RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5021
(1021 letters)
>gnl|CDD|234569 PRK00007, PRK00007, elongation factor G; Reviewed.
Length = 693
Score = 904 bits (2339), Expect = 0.0
Identities = 333/662 (50%), Positives = 459/662 (69%), Gaps = 20/662 (3%)
Query: 8 FRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVS 67
+RNIGI+AH+DAGKTTTTERILFY+G +HKIGEVH G DWM+QEQERGITITSA+ +
Sbjct: 10 YRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATT 69
Query: 68 IFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
FW+ + INIIDTPGHVDFTIEVERSLRVLDGAV + A G++PQ+ETVW Q+ K
Sbjct: 70 CFWK----DHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADK 125
Query: 128 YKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFF 187
YKVP++ FVNKMDR GA++ + IK + +PI IG E++++G+VD++ K+
Sbjct: 126 YKVPRIAFVNKMDRTGADFYRVVEQIKDRLGANPVPIQLPIGAEDDFKGVVDLVKMKAII 185
Query: 188 WKENS----IIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINNN-YSINDIKNSI 242
W E + I D + Y E ++E + DE +EKY+ + +IK ++
Sbjct: 186 WNEADLGATFEYEEIPADLKDKAEEYREKLIEAAAEADEELMEKYLEGEELTEEEIKAAL 245
Query: 243 RKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDVD----FKNNDYNINL----- 293
RK + N+I+P++CGS+ KNKG++ LL+++ +YLPSP DV + +
Sbjct: 246 RKATIANEIVPVLCGSAFKNKGVQPLLDAVVDYLPSPLDVPAIKGILPDGEEEEVERKAS 305
Query: 294 NSNKFVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKK 353
+ F +L FKI DPF+G L+F R+YSG ++ G V NSTK KE+I RIL+M AN ++
Sbjct: 306 DDEPFSALAFKIMTDPFVGKLTFFRVYSGVLESGSYVLNSTKGKKERIGRILQMHANKRE 365
Query: 354 DINDAHFGDIVVIVGLKESSTGDTLCSLSENIQLENIETPIPVISISIEPIFKNDQEKLL 413
+I + GDI VGLK+++TGDTLC I LE++E P PVIS+++EP K DQEK+
Sbjct: 366 EIKEVRAGDIAAAVGLKDTTTGDTLCDEKNPIILESMEFPEPVISVAVEPKTKADQEKMG 425
Query: 414 NILQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKE 473
LQK +EDPS +S + TG+TI++GMGELHL+IIVDR+ +E ++ + KPQV+Y+E
Sbjct: 426 IALQKLAEEDPSFRVSTDEETGQTIIAGMGELHLDIIVDRMKREFKVEANVGKPQVAYRE 485
Query: 474 SIKKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKEFIPAIE 533
+I+K V EGK++KQSGG+GQYGHVVI EP E + + F ++I+GG IPKE+IPA++
Sbjct: 486 TIRKKVEVEGKFVKQSGGRGQYGHVVIEFEP--NEPGKGYEFVNKIVGGVIPKEYIPAVD 543
Query: 534 KGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKANSYILE 593
KGI + GV+ GYPV+ +KV L +GS+H VDSSE AFK A ++A K+A KKAN +LE
Sbjct: 544 KGIQEAMESGVLAGYPVVDVKVTLFDGSYHDVDSSEMAFKIAGSMAFKEAAKKANPVLLE 603
Query: 594 PIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYSTDLRSNT 653
PIMKVEV P E++G V+GD+N +RG I + D K+I + +PL E+FGY+TDLRS T
Sbjct: 604 PIMKVEVVTPEEYMGDVIGDLNSRRGQIEGMEDRGGAKVIRAEVPLSEMFGYATDLRSMT 663
Query: 654 KG 655
+G
Sbjct: 664 QG 665
Score = 50.5 bits (122), Expect = 4e-06
Identities = 50/139 (35%), Positives = 70/139 (50%), Gaps = 29/139 (20%)
Query: 655 GTIGHVDHGKTTLTAAL---TKVSSEIYGGEVRAFD---TIDNAPEEKERGITISTSHVE 708
G + H+D GKTT T + T V+ +I GEV D T+D +E+ERGITI TS
Sbjct: 14 GIMAHIDAGKTTTTERILFYTGVNHKI--GEVH--DGAATMDWMEQEQERGITI-TSAAT 68
Query: 709 YESENKHYAHV-DCPGHADYI----KNMITGAAQMDGAILVCSAVDGPMPQT----REHI 759
H ++ D PGH D+ +++ +DGA+ V AV G PQ+ R+
Sbjct: 69 TCFWKDHRINIIDTPGHVDFTIEVERSL----RVLDGAVAVFDAVGGVEPQSETVWRQ-- 122
Query: 760 LLARQVGVPNIVVFLNKAD 778
A + VP I F+NK D
Sbjct: 123 --ADKYKVPRI-AFVNKMD 138
>gnl|CDD|237185 PRK12739, PRK12739, elongation factor G; Reviewed.
