTPGHADFGGEVERVLGMV------DGVLLLVDASEGPMPQTRFVLKKALELGLKP 119 Query: 127 IVVYMNKVD--AVDDDELLDISEYEIRDLLKEHKYSD---DTPIIRGSALCALQGTNKEL 181 IVV +NK+D + DE++D E+ DL E D D PI+ S + + Sbjct: 120 IVV-INKIDRPSARPDEVVD----EVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDD 174 Query: 182 GEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDVE 241 D++ L A+ H+P P+ LD P M + E G + G + RG +K G V Sbjct: 175 PSDNMAPLFDAIVRHVPAPKGDLDEPLQMLVTNLDYDEYLGRIAIGRVHRGTVKKGQQVA 234 Query: 242 IIGMGGKKLKVKCTDVEMF----RKKLDEAIAGD 271 ++ G + + + F R ++DEA AGD Sbjct: 235 LMKRDGTIENGRISKLLGFEGLERVEIDEAGAGD 268 >gnl|CDD|165621 PLN00043, PLN00043, elongation factor 1-alpha; Provisional. Length = 447 Score = 120 bits (303), Expect = 4e-28 Identities = 106/342 (30%), Positives = 157/342 (45%), Gaps = 48/342 (14%) Query: 8 RNKESLGLSTIGHVDHGKTTLTA-----------AITKYYSEEKKEYGD--------IDS 48 + K + + IGHVD GK+T T + + + +E E +D Sbjct: 3 KEKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDK 62 Query: 49 APEEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDG- 107 E+ RGITI A +ET K + + ID PGH D++KNMITG +QAD A+L+ + G Sbjct: 63 LKAERERGITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGG 122 Query: 108 ------PKPQTREHILLARQIGISSIVVYMNKVDAVD---DDELLDISEYEIRDLLKEHK 158 QTREH LLA +G+ ++ NK+DA D E+ LK+ Sbjct: 123 FEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVG 182 Query: 159 YS-DDTPIIRGSALCALQGTNKELGEDSIH-------ALMKAVDTHIPTPQRSLDAPFLM 210 Y+ D P + + +G N + E S + L++A+D I P+R D P + Sbjct: 183 YNPDKIPFV---PISGFEGDN--MIERSTNLDWYKGPTLLEALD-QINEPKRPSDKPLRL 236 Query: 211 HIEGSCGIEGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAG 270 ++ I G GTV G ++ G IK G V G L + VEM + L EA+ G Sbjct: 237 PLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFGPTG---LTTEVKSVEMHHESLQEALPG 293 Query: 271 DNVGLLLRGVNRADVPRGRVVCAPGS--IQEYSRFRASVYIL 310 DNVG ++ V D+ RG V +E + F + V I+ Sbjct: 294 DNVGFNVKNVAVKDLKRGYVASNSKDDPAKEAANFTSQVIIM 335 >gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation factor; Provisional. Length = 614 Score = 120 bits (302), Expect = 8e-28 Identities = 79/276 (28%), Positives = 134/276 (48%), Gaps = 27/276 (9%) Query: 15 LSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSY-ETDKRFY 73 ++T GHVDHGKTTL AIT + D PEEK RG+TI + + + D R Sbjct: 3 IATAGHVDHGKTTLLQAITGV---------NADRLPEEKKRGMTIDLGYAYWPQPDGRVL 53 Query: 74 SHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNK 133 ID PGH ++ NM+ G D A+LV A +DG QTREH+ + + G + V + K Sbjct: 54 GFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTK 113 Query: 134 VDAVDDDELLDISEYEIRDLLKEHKYSDDTPIIRGSALCALQGTNKELGEDSIHALMKAV 193 D VD+ + ++ +++ +L+E+ ++ + + +A I AL + Sbjct: 114 ADRVDEARIAEVRR-QVKAVLREYGFA-EAKLFVTAATEGR----------GIDAL-REH 160 Query: 194 DTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVK 253 +P + + F + I+ + ++G G VVTG G +K G + + G K ++V+ Sbjct: 161 LLQLPEREHAAQHRFRLAIDRAFTVKGAGLVVTGTALSGEVKVGDTLWLTG-VNKPMRVR 219 Query: 254 CTDVEMFRKKLDEAIAGDNVGLLLRG-VNRADVPRG 288 + + ++A AG + L + G + + RG Sbjct: 220 GLHAQ--NQPTEQAQAGQRIALNIAGDAEKEQINRG 253 >gnl|CDD|185557 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2 gamma subunit; Provisional. Length = 460 Score = 110 bits (276), Expect = 8e-25 Identities = 100/338 (29%), Positives = 149/338 (44%), Gaps = 76/338 (22%) Query: 17 TIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITI----ATAHV-------- 64 TIGHV HGK+T+ A++ + K EK+R ITI A A + Sbjct: 39 TIGHVAHGKSTVVKALSGVKTVRFKR---------EKVRNITIKLGYANAKIYKCPKCPR 89 Query: 65 -----SYETDK----------------RFYSHIDCPGHADYVKNMITGATQADGAILVCA 103 SY + K R S +DCPGH + M+ GA D A+L+ A Sbjct: 90 PTCYQSYGSSKPDNPPCPGCGHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIA 149 Query: 104 A-EDGPKPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYSDD 162 A E P+PQT EH+ + + I++ NK+D V + + D E EIR+ +K +D+ Sbjct: 150 ANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEAQAQDQYE-EIRNFVKG-TIADN 207 Query: 163 TPIIRGSALCALQGTNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGS------- 215 PII + A N I +++ + T IP P+R L +P M + S Sbjct: 208 APII---PISAQLKYN-------IDVVLEYICTQIPIPKRDLTSPPRMIVIRSFDVNKPG 257 Query: 216 CGIEG-RGTVVTGCIKRGRIKAGSDVEII-GMGGKKL--KVKCTD-----VEMFRKK--L 264 IE +G V G I +G +K G ++EI G+ K + C V +F + L Sbjct: 258 EDIENLKGGVAGGSILQGVLKVGDEIEIRPGIISKDSGGEFTCRPIRTRIVSLFAENNEL 317 Query: 265 DEAIAGD--NVGLLLR-GVNRADVPRGRVVCAPGSIQE 299 A+ G VG + + RAD G+V+ PG + E Sbjct: 318 QYAVPGGLIGVGTTIDPTLTRADRLVGQVLGYPGKLPE 355 >gnl|CDD|104396 PRK10218, PRK10218, GTP-binding protein; Provisional. Length = 607 Score = 103 bits (257), Expect = 1e-22 Identities = 95/298 (31%), Positives = 141/298 (47%), Gaps = 24/298 (8%) Query: 15 LSTIGHVDHGKTTLTAAITK----YYSEEKKEYGDIDSAPEEKLRGITIATAHVSYETDK 70 ++ I HVDHGKTTL + + + S + + +DS EK RGITI + + + + Sbjct: 8 IAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWND 67 Query: 71 RFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVY 130 + +D PGHAD+ + + D +LV A DGP PQTR A G+ IVV Sbjct: 68 YRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPIVV- 126 Query: 131 MNKVD--AVDDDELLDISEYEIRDLLKEHKYSD---DTPIIRGSALCALQGTNKELGEDS 185 +NKVD D ++D ++ DL +D D PI+ SAL + G + E + Sbjct: 127 INKVDRPGARPDWVVD----QVFDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAED 182 Query: 186 IHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDVEIIGM 245 + L +A+ H+P P LD PF M I G + G IKRG++K V II Sbjct: 183 MTPLYQAIVDHVPAPDVDLDGPFQMQISQLDYNSYVGVIGIGRIKRGKVKPNQQVTIIDS 242 Query: 246 GGK----KLKVKCTDVEMFRKKLDEAIAGDNVGLLLRG-VNRADVPRGRVVCAPGSIQ 298 GK K+ + + R + D A AGD V + G +N +D VC +++ Sbjct: 243 EGKTRNAKVGKVLGHLGLERIETDLAEAGDIVAITGLGELNISD-----TVCDTQNVE 295 >gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional. Length = 632 Score = 98.8 bits (247), Expect = 2e-21 Identities = 91/315 (28%), Positives = 141/315 (44%), Gaps = 39/315 (12%) Query: 9 NKESLGLSTIGHVDHGKTTLT---------------AAITKYYSEEKKEYGDIDSA---- 49 K L T G VD GK+TL AA+ + + + +ID A Sbjct: 21 RKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVD 80 Query: 50 --PEEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDG 107 E+ +GITI A+ + T KR + D PGH Y +NM+TGA+ AD AI++ A G Sbjct: 81 GLAAEREQGITIDVAYRYFATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKG 140 Query: 108 PKPQTREHILLARQIGISSIVVYMNKVDAVD-DDELLDISEYEIRDLLKEHKYSDDTPII 166 QTR H +A +GI +V+ +NK+D VD D E+ D + R + D T I Sbjct: 141 VLTQTRRHSFIASLLGIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFI- 199 Query: 167 RGSALCALQGTNKELGEDSIH-----ALMKAVDT-HIPTPQRSLDAPFLMHIEGSCGIEG 220 + AL+G N + +L++ ++T I + + D F + ++ Sbjct: 200 ---PISALKGDNVVTRSARMPWYEGPSLLEHLETVEIASDRNLKDFRFPVQYVNRPNLDF 256 Query: 221 RGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGV 280 RG G + G ++ G +V ++ GK +VK + LDEA AG V L L Sbjct: 257 RG--FAGTVASGVVRPGDEVVVLP-SGKTSRVK--RIVTPDGDLDEAFAGQAVTLTLA-- 309 Query: 281 NRADVPRGRVVCAPG 295 + D+ RG ++ Sbjct: 310 DEIDISRGDMLARAD 324 >gnl|CDD|131089 TIGR02034, CysN, sulfate adenylyltransferase, large subunit. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase). Length = 406 Score = 97.8 bits (244), Expect = 4e-21 Identities = 93/320 (29%), Positives = 149/320 (46%), Gaps = 43/320 (13%) Query: 13 LGLSTIGHVDHGKTTLT---------------AAITKYYSEEKKEYGDIDSA------PE 51 L T G VD GK+TL AA+ + + + G+ID A Sbjct: 1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQA 60 Query: 52 EKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQ 111 E+ +GITI A+ + TDKR + D PGH Y +NM TGA+ AD A+L+ A G Q Sbjct: 61 EREQGITIDVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQ 120 Query: 112 TREHILLARQIGISSIVVYMNKVDAVDDDELL--DISEYEIRDLLKEHKYSDDTPIIRGS 169 TR H +A +GI +V+ +NK+D VD DE + +I + + ++ + D T I Sbjct: 121 