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)