Length = 691
Score = 894 bits (2314), Expect = 0.0
Identities = 326/668 (48%), Positives = 460/668 (68%), Gaps = 19/668 (2%)
Query: 1 MKNKVLYFRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGIT 60
+ + RNIGI+AH+DAGKTTTTERIL+Y+G SHKIGEVH G DWM+QEQERGIT
Sbjct: 1 REFPLEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGIT 60
Query: 61 ITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTET 120
ITSA+ + FW+ + INIIDTPGHVDFTIEVERSLRVLDGAV + A SG++PQ+ET
Sbjct: 61 ITSAATTCFWK----GHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSET 116
Query: 121 VWFQSQKYKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDI 180
VW Q+ KY VP+++FVNKMDRIGA++ + IK + +PI IG E++++G++D+
Sbjct: 117 VWRQADKYGVPRIVFVNKMDRIGADFFRSVEQIKDRLGANAVPIQLPIGAEDDFKGVIDL 176
Query: 181 INKKSFFWKENS----IIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINN-NYSI 235
I K+ W + + ++I D + Y E ++E ++ DE +EKY+ +
Sbjct: 177 IKMKAIIWDDETLGAKYEEEDIPADLKEKAEEYREKLIEAVAEVDEELMEKYLEGEEITE 236
Query: 236 NDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDVD-----FKNNDYN 290
+IK +IRK + + P++CGS+ KNKG++ LL+++ +YLPSP DV + +
Sbjct: 237 EEIKAAIRKATINMEFFPVLCGSAFKNKGVQPLLDAVVDYLPSPLDVPAIKGINPDTEEE 296
Query: 291 INLNSN---KFVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRM 347
I ++ F +L FKI DPF+G L+F R+YSG ++ G V N+TK KE+I R+L+M
Sbjct: 297 IERPASDDEPFAALAFKIMTDPFVGRLTFFRVYSGVLESGSYVLNTTKGKKERIGRLLQM 356
Query: 348 FANSKKDINDAHFGDIVVIVGLKESSTGDTLCSLSENIQLENIETPIPVISISIEPIFKN 407
AN +++I + + GDI VGLK+++TGDTLC I LE++E P PVIS+++EP K
Sbjct: 357 HANKREEIKEVYAGDIAAAVGLKDTTTGDTLCDEKAPIILESMEFPEPVISLAVEPKTKA 416
Query: 408 DQEKLLNILQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKISKP 467
DQ+K+ LQK +EDP+ + + TG+TI+SGMGELHL+IIVDR+ +E ++ + P
Sbjct: 417 DQDKMGLALQKLAEEDPTFRVETDEETGQTIISGMGELHLDIIVDRMKREFKVEANVGAP 476
Query: 468 QVSYKESIKKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKE 527
QV+Y+E+I K V EGKY KQSGG+GQYG V I EP E + F F ++I+GG IPKE
Sbjct: 477 QVAYRETITKSVEAEGKYKKQSGGRGQYGDVWIEFEP--NEEGKGFEFVNKIVGGVIPKE 534
Query: 528 FIPAIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKA 587
+IPA+EKG+ + GV+ GYP++ +K L +GS+H VDSSE AFK AA++ALK+A KKA
Sbjct: 535 YIPAVEKGLEEAMKNGVLAGYPMVDVKATLYDGSYHDVDSSELAFKIAASMALKEAAKKA 594
Query: 588 NSYILEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYST 647
ILEPIMKVEV P E++G V+GD+N++RG I + +I+ +++PL E+FGY+T
Sbjct: 595 GPVILEPIMKVEVVTPEEYMGDVIGDLNRRRGQIQGMEARGGAQIVKAFVPLSEMFGYAT 654
Query: 648 DLRSNTKG 655
DLRS T+G
Sbjct: 655 DLRSATQG 662
Score = 61.8 bits (151), Expect = 1e-09
Identities = 48/130 (36%), Positives = 67/130 (51%), Gaps = 11/130 (8%)
Query: 655 GTIGHVDHGKTTLTAAL---TKVSSEIYGGEVRAFD---TIDNAPEEKERGITISTSHVE 708
G + H+D GKTT T + T S +I GEV D T+D +E+ERGITI+++
Sbjct: 12 GIMAHIDAGKTTTTERILYYTGKSHKI--GEVH--DGAATMDWMEQEQERGITITSAATT 67
Query: 709 YESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVP 768
+ +D PGH D+ + +DGA+ V AV G PQ+ A + GVP
Sbjct: 68 CFWKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVP 127
Query: 769 NIVVFLNKAD 778
I VF+NK D
Sbjct: 128 RI-VFVNKMD 136
>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases)
[Translation, ribosomal structure and biogenesis].
Length = 697
Score = 801 bits (2071), Expect = 0.0
Identities = 322/662 (48%), Positives = 455/662 (68%), Gaps = 18/662 (2%)
Query: 8 FRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVS 67
RNIGI+AH+DAGKTT TERILFY+G KIGEVH G DWM+QEQERGITITSA+ +
Sbjct: 10 IRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATT 69
Query: 68 IFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
+FW+ + Y IN+IDTPGHVDFTIEVERSLRVLDGAV+++ A G++PQTETVW Q+ K
Sbjct: 70 LFWKGD---YRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADK 126
Query: 128 YKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFF 187
Y VP+++FVNKMDR+GA++ + +K++ +P+ IG EE +EG++D++ K+
Sbjct: 127 YGVPRILFVNKMDRLGADFYLVVEQLKERLGANPVPVQLPIGAEEEFEGVIDLVEMKAVA 186
Query: 188 WKEN-SIIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINN-NYSINDIKNSIRKL 245
+ + I D + E +LE L+ DE +EKY+ + +IK ++RK
Sbjct: 187 FGDGAKYEWIEIPADLKEIAEEAREKLLEALAEFDEELMEKYLEGEEPTEEEIKKALRKG 246
Query: 246 VLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDV----DFKNNDY-----NINLNSN 296
+ KI+P++CGS+ KNKG++ LL+++ +YLPSP DV +++ +
Sbjct: 247 TIAGKIVPVLCGSAFKNKGVQPLLDAVVDYLPSPLDVPPIKGDLDDEIEKAVLRKASDEG 306
Query: 297 KFVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKKDIN 356
+LVFKI DPF+G L+F+R+YSG +K G V NSTK KE++ R+L M N +++++
Sbjct: 307 PLSALVFKIMTDPFVGKLTFVRVYSGTLKSGSEVLNSTKGKKERVGRLLLMHGNEREEVD 366
Query: 357 DAHFGDIVVIVGLKESSTGDTLCSLSENIQLENIETPIPVISISIEPIFKNDQEKLLNIL 416
+ GDIV +VGLK+++TGDTLC ++ + LE++E P PVIS+++EP K DQEKL L
Sbjct: 367 EVPAGDIVALVGLKDATTGDTLCDENKPVILESMEFPEPVISVAVEPKTKADQEKLSEAL 426
Query: 417 QKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKESIK 476
K +EDP+ + + TGETI+SGMGELHLEIIVDR+ +E ++ ++ KPQV+Y+E+I+
Sbjct: 427 NKLAEEDPTFRVETDEETGETIISGMGELHLEIIVDRLKREFGVEVEVGKPQVAYRETIR 486
Query: 477 KIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKEFIPAIEKGI 536
K EGK+ KQSGG GQYGHV I IEP LE+ F F +I+GG +PKE+IPA+EKG
Sbjct: 487 KKSEVEGKHKKQSGGPGQYGHVYIEIEP--LEDGSGFEFVDKIVGGVVPKEYIPAVEKGF 544
Query: 537 MNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKANSYILEPIM 596
+ G + GYPV+ +KV L++GS+H VDSSE AFK AA++A K+A+ KA +LEPIM
Sbjct: 545 REALKSGPLAGYPVVDVKVTLLDGSYHEVDSSEMAFKIAASLAFKEAMLKAKPVLLEPIM 604
Query: 597 KVEVNLPSEFLGIVVGDINKKRGII--NTIIDHENFKIINSYIPLRELFGYSTDLRSNTK 654
KVE+ P E++G V+GD+N +RG I +I + +PL E+FGY+TDLRS T+
Sbjct: 605 KVEITTPEEYMGDVIGDLNSRRGQILGMEQRPGGGLDVIKAEVPLAEMFGYATDLRSATQ 664
Query: 655 GT 656
G
Sbjct: 665 GR 666
Score = 101 bits (254), Expect = 6e-22
Identities = 48/143 (33%), Positives = 76/143 (53%), Gaps = 11/143 (7%)
Query: 655 GTIGHVDHGKTTLTAAL---TKVSSEIYGGEVRAFDTI-DNAPEEKERGITISTS--HVE 708
G + H+D GKTTLT + T + S+I GEV D +E+ERGITI+++ +
Sbjct: 14 GIVAHIDAGKTTLTERILFYTGIISKI--GEVHDGAATMDWMEQEQERGITITSAATTLF 71
Query: 709 YESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVP 768
++ + + +D PGH D+ + +DGA++V AV+G PQT A + GVP
Sbjct: 72 WKGDYRINL-IDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKYGVP 130
Query: 769 NIVVFLNKADCVQDKELLDLVEM 791
++F+NK D + +VE
Sbjct: 131 -RILFVNKMD-RLGADFYLVVEQ 151
>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed.