TRRHSYIASLLGIRHVVLAVNKMDLVDYDEEVFENIKK-DYLAFAEQLGFRDVTFI---- 175 Query: 170 ALCALQGTNKELGEDSIH-----ALMKAVDTHIPTPQRSLDAPFLMHIE--GSCGIEGRG 222 L AL+G N +S+ L++ ++T + + + D P ++ ++ RG Sbjct: 176 PLSALKGDNVVSRSESMPWYSGPTLLEILET-VEVERDAQDLPLRFPVQYVNRPNLDFRG 234 Query: 223 TVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIAGDNVGLLLRGVNR 282 G I G + G +V ++ G+ +V + F L++A AG V L L + Sbjct: 235 --YAGTIASGSVHVGDEVVVLP-SGRSSRV--ARIVTFDGDLEQARAGQAVTLTLD--DE 287 Query: 283 ADVPRGRVVCAPGSIQEYSR 302 D+ RG ++ A S E + Sbjct: 288 IDISRGDLLAAADSAPEVAD 307 >gnl|CDD|179943 PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional. Length = 474 Score = 83.0 bits (206), Expect = 1e-16 Identities = 96/327 (29%), Positives = 146/327 (44%), Gaps = 58/327 (17%) Query: 8 RNKESLGLSTIGHVDHGKTTL-------TAAI-----TKYYSEEKK-----EYGD----I 46 ++K L T G VD GK+TL T I +++ K+ E D + Sbjct: 23 QHKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLV 82 Query: 47 DSAPEEKLRGITIATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAED 106 D E+ +GITI A+ + T+KR + D PGH Y +NM TGA+ D AIL+ A Sbjct: 83 DGLQAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARK 142 Query: 107 GPKPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIR-DLLKEHKYSDDTPI 165 G QTR H +A +GI +VV +NK+D VD E ++ E IR D L + Sbjct: 143 GVLDQTRRHSFIATLLGIKHLVVAVNKMDLVDYSE--EVFE-RIREDYLTFAEQLPGNLD 199 Query: 166 IRGSALCALQGTNKELGEDSI-----HALMKAVDTHIPTPQRSLDAPFLMHIE------- 213 IR L AL+G N +S+ L++ ++T + + PF ++ Sbjct: 200 IRFVPLSALEGDNVVSQSESMPWYSGPTLLEVLET-VDIQRVVDAQPFRFPVQYVNRPNL 258 Query: 214 ---GSCGIEGRGTVVTGCIKRG-RIKAGSDVEIIGMGGKKLKVKCTDVEMFRKKLDEAIA 269 G GT+ +G +K G R+K GK+ V + F L+EA A Sbjct: 259 DFRGYA-----GTLASGVVKVGDRVKVLPS-------GKESNVA--RIVTFDGDLEEAFA 304 Query: 270 GDNVGLLLRGVNRADVPRGRVVCAPGS 296 G+ + L+L + D+ RG ++ A Sbjct: 305 GEAITLVLE--DEIDISRGDLLVAADE 329 >gnl|CDD|183990 PRK13351, PRK13351, elongation factor G; Reviewed. Length = 687 Score = 78.8 bits (195), Expect = 2e-15 Identities = 47/143 (32%), Positives = 73/143 (51%), Gaps = 16/143 (11%) Query: 6 YVRNKESLGLSTIGHVDHGKTTLTAAITKYYSEEKKEYGDI-------DSAPEEKLRGIT 58 +RN +G+ + H+D GKTTLT I +Y+ + + G++ D P+E+ RGIT Sbjct: 7 QIRN---IGI--LAHIDAGKTTLTERIL-FYTGKIHKMGEVEDGTTVTDWMPQEQERGIT 60 Query: 59 I-ATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHIL 117 I + A + R ID PGH D+ + DGA++V A G +PQT Sbjct: 61 IESAATSCDWDNHRINL-IDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWR 119 Query: 118 LARQIGISSIVVYMNKVDAVDDD 140 A + GI ++++NK+D V D Sbjct: 120 QADRYGI-PRLIFINKMDRVGAD 141 >gnl|CDD|183713 PRK12740, PRK12740, elongation factor G; Reviewed. Length = 668 Score = 76.7 bits (190), Expect = 9e-15 Identities = 43/126 (34%), Positives = 63/126 (50%), Gaps = 9/126 (7%) Query: 18 IGHVDHGKTTLTAAITKYYSEEKKEYGDI-------DSAPEEKLRGITIATAHVSYETDK 70 +GH GKTTLT AI +Y+ G++ D PEE+ RGI+I +A + E Sbjct: 1 VGHSGAGKTTLTEAIL-FYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG 59 Query: 71 RFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVY 130 + ID PGH D+ + DGA++V A G +PQT A + G+ I+ Sbjct: 60 HKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIF- 118 Query: 131 MNKVDA 136 +NK+D Sbjct: 119 VNKMDR 124 >gnl|CDD|161900 TIGR00487, IF-2, translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU. Length = 587 Score = 75.6 bits (186), Expect = 2e-14 Identities = 72/227 (31%), Positives = 99/227 (43%), Gaps = 26/227 (11%) Query: 17 TI-GHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGIT--IATAHVSYETDKRFY 73 TI GHVDHGKT+L +I K + E G GIT I HV E D + Sbjct: 91 TIMGHVDHGKTSLLDSIRKTKVAQG-EAG-----------GITQHIGAYHVENE-DGKMI 137 Query: 74 SHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNK 133 + +D PGH + GA D +LV AA+DG PQT E I A+ + I+V +NK Sbjct: 138 TFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANV-PIIVAINK 196 Query: 134 VDAVDDDELLDISEYEIRDLLKEHKYSDDTPIIRGSALCALQGTNKELGEDSIHALMKAV 