Length = 668
Score = 797 bits (2060), Expect = 0.0
Identities = 298/651 (45%), Positives = 444/651 (68%), Gaps = 14/651 (2%)
Query: 14 IAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIFWEVN 73
+ H AGKTT TE ILFY+G+ H+IGEV GTT D+M +E+ERGI+ITSA+ + W+ +
Sbjct: 1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGH 60
Query: 74 KFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYKVPKM 133
K IN+IDTPGHVDFT EVER+LRVLDGAV+++CA G++PQTETVW Q++KY VP++
Sbjct: 61 K----INLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRI 116
Query: 134 IFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFFWKEN-S 192
IFVNKMDR GA++ + +++K V+P+ IG +++ G+VD+++ K++ + E
Sbjct: 117 IFVNKMDRAGADFFRVLAQLQEKLGAPVVPLQLPIGEGDDFTGVVDLLSMKAYRYDEGGP 176
Query: 193 IIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINN-NYSINDIKNSIRKLVLKNKI 251
I + L + E +LE L+ D+ +EKY+ S +IK +RK L +I
Sbjct: 177 SEEIEIPAELLDRAEEAREELLEALAEFDDELMEKYLEGEELSEEEIKAGLRKATLAGEI 236
Query: 252 IPIMCGSSLKNKGIEFLLNSICEYLPSPYDV---DFKNNDYNINLNSN---KFVSLVFKI 305
+P+ CGS+LKNKG++ LL+++ +YLPSP +V D ++ + L + V+LVFK
Sbjct: 237 VPVFCGSALKNKGVQRLLDAVVDYLPSPLEVPPVDGEDGEEGAELAPDPDGPLVALVFKT 296
Query: 306 FHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKKDINDAHFGDIVV 365
DPF+G LS +R+YSG +K GD +YNS KE++ R+ RM ++++++A GDIV
Sbjct: 297 MDDPFVGKLSLVRVYSGTLKKGDTLYNSGTGKKERVGRLYRMHGKQREEVDEAVAGDIVA 356
Query: 366 IVGLKESSTGDTLCSLSENIQLENIETPIPVISISIEPIFKNDQEKLLNILQKFCKEDPS 425
+ LK+++TGDTLC + I LE +E P PVIS++IEP K D+EKL L K +EDP+
Sbjct: 357 VAKLKDAATGDTLCDKGDPILLEPMEFPEPVISLAIEPKDKGDEEKLSEALGKLAEEDPT 416
Query: 426 LLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKESIKKIVTQEGKY 485
L + + TG+TILSGMGELHL++ ++R+ +E ++ + PQV Y+E+I+K G++
Sbjct: 417 LRVERDEETGQTILSGMGELHLDVALERLKREYGVEVETGPPQVPYRETIRKKAEGHGRH 476
Query: 486 IKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKEFIPAIEKGIMNQINYGVV 545
KQSGG GQ+G V + +EP L E F F +++GG++P+++IPA+EKG+ + GV+
Sbjct: 477 KKQSGGHGQFGDVWLEVEP--LPRGEGFEFVDKVVGGAVPRQYIPAVEKGVREALEKGVL 534
Query: 546 LGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKANSYILEPIMKVEVNLPSE 605
GYPV+ +KV L +GS+HSVDSSE AFK AA +A ++AL KA +LEPIMKVEV++P E
Sbjct: 535 AGYPVVDVKVTLTDGSYHSVDSSEMAFKIAARLAFREALPKAKPVLLEPIMKVEVSVPEE 594
Query: 606 FLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYSTDLRSNTKGT 656
F+G V+GD++ +RG I + ++ + +PL E+FGY+TDLRS T+G
Sbjct: 595 FVGDVIGDLSSRRGRILGMESRGGGDVVRAEVPLAEMFGYATDLRSLTQGR 645
Score = 98.3 bits (246), Expect = 6e-21
Identities = 48/124 (38%), Positives = 67/124 (54%), Gaps = 3/124 (2%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYG-GEVRAFDTI-DNAPEEKERGITISTSHVEYESENK 714
+GH GKTTLT A+ + I+ GEV T D PEE+ERGI+I+++ E +
Sbjct: 1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGH 60
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
+D PGH D+ + +DGA++V AV G PQT A + GVP I +F+
Sbjct: 61 KINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRI-IFV 119
Query: 775 NKAD 778
NK D
Sbjct: 120 NKMD 123
>gnl|CDD|234596 PRK00049, PRK00049, elongation factor Tu; Reviewed.
Length = 396
Score = 776 bits (2007), Expect = 0.0
Identities = 270/367 (73%), Positives = 315/367 (85%), Gaps = 1/367 (0%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+TKV ++ G E +A+D ID APEEK RGITI+T+HVEYE+E +
Sbjct: 16 GTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKR 75
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDGAILV SA DGPMPQTREHILLARQVGVP IVVFL
Sbjct: 76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFL 135
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NK D V D+ELL+LVEME+RELL++YDF G++T I+ GSAL ALEG DD + I +L
Sbjct: 136 NKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEE-WEKKILEL 194
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTI 894
+D +DS IPTP R DKPFLMPIEDVFSISGRGTVVTG++ERGI+K GEE+EIVG + T
Sbjct: 195 MDAVDSYIPTPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIRDTQ 254
Query: 895 KTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYIL 954
KTT+TG+EMF+K LDEG AG+NVG LLR +KRE+VERGQVLAK GSI + FE EVY+L
Sbjct: 255 KTTVTGVEMFRKLLDEGQAGDNVGALLRGIKREDVERGQVLAKPGSITPHTKFEAEVYVL 314
Query: 955 SKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKLNVTLLSSIAIEIG 1014
SKEEGGRHTPFFNGY+PQFYFRTTDVTG+ +LPE VEMV+PGDN+++ V L++ IA+E G
Sbjct: 315 SKEEGGRHTPFFNGYRPQFYFRTTDVTGVIELPEGVEMVMPGDNVEMTVELIAPIAMEEG 374
Query: 1015 LRFAIRE 1021
LRFAIRE
Sbjct: 375 LRFAIRE 381
Score = 59.8 bits (146), Expect = 3e-09
Identities = 46/138 (33%), Positives = 65/138 (47%), Gaps = 19/138 (13%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQ-----QEQERGITITSA 64
N+G I HVD GKTT T I G + Q +E+ RGITI +A
Sbjct: 14 NVGTIGHVDHGKTTLTAAITKVLAK-------KGGAEAKAYDQIDKAPEEKARGITINTA 66
Query: 65 SVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT-ETVWF 123
V +E K Y +D PGH D+ + +DGA++++ A+ G PQT E +
Sbjct: 67 HVE--YETEKRHYA--HVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILL 122
Query: 124 QSQKYKVPKMI-FVNKMD 140
Q VP ++ F+NK D
Sbjct: 123 ARQ-VGVPYIVVFLNKCD 139
>gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed.
Length = 396
Score = 763 bits (1972), Expect = 0.0
Identities = 275/367 (74%), Positives = 317/367 (86%), Gaps = 1/367 (0%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+TKV ++ GGE +A+D IDNAPEEK RGITI+TSHVEYE+ N+
Sbjct: 16 GTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANR 75
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDGAILV SA DGPMPQTREHILLARQVGVP IVVFL
Sbjct: 76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFL 135
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NK D V D+ELL+LVEME+RELL++YDF G++T I+ GSAL ALEG DD + I +L
Sbjct: 136 NKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEE-WEAKILEL 194
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTI 894
+D +DS IP P R DKPFLMPIEDVFSISGRGTVVTG++ERGIVK G+E+EIVG K+T
Sbjct: 195 MDAVDSYIPEPERAIDKPFLMPIEDVFSISGRGTVVTGRVERGIVKVGDEVEIVGIKETQ 254
Query: 895 KTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYIL 954
KTT+TG+EMF+K LDEG AG+NVG+LLR KRE+VERGQVLAK GSIK + FE EVY+L
Sbjct: 255 KTTVTGVEMFRKLLDEGQAGDNVGVLLRGTKREDVERGQVLAKPGSIKPHTKFEAEVYVL 314
Query: 955 SKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKLNVTLLSSIAIEIG 1014
SKEEGGRHTPFFNGY+PQFYFRTTDVTG +LPE VEMV+PGDN+K+ V L++ IA+E G
Sbjct: 315 SKEEGGRHTPFFNGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNVKMTVELIAPIAMEEG 374
Query: 1015 LRFAIRE 1021
LRFAIRE
Sbjct: 375 LRFAIRE 381
Score = 62.2 bits (152), Expect = 6e-10
Identities = 45/138 (32%), Positives = 66/138 (47%), Gaps = 19/138 (13%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQ-----QEQERGITITSA 64
N+G I HVD GKTT T I K+ G + Q +E+ RGITI ++
Sbjct: 14 NVGTIGHVDHGKTTLTAAIT-------KVLAKKGGGEAKAYDQIDNAPEEKARGITINTS 66
Query: 65 SVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT-ETVWF 123
V +E Y +D PGH D+ + +DGA++++ A+ G PQT E +
Sbjct: 67 HVE--YETANRHYA--HVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILL 122
Query: 124 QSQKYKVPKMI-FVNKMD 140
Q VP ++ F+NK D
Sbjct: 123 ARQ-VGVPYIVVFLNKCD 139
>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 [Protein synthesis, Translation factors].
Length = 689
Score = 773 bits (1998), Expect = 0.0
Identities = 324/663 (48%), Positives = 458/663 (69%), Gaps = 25/663 (3%)
Query: 8 FRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVS 67
FRNIGI AH+DAGKTTTTERILFY+G HKIGEVH G DWM+QE+ERGITITSA+ +
Sbjct: 10 FRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATT 69
Query: 68 IFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
+FW+ + INIIDTPGHVDFT+EVERSLRVLDGAV ++ A G+QPQ+ETVW Q+ +
Sbjct: 70 VFWK----GHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANR 125
Query: 128 YKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFF 187
Y+VP++ FVNKMD+ GAN+ + IK++ +PI IG E+N+ G++D++ K++F
Sbjct: 126 YEVPRIAFVNKMDKTGANFLRVVNQIKQRLGANAVPIQLPIGAEDNFIGVIDLVEMKAYF 185
Query: 188 W---KENSIIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYIN-NNYSINDIKNSIR 243
+ K I K I D L E ++E ++ DE +EKY+ +I +IKN+IR
Sbjct: 186 FNGDKGTKAIEKEIPSDLLEQAKELRENLVEAVAEFDEELMEKYLEGEELTIEEIKNAIR 245
Query: 244 KLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDVDFKNNDYNINLNSNK------ 297
K VL + P++CGS+ KNKG++ LL+++ +YLPSP DV I+ ++ K
Sbjct: 246 KGVLNCEFFPVLCGSAFKNKGVQLLLDAVVDYLPSPTDVP---AIKGIDPDTEKEIERKA 302
Query: 298 -----FVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSK 352
F +L FK+ DPF+G L+F+R+YSG +K G V NS K KE++ R+++M AN++
Sbjct: 303 SDDEPFSALAFKVATDPFVGQLTFVRVYSGVLKSGSYVKNSRKNKKERVGRLVKMHANNR 362
Query: 353 KDINDAHFGDIVVIVGLKESSTGDTLCSLSENIQLENIETPIPVISISIEPIFKNDQEKL 412
++I + GDI +GLK+++TGDTLC ++ LE +E P PVIS+++EP K DQEK+
Sbjct: 363 EEIKEVRAGDICAAIGLKDTTTGDTLCDPKIDVILERMEFPEPVISLAVEPKTKADQEKM 422
Query: 413 LNILQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYK 472
L K +EDP+ + TG+TI++GMGELHL+IIVDR+ +E ++ + PQV+Y+
Sbjct: 423 GIALGKLAEEDPTFRTFTDPETGQTIIAGMGELHLDIIVDRMKREFKVEANVGAPQVAYR 482
Query: 473 ESIKKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKEFIPAI 532
E+I+ V EGK+ KQSGG+GQYGHV IR EP+ + + F +EI GG IP+E+IPA+
Sbjct: 483 ETIRSKVEVEGKHAKQSGGRGQYGHVKIRFEPL---EPKGYEFVNEIKGGVIPREYIPAV 539
Query: 533 EKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKANSYIL 592
+KG+ + G + GYPV+ IK L +GS+H VDSSE AFK AA++A K+A KKAN +L
Sbjct: 540 DKGLQEAMESGPLAGYPVVDIKATLFDGSYHDVDSSEMAFKLAASLAFKEAGKKANPVLL 599
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYSTDLRSN 652
EPIMKVEV +P E++G V+GD++ +RGII + N + I + +PL E+FGY+TDLRS
Sbjct: 600 EPIMKVEVEVPEEYMGDVMGDLSSRRGIIEGMEARGNVQKIKAEVPLSEMFGYATDLRSF 659
Query: 653 TKG 655
T+G
Sbjct: 660 TQG 662
Score = 67.5 bits (165), Expect = 2e-11
Identities = 45/128 (35%), Positives = 62/128 (48%), Gaps = 7/128 (5%)
Query: 655 GTIGHVDHGKTTLTAAL---TKVSSEIYGGEVR-AFDTIDNAPEEKERGITISTSHVEYE 710
G H+D GKTT T + T +I GEV T+D +EKERGITI+++
Sbjct: 14 GISAHIDAGKTTTTERILFYTGRIHKI--GEVHDGAATMDWMEQEKERGITITSAATTVF 71
Query: 711 SENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNI 770
+ +D PGH D+ + +DGA+ V AV G PQ+ A + VP I
Sbjct: 72 WKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVPRI 131
Query: 771 VVFLNKAD 778
F+NK D
Sbjct: 132 -AFVNKMD 138
>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 740 bits (1914), Expect = 0.0