193 +D + + E L+ E + DT + SAL G ++ L D I L V Sbjct: 197 IDKPEANPDRVKQELSEYGLVPE-DWGGDTIFVPVSALTG-DGIDELL--DMI-LLQSEV 251 Query: 194 DTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDV 240 + P IE +GRG V T ++ G ++ G V Sbjct: 252 EELKANPNGQASGVV---IEAQLD-KGRGPVATVLVQSGTLRVGDIV 294 >gnl|CDD|129581 TIGR00490, aEF-2, translation elongation factor aEF-2. This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD. Length = 720 Score = 70.3 bits (172), Expect = 8e-13 Identities = 57/163 (34%), Positives = 88/163 (53%), Gaps = 22/163 (13%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLT---AAITKYYSEE---KKEYGDIDSAPEEKL 54 M + +++RN + + H+DHGKTTL+ A SEE ++ Y D D +E+ Sbjct: 13 MWKPKFIRN-----IGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDE--QEQE 65 Query: 55 RGITIATAHVS----YETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKP 110 RGITI A+VS YE ++ + ID PGH D+ ++ DGAI+V A +G P Sbjct: 66 RGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMP 125 Query: 111 QTREHILLARQIGISSI--VVYMNKVDAVDDDELLDISEYEIR 151 QT E +L RQ ++ V+++NKVD + ++ L E + R Sbjct: 126 QT-ETVL--RQALKENVKPVLFINKVDRLINELKLTPQELQER 165 >gnl|CDD|181029 PRK07560, PRK07560, elongation factor EF-2; Reviewed. Length = 731 Score = 69.5 bits (171), Expect = 1e-12 Identities = 56/157 (35%), Positives = 76/157 (48%), Gaps = 42/157 (26%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLT------AAITKYYSEEKKEYGD---IDSAPE 51 M +RN + I H+DHGKTTL+ A + SEE G+ +D E Sbjct: 14 MKNPEQIRN-----IGIIAHIDHGKTTLSDNLLAGAGMI---SEELA--GEQLALDFDEE 63 Query: 52 EKLRGITIATAHVS----YETDKRFYSHIDCPGHADYVKNMITGATQA-DGAILVCAAED 106 E+ RGITI A+VS YE + + ID PGH D+ +T A +A DGAI+V A + Sbjct: 64 EQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVDF-GGDVTRAMRAVDGAIVVVDAVE 122 Query: 107 GPKPQT--------REHILLARQIGISSIVVYMNKVD 135 G PQT RE + V+++NKVD Sbjct: 123 GVMPQTETVLRQALRERV---------KPVLFINKVD 150 Score = 29.1 bits (66), Expect = 2.1 Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 7/78 (8%) Query: 222 GTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEM--FRKKLDEAIAGDNVGLLLRG 279 G V TG + G ++ G +V ++G K +V+ + M R++++E AG+ + G Sbjct: 305 GEVATGRVFSGTLRKGQEVYLVGAKKKN-RVQQVGIYMGPEREEVEEIPAGNIAAVT--G 361 Query: 280 VNRADVPRGRVVCAPGSI 297 + A G V + + Sbjct: 362 LKDARA--GETVVSVEDM 377 >gnl|CDD|130460 TIGR01393, lepA, GTP-binding protein LepA. LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown. Length = 595 Score = 69.7 bits (171), Expect = 1e-12 Identities = 84/287 (29%), Positives = 129/287 (44%), Gaps = 41/287 (14%) Query: 7 VRNKESLGLSTIGHVDHGKTTLTAAI---TKYYSEEKKEYGDIDSAPEEKLRGITIATAH 63 +RN S I H+DHGK+TL + T SE + +DS E+ RGITI Sbjct: 3 IRN-----FSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQA 57 Query: 64 V--SY-ETDKRFY--SHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILL 118 V +Y D Y + ID PGH D+ + +GA+L+ A G + QT ++ L Sbjct: 58 VRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYL 117 Query: 119 ARQIGISSIVVYMNKVD--AVDDDELLDISEYEIRDLLKEHKYSDDTPIIRGSALCALQG 176 A + + I V +NK+D + D + + EI +++ D + I S A G Sbjct: 118 ALENDLEIIPV-INKIDLPSADPERVKK----EIEEVIG----LDASEAILAS---AKTG 165 Query: 177 TNKELGEDSIHALMKAVDTHIPTPQRSLDAPFLMHIEGSCGIEGRGTVVTGCIKRGRIKA 236 I +++A+ +P P+ DAP I S RG V + G IK Sbjct: 166 IG-------IEEILEAIVKRVPPPKGDPDAPLKALIFDSHYDNYRGVVALVRVFEGTIKP 218 Query: 237 GSDVEIIGMGGKKLKVKCTDVEMFRKKL---DEAIAGDNVGLLLRGV 280 G + + GK+ +V +V +F KL DE AG+ VG ++ G+ Sbjct: 219 GDKIRFMST-GKEYEV--DEVGVFTPKLTKTDELSAGE-VGYIIAGI 261 >gnl|CDD|185604 PTZ00416, PTZ00416, elongation factor 2; Provisional. Length = 836 Score = 68.5 bits (168), Expect = 2e-12 Identities = 56/157 (35%), Positives = 78/157 (49%), Gaps = 36/157 (22%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLT------AAITKYYSEEKKEYGD---IDSAPE 51 M +RN +S I HVDHGK+TLT A I K GD D+ + Sbjct: 13 MDNPDQIRN-----MSVIAHVDHGKSTLTDSLVCKAGIIS-----SKNAGDARFTDTRAD 