Identities = 294/660 (44%), Positives = 443/660 (67%), Gaps = 19/660 (2%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSI 68
RNIGI+AH+DAGKTT TERILFY+G HK+GEV GTT+TDWM QEQERGITI SA+ S
Sbjct: 9 RNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSC 68
Query: 69 FWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKY 128
W+ + IN+IDTPGH+DFT EVERSLRVLDGAV++ A +G+QPQTETVW Q+ +Y
Sbjct: 69 DWD----NHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRY 124
Query: 129 KVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFFW 188
+P++IF+NKMDR+GA+ + DI+++F LP+ IG E+ +EG+VD+I + +
Sbjct: 125 GIPRLIFINKMDRVGADLFKVLEDIEERFGKRPLPLQLPIGSEDGFEGVVDLITEPELHF 184
Query: 189 KENS----IIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINNNYSIND-IKNSIR 243
E + I ++ L + E ++E L+ D+ LE Y+ + ++ +R
Sbjct: 185 SEGDGGSTVEEGPIPEELLEEVEEAREKLIEALAEFDDELLELYLEGEELSAEQLRAPLR 244
Query: 244 KLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDVD----FKNNDYNINLNSN--- 296
+ ++P++ GS+LKN GIE LL+++ +YLPSP +V K+N + ++ +
Sbjct: 245 EGTRSGHLVPVLFGSALKNIGIEPLLDAVVDYLPSPLEVPPPRGSKDNGKPVKVDPDPEK 304
Query: 297 KFVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKKDIN 356
++LVFK+ +DP+ G L+++R+YSG ++ G +YN T +EK+ R+ R+ N +++++
Sbjct: 305 PLLALVFKVQYDPYAGKLTYLRVYSGTLRAGSQLYNGTGGKREKVGRLFRLQGNKREEVD 364
Query: 357 DAHFGDIVVIVGLKESSTGDTLCSLSENIQLENIETPIPVISISIEPIFKNDQEKLLNIL 416
A GDIV + GLKE TGDTL ++ + LE + P PV+S+++EP + D++KL L
Sbjct: 365 RAKAGDIVAVAGLKELETGDTLHDSADPVLLELLTFPEPVVSLAVEPERRGDEQKLAEAL 424
Query: 417 QKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKESIK 476
+K EDPSL + + TG+TILSGMGELHLE+ ++R+ +E ++ KPQV+Y+E+I+
Sbjct: 425 EKLVWEDPSLRVEEDEETGQTILSGMGELHLEVALERLRREFKLEVNTGKPQVAYRETIR 484
Query: 477 KIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKEFIPAIEKGI 536
K+ ++ KQ GGKGQ+G V +R+EP LE FIF S+++GG+IP+E IPA+EKGI
Sbjct: 485 KMAEGVYRHKKQFGGKGQFGEVHLRVEP--LERGAGFIFVSKVVGGAIPEELIPAVEKGI 542
Query: 537 MNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKANSYILEPIM 596
+ G + GYPV ++V +++G +H VDSSE AFK AA A +A +KAN +LEPIM
Sbjct: 543 REALASGPLAGYPVTDLRVTVLDGKYHPVDSSESAFKAAARKAFLEAFRKANPVLLEPIM 602
Query: 597 KVEVNLPSEFLGIVVGDINKKRGIINTIID-HENFKIINSYIPLRELFGYSTDLRSNTKG 655
++E+ +P+E +G V+GD++++RG I + ++ + PL ELFGY+T LRS TKG
Sbjct: 603 ELEITVPTEHVGDVLGDLSQRRGRIEGTEPRGDGEVLVKAEAPLAELFGYATRLRSMTKG 662
Score = 90.8 bits (226), Expect = 1e-18
Identities = 51/145 (35%), Positives = 79/145 (54%), Gaps = 5/145 (3%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYG-GEVRAFDTI-DNAPEEKERGITISTSHVEYESE 712
G + H+D GKTTLT + + +I+ GEV T+ D P+E+ERGITI ++ + +
Sbjct: 12 GILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWD 71
Query: 713 NKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVV 772
N +D PGH D+ + +DGA++V AV G PQT A + G+P ++
Sbjct: 72 NHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIP-RLI 130
Query: 773 FLNKADCVQDKELLDLVEMEIRELL 797
F+NK D V +L ++E +I E
Sbjct: 131 FINKMDRVGA-DLFKVLE-DIEERF 153
>gnl|CDD|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed.
Length = 394
Score = 712 bits (1839), Expect = 0.0
Identities = 257/367 (70%), Positives = 307/367 (83%), Gaps = 3/367 (0%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+TKV +E + + +D+ID APEEKERGITI+T+HVEYE+E +
Sbjct: 16 GTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKR 75
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDGAILV +A DGPMPQTREHILLARQVGVP +VVFL
Sbjct: 76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYLVVFL 135
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NK D V D+ELL+LVEME+RELL+EYDF G++ ++ GSAL ALEG +I +L
Sbjct: 136 NKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSALKALEGDPKW---EDAIMEL 192
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTI 894
+D +D IPTP R TDKPFLMP+EDVF+I+GRGTVVTG++ERG VK G+E+EIVG K+T
Sbjct: 193 MDAVDEYIPTPERDTDKPFLMPVEDVFTITGRGTVVTGRVERGTVKVGDEVEIVGIKETQ 252
Query: 895 KTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYIL 954
KT +TG+EMF+K LDEG AG+NVG+LLR V R+EVERGQVLAK GSIK + F+ EVYIL
Sbjct: 253 KTVVTGVEMFRKLLDEGQAGDNVGVLLRGVDRDEVERGQVLAKPGSIKPHTKFKAEVYIL 312
Query: 955 SKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKLNVTLLSSIAIEIG 1014
+KEEGGRHTPFFN Y+PQFYFRTTDVTG +LPE EMV+PGDN+ + V L+ IA+E G
Sbjct: 313 TKEEGGRHTPFFNNYRPQFYFRTTDVTGSIELPEGTEMVMPGDNVTITVELIHPIAMEQG 372
Query: 1015 LRFAIRE 1021
L+FAIRE
Sbjct: 373 LKFAIRE 379
Score = 66.5 bits (163), Expect = 2e-11
Identities = 46/137 (33%), Positives = 68/137 (49%), Gaps = 17/137 (12%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQ-----QEQERGITITSA 64
NIG I HVD GKTT T I K+ D+ +E+ERGITI +A
Sbjct: 14 NIGTIGHVDHGKTTLTAAIT-------KVLAERGLNQAKDYDSIDAAPEEKERGITINTA 66
Query: 65 SVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
V +E K Y +D PGH D+ + +DGA++++ A+ G PQT
Sbjct: 67 HVE--YETEKRHYA--HVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILL 122
Query: 125 SQKYKVPKMI-FVNKMD 140
+++ VP ++ F+NK+D
Sbjct: 123 ARQVGVPYLVVFLNKVD 139
>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors [Translation,
ribosomal structure and biogenesis].
Length = 394
Score = 677 bits (1749), Expect = 0.0
Identities = 269/367 (73%), Positives = 312/367 (85%), Gaps = 3/367 (0%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+T V ++ G E +A+D IDNAPEEK RGITI+T+HVEYE+ N+
Sbjct: 16 GTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANR 75
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDGAILV +A DGPMPQTREHILLARQVGVP IVVFL
Sbjct: 76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYIVVFL 135
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NK D V D+ELL+LVEME+RELL+EY F G++T I+ GSAL ALEG I++L
Sbjct: 136 NKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIRGSALKALEGDAK---WEAKIEEL 192
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTI 894
+D +DS IPTP R DKPFLMP+EDVFSISGRGTVVTG++ERGI+K GEE+EIVG K+T
Sbjct: 193 MDAVDSYIPTPERDIDKPFLMPVEDVFSISGRGTVVTGRVERGILKVGEEVEIVGIKETQ 252
Query: 895 KTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYIL 954
KTT+TG+EMF+K LDEG AG+NVG+LLR VKRE+VERGQVLAK GSIK + FE EVY+L
Sbjct: 253 KTTVTGVEMFRKLLDEGQAGDNVGVLLRGVKREDVERGQVLAKPGSIKPHTKFEAEVYVL 312
Query: 955 SKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKLNVTLLSSIAIEIG 1014
SKEEGGRHTPFF+GY+PQFYFRTTDVTG LPE VEMV+PGDN+K+ V L+ IA+E G
Sbjct: 313 SKEEGGRHTPFFHGYRPQFYFRTTDVTGAITLPEGVEMVMPGDNVKMVVELIHPIAMEEG 372
Query: 1015 LRFAIRE 1021
LRFAIRE
Sbjct: 373 LRFAIRE 379
Score = 71.6 bits (176), Expect = 5e-13
Identities = 44/132 (33%), Positives = 66/132 (50%), Gaps = 7/132 (5%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
N+G I HVD GKTT T I + K G D +E+ RGITI +A V
Sbjct: 14 NVGTIGHVDHGKTTLTAAITTV--LAKKGGAEAKAYDQIDNAPEEKARGITINTAHV--E 69
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYK 129
+E Y +D PGH D+ + +DGA++++ A+ G PQT +++
Sbjct: 70 YETANRHY--AHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVG 127
Query: 130 VPKMI-FVNKMD 140
VP ++ F+NK+D
Sbjct: 128 VPYIVVFLNKVD 139
>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU. This model
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 [Protein synthesis,
Translation factors].
Length = 394
Score = 648 bits (1674), Expect = 0.0
Identities = 271/367 (73%), Positives = 312/367 (85%), Gaps = 3/367 (0%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+T V ++ G RA+D IDNAPEEK RGITI+T+HVEYE+EN+
Sbjct: 16 GTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENR 75
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDGAILV SA DGPMPQTREHILLARQVGVP IVVFL
Sbjct: 76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFL 135
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NK D V D+ELL+LVEME+RELL+EYDF G++T I+ GSAL ALEG D + I +L
Sbjct: 136 NKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGSALKALEG--DAE-WEAKILEL 192
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTI 894
+D +D IPTP R TDKPFLMPIEDVFSI+GRGTVVTG++ERGIVK GEE+EIVG K T
Sbjct: 193 MDAVDEYIPTPERETDKPFLMPIEDVFSITGRGTVVTGRVERGIVKVGEEVEIVGLKDTR 252
Query: 895 KTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYIL 954
KTT+TG+EMF+K LDEG AG+NVG+LLR +KREE+ERG VLAK GSIK + FE EVY+L
Sbjct: 253 KTTVTGVEMFRKELDEGRAGDNVGLLLRGIKREEIERGMVLAKPGSIKPHTKFEAEVYVL 312
Query: 955 SKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKLNVTLLSSIAIEIG 1014
KEEGGRHTPFF+GY+PQFYFRTTDVTG LPE VEMV+PGDN+K+ V L+S IA+E G
Sbjct: 313 KKEEGGRHTPFFSGYRPQFYFRTTDVTGSITLPEGVEMVMPGDNVKMTVELISPIALEQG 372
Query: 1015 LRFAIRE 1021
+RFAIRE
Sbjct: 373 MRFAIRE 379
Score = 68.3 bits (167), Expect = 7e-12
Identities = 43/139 (30%), Positives = 67/139 (48%), Gaps = 17/139 (12%)
Query: 10 NIGIIAHVDAGKTTTTERI-----LFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSA 64
NIG I HVD GKTT T I ++ ++ D +E+ RGITI +A
Sbjct: 14 NIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQI-------DNAPEEKARGITINTA 66
Query: 65 SVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
V +E Y +D PGH D+ + +DGA++++ A+ G PQT
Sbjct: 67 HVE--YETENRHYA--HVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILL 122
Query: 125 SQKYKVPKMI-FVNKMDRI 142
+++ VP ++ F+NK D +
Sbjct: 123 ARQVGVPYIVVFLNKCDMV 141
>gnl|CDD|177010 CHL00071, tufA, elongation factor Tu.
Length = 409
Score = 630 bits (1627), Expect = 0.0
Identities = 252/380 (66%), Positives = 303/380 (79%), Gaps = 14/380 (3%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+T + G + + +D ID+APEEK RGITI+T+HVEYE+EN+
Sbjct: 16 GTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENR 75
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDGAILV SA DGPMPQT+EHILLA+QVGVPNIVVFL
Sbjct: 76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFL 135
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALE--------GKDDNQL 826
NK D V D+ELL+LVE+E+RELL++YDF G++ IV GSALLALE + +N+
Sbjct: 136 NKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSGSALLALEALTENPKIKRGENKW 195
Query: 827 GTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIE 886
I L+D +DS IPTP R TDKPFLM IEDVFSI+GRGTV TG+IERG VK G+ +E
Sbjct: 196 -VDKIYNLMDAVDSYIPTPERDTDKPFLMAIEDVFSITGRGTVATGRIERGTVKVGDTVE 254
Query: 887 IVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNI 946
IVG ++T TT+TG+EMF+KTLDEGLAG+NVGILLR +++E++ERG VLAK G+I +
Sbjct: 255 IVGLRETKTTTVTGLEMFQKTLDEGLAGDNVGILLRGIQKEDIERGMVLAKPGTITPHTK 314
Query: 947 FECEVYILSKEEGGRHTPFFNGYKPQFYFRTTDVTGICKL-----PENVEMVLPGDNIKL 1001
FE +VYIL+KEEGGRHTPFF GY+PQFY RTTDVTG + EMV+PGD IK+
Sbjct: 315 FEAQVYILTKEEGGRHTPFFPGYRPQFYVRTTDVTGKIESFTADDGSKTEMVMPGDRIKM 374
Query: 1002 NVTLLSSIAIEIGLRFAIRE 1021
V L+ IAIE G+RFAIRE
Sbjct: 375 TVELIYPIAIEKGMRFAIRE 394
Score = 62.3 bits (152), Expect = 6e-10
Identities = 45/139 (32%), Positives = 69/139 (49%), Gaps = 17/139 (12%)
Query: 10 NIGIIAHVDAGKTTTTERI-----LFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSA 64
NIG I HVD GKTT T I + K E+ D +E+ RGITI +A
Sbjct: 14 NIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEI-------DSAPEEKARGITINTA 66
Query: 65 SVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
V +E Y +D PGH D+ + +DGA++++ A+ G PQT+
Sbjct: 67 HVE--YETENRHYA--HVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILL 122
Query: 125 SQKYKVPKMI-FVNKMDRI 142
+++ VP ++ F+NK D++
Sbjct: 123 AKQVGVPNIVVFLNKEDQV 141
>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional.