62 Query: 52 EKLRGITIATAHVS--YETD------KRFY--SHIDCPGHADYVKNMITGATQ-ADGAIL 100 E+ RGITI + +S YE D K+ + + ID PGH D+ + +T A + DGA++ Sbjct: 63 EQERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDF-SSEVTAALRVTDGALV 121 Query: 101 VCAAEDGPKPQTREHILLARQIGISSI--VVYMNKVD 135 V +G QT E +L RQ I V+++NKVD Sbjct: 122 VVDCVEGVCVQT-ETVL--RQALQERIRPVLFINKVD 155 >gnl|CDD|180006 PRK05306, infB, translation initiation factor IF-2; Validated. Length = 787 Score = 67.6 bits (166), Expect = 5e-12 Identities = 61/178 (34%), Positives = 79/178 (44%), Gaps = 48/178 (26%) Query: 17 TI-GHVDHGKTTLTAAI--TKYYSEEKKEYGDIDSAPEEKLRGIT--IATAHVSYETDKR 71 TI GHVDHGKT+L AI T + E G GIT I V ET+ Sbjct: 294 TIMGHVDHGKTSLLDAIRKTNVAA---GEAG-----------GITQHIGAYQV--ETNGG 337 Query: 72 FYSHIDCPGHADYVKNMIT-----GATQADGAILVCAAEDGPKPQTREHILLARQIGISS 126 + +D PGH + T GA D +LV AA+DG PQT E I A+ G+ Sbjct: 338 KITFLDTPGHEAF-----TAMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGV-P 391 Query: 127 IVVYMNKVDAVDDD------ELLDISEYEIRDLLKEHKYSDDTPIIRGSALCALQGTN 178 I+V +NK+D + EL SEY L+ E ++ DT + S A G Sbjct: 392 IIVAINKIDKPGANPDRVKQEL---SEY---GLVPE-EWGGDTIFVPVS---AKTGEG 439 >gnl|CDD|129594 TIGR00503, prfC, peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus. Length = 527 Score = 57.6 bits (139), Expect = 6e-09 Identities = 46/161 (28%), Positives = 73/161 (45%), Gaps = 19/161 (11%) Query: 18 IGHVDHGKTTLTAAITKYYSEEKKEYGDI-----------DSAPEEKLRGITIATAHVSY 66 I H D GKTT+T + Y + G + D EK RGI+I T+ + + Sbjct: 17 ISHPDAGKTTITEKVL-LYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQF 75 Query: 67 ETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISS 126 + +D PGH D+ ++ T D ++V A G + +TR+ + + R + + Sbjct: 76 PYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTR-LRDTP 134 Query: 127 IVVYMNKVD--AVDDDELLDISEYEIRDLLKEHKYSDDTPI 165 I +MNK+D D ELLD E+ + LK + PI Sbjct: 135 IFTFMNKLDRDIRDPLELLD----EVENELKINCAPITWPI 171 >gnl|CDD|129575 TIGR00484, EF-G, translation elongation factor EF-G. After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G. Length = 689 Score = 56.0 bits (135), Expect = 1e-08 Identities = 40/122 (32%), Positives = 56/122 (45%), Gaps = 7/122 (5%) Query: 20 HVDHGKTTLTAAITKYYSEEKK--EYGD----IDSAPEEKLRGITIATAHVSYETDKRFY 73 H+D GKTT T I Y K E D +D +EK RGITI +A + Sbjct: 18 HIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRI 77 Query: 74 SHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNK 133 + ID PGH D+ + DGA+ V A G +PQ+ A + + I ++NK Sbjct: 78 NIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRI-AFVNK 136 Query: 134 VD 135 +D Sbjct: 137 MD 138 >gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit; Provisional. Length = 843 Score = 51.6 bits (124), Expect = 3e-07 Identities = 50/157 (31%), Positives = 68/157 (43%), Gaps = 30/157 (19%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTLT----AAITKYYSEEKKEYGDIDSAPEEKLRG 56 M +K +RN +S I HVDHGK+TLT AA E + D+ +E RG Sbjct: 13 MDKKHNIRN-----MSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERG 67 Query: 57 ITIATAHVS--YETDKRFYSH--------------IDCPGHADYVKNMITGATQADGAIL 100 ITI + +S YE ID PGH D+ + DGA++ Sbjct: 68 ITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALV 127 Query: 101 VCAAEDGPKPQTREHILLARQIGISSI--VVYMNKVD 135 V +G QT E +L RQ I V+ +NK+D Sbjct: 128 VVDCIEGVCVQT-ETVL--RQALGERIRPVLTVNKMD 161 >gnl|CDD|129582 TIGR00491, aIF-2, translation initiation factor aIF-2/yIF-2. This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region. Length = 590 Score = 50.6 bits (121), Expect = 8e-07 Identities = 43/130 (33%), Positives = 60/130 (46%), Gaps = 13/130 (10%) Query: 15 LSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDS---APE------EKLRGITIATAHVS 65 +S +GHVDHGKTTL I + K+E G I A E E + G + + Sbjct: 7 VSVLGHVDHGKTTLLDKIRGS-AVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIR 65 