Length = 447
Score = 631 bits (1628), Expect = 0.0
Identities = 244/369 (66%), Positives = 300/369 (81%), Gaps = 3/369 (0%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+TKV +E + AFD ID APEEK RGITI+T+HVEYE+ +
Sbjct: 65 GTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKR 124
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDG ILV SA DGPMPQT+EHILLARQVGVP++VVFL
Sbjct: 125 HYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVFL 184
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NK D V D+ELL+LVEME+RELL+ Y F G+ I+ GSAL AL+G +D ++G +I KL
Sbjct: 185 NKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRGSALSALQGTND-EIGKNAILKL 243
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQ-- 892
+D +D IP P R+ DKPFLMPIEDVFSI GRGTV TG++E+G +K GEE+EIVG +
Sbjct: 244 MDAVDEYIPEPVRVLDKPFLMPIEDVFSIQGRGTVATGRVEQGTIKVGEEVEIVGLRPGG 303
Query: 893 TIKTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVY 952
+KTT+TG+EMFKK LD+G AG+NVG+LLR +KRE+V+RGQV+ K GSIK+Y FE E+Y
Sbjct: 304 PLKTTVTGVEMFKKILDQGQAGDNVGLLLRGLKREDVQRGQVICKPGSIKTYKKFEAEIY 363
Query: 953 ILSKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKLNVTLLSSIAIE 1012
+L+K+EGGRHTPFF+ Y+PQFY RT DVTG +LPE V+MV+PGDN+ L+S + +E
Sbjct: 364 VLTKDEGGRHTPFFSNYRPQFYLRTADVTGKVELPEGVKMVMPGDNVTAVFELISPVPLE 423
Query: 1013 IGLRFAIRE 1021
G RFA+RE
Sbjct: 424 PGQRFALRE 432
Score = 65.6 bits (160), Expect = 6e-11
Identities = 45/137 (32%), Positives = 69/137 (50%), Gaps = 17/137 (12%)
Query: 10 NIGIIAHVDAGKTTTTERI---LFYSGSSHKIG--EVHHGTTITDWMQQEQERGITITSA 64
N+G I HVD GKTT T I L G + + E+ D +E+ RGITI +A
Sbjct: 63 NVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEI-------DKAPEEKARGITIATA 115
Query: 65 SVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
V +E K Y +D PGH D+ + +DG ++++ A G PQT+
Sbjct: 116 HVE--YETAKRHYA--HVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILL 171
Query: 125 SQKYKVPKMI-FVNKMD 140
+++ VP ++ F+NK+D
Sbjct: 172 ARQVGVPSLVVFLNKVD 188
>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional.
Length = 478
Score = 525 bits (1353), Expect = e-177
Identities = 234/380 (61%), Positives = 293/380 (77%), Gaps = 14/380 (3%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAALT + + G + +D ID APEE+ RGITI+T+ VEYE+EN+
Sbjct: 85 GTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENR 144
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADY+KNMITGAAQMDGAILV S DGPMPQT+EHILLA+QVGVPN+VVFL
Sbjct: 145 HYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVPNMVVFL 204
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEG--------KDDNQL 826
NK D V D+ELL+LVE+E+RELL+ Y+F G++ I+ GSALLALE + DN+
Sbjct: 205 NKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSALLALEALMENPNIKRGDNKW 264
Query: 827 GTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIE 886
I +L+D +DS IP P R TD PFL+ +EDVFSI+GRGTV TG++ERG VK GE ++
Sbjct: 265 -VDKIYELMDAVDSYIPIPQRQTDLPFLLAVEDVFSITGRGTVATGRVERGTVKVGETVD 323
Query: 887 IVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNI 946
IVG ++T TT+TG+EMF+K LDE LAG+NVG+LLR +++ +++RG VLAK GSI +
Sbjct: 324 IVGLRETRSTTVTGVEMFQKILDEALAGDNVGLLLRGIQKADIQRGMVLAKPGSITPHTK 383
Query: 947 FECEVYILSKEEGGRHTPFFNGYKPQFYFRTTDVTG-----ICKLPENVEMVLPGDNIKL 1001
FE VY+L KEEGGRH+PFF GY+PQFY RTTDVTG + E +MV+PGD +K+
Sbjct: 384 FEAIVYVLKKEEGGRHSPFFAGYRPQFYMRTTDVTGKVTSIMNDKDEESKMVMPGDRVKM 443
Query: 1002 NVTLLSSIAIEIGLRFAIRE 1021
V L+ +A E G+RFAIRE
Sbjct: 444 VVELIVPVACEQGMRFAIRE 463
Score = 70.4 bits (172), Expect = 2e-12
Identities = 43/139 (30%), Positives = 69/139 (49%), Gaps = 17/139 (12%)
Query: 10 NIGIIAHVDAGKTTTTERILFY-----SGSSHKIGEVHHGTTITDWMQQEQERGITITSA 64
NIG I HVD GKTT T + + K E+ D +E+ RGITI +A
Sbjct: 83 NIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEI-------DAAPEERARGITINTA 135
Query: 65 SVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
+V E + + +D PGH D+ + +DGA++++ + G PQT+
Sbjct: 136 TVEYETENRHYAH----VDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILL 191
Query: 125 SQKYKVPKM-IFVNKMDRI 142
+++ VP M +F+NK D++
Sbjct: 192 AKQVGVPNMVVFLNKQDQV 210
>gnl|CDD|206673 cd01886, EF-G, Elongation factor G (EF-G) family involved in both
the elongation and ribosome recycling phases of protein
synthesis. Translocation is mediated by EF-G (also
called translocase). The structure of EF-G closely
resembles that of the complex between EF-Tu and tRNA.
This is an example of molecular mimicry; a protein
domain evolved so that it mimics the shape of a tRNA
molecule. EF-G in the GTP form binds to the ribosome,
primarily through the interaction of its EF-Tu-like
domain with the 50S subunit. The binding of EF-G to the
ribosome in this manner stimulates the GTPase activity
of EF-G. On GTP hydrolysis, EF-G undergoes a
conformational change that forces its arm deeper into
the A site on the 30S subunit. To accommodate this
domain, the peptidyl-tRNA in the A site moves to the P
site, carrying the mRNA and the deacylated tRNA with it.
The ribosome may be prepared for these rearrangements by
the initial binding of EF-G as well. The dissociation of
EF-G leaves the ribosome ready to accept the next
aminoacyl-tRNA into the A site. This group contains both
eukaryotic and bacterial members.