Query: 66 YETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGIS 125 + + ID PGH + G AD AIL+ +G KPQT+E + + R + Sbjct: 66 LKIPGLLF--IDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYK-T 122 Query: 126 SIVVYMNKVD 135 VV NK+D Sbjct: 123 PFVVAANKID 132 >gnl|CDD|161778 TIGR00231, small_GTP, small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model. Length = 161 Score = 49.3 bits (118), Expect = 2e-06 Identities = 27/134 (20%), Positives = 45/134 (33%), Gaps = 23/134 (17%) Query: 18 IGHVDHGKTTLTAAITKYYSEEKKEYG--DIDSAPEEKLRGITIATAHVSYETDKRFYSH 75 +G + GK+TL + + + G + G T ++ Sbjct: 7 VGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTY-KFNL----------- 54 Query: 76 IDCPGHADY---VKNMITGATQA----DGAILVCAAEDGPKPQTREHILLARQIGISSIV 128 +D G DY + + D ILV E+ + QT+E I A I+ Sbjct: 55 LDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAE--SNVPII 112 Query: 129 VYMNKVDAVDDDEL 142 + NK+D D Sbjct: 113 LVGNKIDLRDAKLK 126 >gnl|CDD|180078 PRK05433, PRK05433, GTP-binding protein LepA; Provisional. Length = 600 Score = 46.2 bits (111), Expect = 2e-05 Identities = 67/226 (29%), Positives = 106/226 (46%), Gaps = 52/226 (23%) Query: 1 MVEKRYVRNKESLGLSTIGHVDHGKTTL-------TAAITKYYSEEKKEYGDIDSAPEEK 53 M++ + +RN S I H+DHGK+TL T +++ E K + +DS E+ Sbjct: 1 MMDMKNIRN-----FSIIAHIDHGKSTLADRLIELTGTLSE--REMKAQV--LDSMDLER 51 Query: 54 LRGITI--ATAHVSYE-TDKRFYS-H-IDCPGHADY---VKNMITGATQA-DGAILVCAA 104 RGITI ++Y+ D Y + ID PGH D+ V + A +GA+LV A Sbjct: 52 ERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEVSR----SLAACEGALLVVDA 107 Query: 105 EDGPKPQTREHILLARQIGISSIVVYMNKVD--AVDDDELLDISEYEIRDLLKEHKYSDD 162 G + QT ++ LA + + I V +NK+D A D + + EI D++ D Sbjct: 108 SQGVEAQTLANVYLALENDLEIIPV-LNKIDLPAADPERVKQ----EIEDVIGI----DA 158 Query: 163 TPIIRGSALCALQGTNKE-LGEDSIHALMKAVDTHIPTPQRSLDAP 207 + + SA K +G I +++A+ IP P+ DAP Sbjct: 159 SDAVLVSA--------KTGIG---IEEVLEAIVERIPPPKGDPDAP 193 >gnl|CDD|183712 PRK12739, PRK12739, elongation factor G; Reviewed. Length = 691 Score = 44.4 bits (106), Expect = 5e-05 Identities = 45/141 (31%), Positives = 66/141 (46%), Gaps = 22/141 (15%) Query: 6 YVRNKESLGLSTIG---HVDHGKTTLTAAITKYYSEEKKEYGDI-------DSAPEEKLR 55 RN IG H+D GKTT T I YY+ + + G++ D +E+ R Sbjct: 7 KTRN--------IGIMAHIDAGKTTTTERIL-YYTGKSHKIGEVHDGAATMDWMEQEQER 57 Query: 56 GITIATAHVSYE-TDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTRE 114 GITI +A + R + ID PGH D+ + DGA+ V A G +PQ+ Sbjct: 58 GITITSAATTCFWKGHRI-NIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSET 116 Query: 115 HILLARQIGISSIVVYMNKVD 135 A + G+ I V++NK+D Sbjct: 117 VWRQADKYGVPRI-VFVNKMD 136 >gnl|CDD|163343 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability. Length = 429 Score = 43.2 bits (103), Expect = 1e-04 Identities = 33/109 (30%), Positives = 54/109 (49%), Gaps = 9/109 (8%) Query: 94 QADGAILVCAAEDGPKPQTREHIL-LARQIGISSIVVYMNKVDAVDDDELLDISEYEIRD 152 +AD +LV A +G Q I L + G + ++V +NK D V D++ + + E+R Sbjct: 254 RADVVLLVLDATEGITEQD-LRIAGLILEAGKALVIV-VNKWDLVKDEKTREEFKKELRR 311 Query: 153 LLKEHKYSDDTPIIRGSALCALQGTNKELGEDSIHALMKAVDTHIPTPQ 201 L + D PI+ SAL QG +K L D+I + + + I T + Sbjct: 312 KL---PFLDFAPIVFISALTG-QGVDKLL--DAIDEVYENANRRISTSK 354 >gnl|CDD|179704 PRK04004, PRK04004, translation initiation factor IF-2; Validated. Length = 586 Score = 41.7 bits (99), Expect = 4e-04 Identities = 43/146 (29%), Positives = 55/146 (37%), Gaps = 49/146 (33%) Query: 19 GHVDHGKTTL------TAAITKYYSEEKKEYGDIDSAPEEKLRGIT--IATAHVSYETDK 70 GHVDHGKTTL TA KE G GIT I V + + Sbjct: 13 GHVDHGKTTLLDKIRGTAVA-------AKEAG-----------GITQHIGATEVPIDVIE 54 Query: 71 R-------------------FYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQ 111 + F ID PGH + G AD AILV +G +PQ Sbjct: 55 KIAGPLKKPLPIKLKIPGLLF---IDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQ 111 Query: 112 TREHILLARQIGISSIVVYMNKVDAV 137 T E I + ++ +V NK+D + Sbjct: 112 TIEAINILKRRKTPFVVA-ANKIDRI 136 >gnl|CDD|184848 PRK14845, PRK14845, translation initiation factor IF-2; Provisional. Length = 1049 Score = 40.3 bits (94), Expect = 0.001 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 1/60 (1%) Query: 76 IDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNKVD 135 ID PGH + G + AD A+LV +G KPQT E I + RQ + VV NK+D Sbjct: 531 IDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYK-TPFVVAANKID 589 >gnl|CDD|179105 PRK00741, prfC, peptide chain release factor 3; Provisional. Length = 526 Score = 38.6 bits (91), Expect = 0.003 Identities = 46/159 (28%), Positives = 69/159 (43%), Gaps = 35/159 (22%) Query: 18 IGHVDHGKTTLTAAITKYYSEEKKEY--GDIDSAPE-----------------EKLRGIT 58 I H D GKTTLT EK G I A EK RGI+ Sbjct: 16 ISHPDAGKTTLT---------EKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGIS 66 Query: 59 IATAHVSYETDKRFYSHIDCPGHADYVKNMITGATQADGAILVCAAEDGPKPQTREHILL 118 + ++ + + + +D PGH D+ ++ T D A++V A G +PQTR+ + + Sbjct: 67 VTSSVMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEV 126 Query: 119 ARQIGISSIVVYMNKVDAVDDD--ELLDISEYEIRDLLK 155 R I ++NK+D + ELLD EI ++L Sbjct: 127 CRLRDT-PIFTFINKLDRDGREPLELLD----EIEEVLG 160 >gnl|CDD|178789 PRK00007, PRK00007, elongation factor G; Reviewed. Length = 693 Score = 38.6 bits (91), Expect = 0.003 Identities = 39/126 (30%), Positives = 55/126 (43%), Gaps = 39/126 (30%) Query: 7 VRNKESLGLSTIG---HVDHGKTTLTAAITKYYSEEKKEYGDI-------DSAPEEKLRG 56 RN IG H+D GKTT T I +Y+ + G++ D +E+ RG Sbjct: 10 YRN--------IGIMAHIDAGKTTTTERIL-FYTGVNHKIGEVHDGAATMDWMEQEQERG 60 Query: 57 ITIATAHVS-YETDKRFYSHIDCPGHADY---------VKNMITGATQADGAILVCAAED 106 ITI +A + + D R + ID PGH D+ V DGA+ V A Sbjct: 61 ITITSAATTCFWKDHRI-NIIDTPGHVDFTIEVERSLRV---------LDGAVAVFDAVG 110 Query: 107 GPKPQT 112 G +PQ+ Sbjct: 111 GVEPQS 116 >gnl|CDD|178858 PRK00093, PRK00093, GTP-binding protein Der; Reviewed. Length = 435 Score = 38.1 bits (90), Expect = 0.004 Identities = 30/110 (27%), Positives = 51/110 (46%), Gaps = 14/110 (12%) Query: 95 ADGAILVCAAEDGPKPQTREHIL-LARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDL 153 AD +LV A +G Q I LA + G + ++V +NK D VD+ + + + E+R Sbjct: 256 ADVVLLVIDATEGITEQD-LRIAGLALEAGRALVIV-VNKWDLVDEKTMEEF-KKELRRR 312 Query: 154 LKEHKYSDDTPIIRGSALCALQGTNKELGE--DSIHALMKAVDTHIPTPQ 201 L + D PI+ SAL T + + + ++I + + I T Sbjct: 313 L---PFLDYAPIVFISAL-----TGQGVDKLLEAIDEAYENANRRISTSV 354 >gnl|CDD|131580 TIGR02528, EutP, ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site. Length = 142 Score = 33.2 bits (76), Expect = 0.11 Identities = 34/140 (24%), Positives = 48/140 (34%), Gaps = 36/140 (25%) Query: 18 IGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYETDKRFYSHID 77 IG V GKTTLT A+ KK T V Y ID Sbjct: 6 IGSVGCGKTTLTQALQGEEILYKK-------------------TQAVEY-----NDGAID 41 Query: 78 CPG----HADYVKNMITGATQADGAILVCAAEDG--PKPQTREHILLARQIGISSIVVYM 131 PG + +I A AD LV +A D P I + IG+ + Sbjct: 42 TPGEYVENRRLYSALIVTAADADVIALVQSATDPESRFPPGFASIFVKPVIGLVT----- 96 Query: 132 NKVDAVDDDELLDISEYEIR 151 K+D + D ++ ++ + Sbjct: 97 -KIDLAEADVDIERAKELLE 115 >gnl|CDD|162669 TIGR02033, D-hydantoinase, D-hydantoinase. This model represents the D-hydantoinase (dihydropyrimidinase) which primarily converts 5,6-dihydrouracil to 3-ureidopropanoate but also acts on dihydrothymine and hydantoin. The enzyme is a metalloenzyme. Length = 454 Score = 31.6 bits (72), Expect = 0.36 Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%) Query: 113 REHILLARQIGISSIVVYM--NKVDAVDDDELLDI 145 EHI + GI+S V+M + VDD+EL +I Sbjct: 134 EEHIPELVEEGITSFKVFMAYKNLLMVDDEELFEI 168 >gnl|CDD|178854 PRK00089, era, GTPase Era; Reviewed. Length = 292 Score = 28.9 bits (66), Expect = 2.6 Identities = 24/108 (22%), Positives = 46/108 (42%), Gaps = 14/108 (12%) Query: 85 VKNMITGATQADGAILVCA-AEDGPKPQTREHILLARQIGISSIVVYMNKVDAVDD-DEL 142 K + D +L A++ P + +++ I+V +NK+D V D +EL Sbjct: 75 NKAAWSSLKDVD-LVLFVVDADEKIGPGDEFILEKLKKVKTPVILV-LNKIDLVKDKEEL 132 Query: 143 LDISEYEIRDLLKEHKYSDDTPIIRGSALCALQGTNKELGEDSIHALM 190 L + + +L + +++ PI AL+G N + D I + Sbjct: 133 LPL----LEELSELMDFAEIVPI------SALKGDNVDELLDVIAKYL 170 >gnl|CDD|181695 PRK09201, PRK09201, amidase; Provisional. Length = 465 Score = 28.8 bits (65), Expect = 2.8 Identities = 11/20 (55%), Positives = 16/20 (80%) Query: 297 IQEYSRFRASVYILTASEGG 316 + E +R RA+ +I+TASEGG Sbjct: 297 LPEAARARAAAFIITASEGG 316 >gnl|CDD|180097 PRK05458, PRK05458, guanosine 5'-monophosphate oxidoreductase; Provisional. Length = 326 Score = 27.6 bits (62), Expect = 5.0 Identities = 17/52 (32%), Positives = 19/52 (36%), Gaps = 18/52 (34%) Query: 40 KKEYGDIDSAPEEKLRG--ITIATAHVSYETDKRFYSHIDCPGHADYVKNMI 89 EY +D E L ITI AH GH+D V NMI Sbjct: 96 DDEYDFVDQLAAEGLTPEYITIDIAH----------------GHSDSVINMI 131 >gnl|CDD|179657 PRK03826, PRK03826, 5'-nucleotidase; Provisional. Length = 195 Score = 27.3 bits (61), Expect = 7.0 Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 1/23 (4%) Query: 33 TKYYSEE-KKEYGDIDSAPEEKL 54 KY++ E EY I+ E+KL Sbjct: 81 VKYFNPEIAHEYKKIEKIAEQKL 103 >gnl|CDD|162813 TIGR02347, chap_CCT_zeta, T-complex protein 1, zeta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT zeta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes. Length = 531 Score = 27.0 bits (60), Expect = 7.8 Identities = 24/64 (37%), Positives = 34/64 (53%), Gaps = 13/64 (20%) Query: 112 TREHILLARQIGISSIVVYMNKVDAV----DDDELLDISEYEIRDLLKEHKYSDDTPIIR 167 T+ I LA Q+ + IVV DAV D E +D+ EI ++ +HK + DT +IR Sbjct: 158 TKLPIDLADQL--TEIVV-----DAVLAIKKDGEQIDLFMVEIMEM--KHKSATDTTLIR 208 Query: 168 GSAL 171 G L Sbjct: 209 GLVL 212 >gnl|CDD|181233 PRK08116, PRK08116, hypothetical protein; Validated. Length = 268 Score = 26.9 bits (60), Expect = 8.6 Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 5/41 (12%) Query: 4 KRYVRN-----KESLGLSTIGHVDHGKTTLTAAITKYYSEE 39 ++YV+ KE++GL G V GKT L A I E+ Sbjct: 101 RKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEK 141 >gnl|CDD|162985 TIGR02715, amido_AtzE, amidohydrolase, AtzE family. Members of this protein family are aminohydrolases related to, but distinct from, glutamyl-tRNA(Gln) amidotransferase subunit A. The best characterized member is the biuret hydrolase of Pseudomonas sp. ADP, which hydrolyzes ammonia from the three-nitrogen compound biuret to yield allophanate. Allophanate is also an intermediate in urea degradation by the urea carboxylase/allophanate hydrolase pathway, an alternative to urease. Length = 452 Score = 27.1 bits (60), Expect = 9.5 Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 5/34 (14%) Query: 288 GRVVCAPGS-----IQEYSRFRASVYILTASEGG 316 GRV A G+ + + R RA+ +++TASEGG Sbjct: 276 GRVAKALGATTIVELPDAERARAAAFVITASEGG 309 >gnl|CDD|183988 PRK13344, spxA, transcriptional regulator Spx; Reviewed. Length = 132 Score = 26.9 bits (59), Expect = 9.7 Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 3/63 (4%) Query: 107 GPKPQTREH---ILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYSDDT 163 G +P T+E IL + GI SIV N+ D ++ ++S E+ DL++E+ + Sbjct: 33 GKEPLTKEEILAILTKTENGIESIVSSKNRYAKALDCDIEELSVNEVIDLIQENPRILKS 92 Query: 164 PII 166 PI+ Sbjct: 93 PIL 95 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 0.318 0.137 0.393 Gapped Lambda K H 0.267 0.0704 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,520,812 Number of extensions: 432539 Number of successful extensions: 1074 Number of sequences better than 10.0: 1 Number of HSP's gapped: 968 Number of HSP's successfully gapped: 69 Length of query: 392 Length of database: 5,994,473 Length adjustment: 95 Effective length of query: 297 Effective length of database: 3,941,713 Effective search space: 1170688761 Effective search space used: 1170688761 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 58 (26.2 bits)