Length = 270
Score = 427 bits (1101), Expect = e-143
Identities = 142/274 (51%), Positives = 195/274 (71%), Gaps = 8/274 (2%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
NIGIIAH+DAGKTTTTERIL+Y+G HKIGEVH G DWM+QE+ERGITI SA+ + F
Sbjct: 1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDWMEQERERGITIQSAATTCF 60
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYK 129
W+ + INIIDTPGHVDFTIEVERSLRVLDGAV + A +G+QPQTETVW Q+ +Y
Sbjct: 61 WK----DHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVQPQTETVWRQADRYG 116
Query: 130 VPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFFWK 189
VP++ FVNKMDR GA++ + I++K +P+ IG E+++EG+VD+I K+ +W
Sbjct: 117 VPRIAFVNKMDRTGADFYRVVEQIREKLGANPVPLQLPIGAEDDFEGVVDLIEMKALYWD 176
Query: 190 ENS---IIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINNN-YSINDIKNSIRKL 245
I +I +D L + E ++ETL+ D+ +EKY+ + +IK +IRK
Sbjct: 177 GELGEKIEETDIPEDLLEEAEEAREELIETLAEVDDELMEKYLEGEEITEEEIKAAIRKG 236
Query: 246 VLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSP 279
+ NKI+P++CGS+ KNKG++ LL+++ +YLPSP
Sbjct: 237 TIANKIVPVLCGSAFKNKGVQPLLDAVVDYLPSP 270
Score = 70.6 bits (174), Expect = 4e-13
Identities = 47/132 (35%), Positives = 63/132 (47%), Gaps = 15/132 (11%)
Query: 655 GTIGHVDHGKTTLTAA---LTKVSSEIYGGEVRAFDTI-DNAPEEKERGITISTSHVEYE 710
G I H+D GKTT T T +I GEV D +E+ERGITI ++
Sbjct: 3 GIIAHIDAGKTTTTERILYYTGRIHKI--GEVHGGGATMDWMEQERERGITIQSAATTCF 60
Query: 711 SENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQT----REHILLARQVG 766
++ +D PGH D+ + +DGA+ V AV G PQT R+ A + G
Sbjct: 61 WKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVQPQTETVWRQ----ADRYG 116
Query: 767 VPNIVVFLNKAD 778
VP I F+NK D
Sbjct: 117 VPRI-AFVNKMD 127
>gnl|CDD|206671 cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-binding proteins.
EF-Tu subfamily. This subfamily includes orthologs of
translation elongation factor EF-Tu in bacteria,
mitochondria, and chloroplasts. It is one of several
GTP-binding translation factors found in the larger
family of GTP-binding elongation factors. The eukaryotic
counterpart, eukaryotic translation elongation factor 1
(eEF-1 alpha), is excluded from this family. 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 = 195
Score = 385 bits (992), Expect = e-128
Identities = 142/191 (74%), Positives = 161/191 (84%), Gaps = 1/191 (0%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GTIGHVDHGKTTLTAA+TKV ++ G + + +D ID APEEK RGITI+T+HVEYE+ N+
Sbjct: 6 GTIGHVDHGKTTLTAAITKVLAKKGGAKAKKYDEIDKAPEEKARGITINTAHVEYETANR 65
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
HYAHVDCPGHADYIKNMITGAAQMDGAILV SA DGPMPQTREH+LLARQVGVP IVVFL
Sbjct: 66 HYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVFL 125
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NKAD V D+ELL+LVEME+RELL++Y FDG++T IV GSAL ALEG D N I +L
Sbjct: 126 NKADMVDDEELLELVEMEVRELLSKYGFDGDDTPIVRGSALKALEGDDPN-KWVDKILEL 184
Query: 835 LDVLDSSIPTP 845
LD LDS IPTP
Sbjct: 185 LDALDSYIPTP 195
Score = 61.4 bits (150), Expect = 1e-10
Identities = 45/133 (33%), Positives = 65/133 (48%), Gaps = 9/133 (6%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
N+G I HVD GKTT T I + + I D +E+ RGITI +A V
Sbjct: 4 NVGTIGHVDHGKTTLTAAITKVL-AKKGGAKAKKYDEI-DKAPEEKARGITINTAHV--E 59
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT-ETVWFQSQKY 128
+E Y +D PGH D+ + +DGA++++ A+ G PQT E + Q
Sbjct: 60 YETANRHY--AHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQ-V 116
Query: 129 KVPKMI-FVNKMD 140
VP ++ F+NK D
Sbjct: 117 GVPYIVVFLNKAD 129
>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 [Protein synthesis, Translation factors].
Length = 720
Score = 277 bits (709), Expect = 2e-80
Identities = 196/712 (27%), Positives = 344/712 (48%), Gaps = 107/712 (15%)
Query: 7 YFRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASV 66
+ RNIGI+AH+D GKTT ++ +L +G + E+ D+ +QEQERGITI +A+V
Sbjct: 18 FIRNIGIVAHIDHGKTTLSDNLLAGAGMISE--ELAGQQLYLDFDEQEQERGITINAANV 75
Query: 67 SIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQ 126
S+ E +Y+IN+IDTPGHVDF +V R++R +DGA++++CA G+ PQTETV Q+
Sbjct: 76 SMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQAL 135
Query: 127 KYKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSF 186
K V ++F+NK+DR+ I ++K + +E E + II
Sbjct: 136 KENVKPVLFINKVDRL-------INELK-------------LTPQELQERFIKIIT---- 171
Query: 187 FWKENSIIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINNNYSINDIK------N 240
E + +IK + ++ + + + + F Y N S+ +K
Sbjct: 172 ---EVNKLIKAMAPEE------FRDKWKVRVEDGSVAFGSAYYNWAISVPSMKKTGIGFK 222
Query: 241 SIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPY-------------DVDFKNN 287
I K ++K + S L + +L+ + +LPSP D++ +
Sbjct: 223 DIYKYCKEDKQKELAKKSPLH----QVVLDMVIRHLPSPIEAQKYRIPVIWKGDLNSEVG 278
Query: 288 DYNINLNSNKFVSLVF-KIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILR 346
+N + ++L+ KI D G ++ R+YSG I+ G VY +K K +I ++
Sbjct: 279 KAMLNCDPKGPLALMITKIVVDKHAGEVAVGRLYSGTIRPGMEVYIVDRKAKARIQQVGV 338
Query: 347 MFANSKKDINDAHFGDIVVIVGLKESSTGDTLCSLSENIQ-LENIE-TPIPVISISIEPI 404
+ ++++ G+IV ++GLK++ G+T+C+ ENI E+I+ PV++++IE
Sbjct: 339 YMGPERVEVDEIPAGNIVAVIGLKDAVAGETICTTVENITPFESIKHISEPVVTVAIEAK 398
Query: 405 FKNDQEKLLNILQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKI 464
D KL+ +L++ KEDP++ + IN TGE ++SGMGELHLEIIV++I ++ + +
Sbjct: 399 NTKDLPKLIEVLRQVAKEDPTVHVEINEETGEHLISGMGELHLEIIVEKIREDYGLDVET 458
Query: 465 SKPQVSYKESIKKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLE----NKENFIFKSEII 520
S P V Y+E+ VT + + ++ I +EP+ KE I ++
Sbjct: 459 SPPIVVYRET----VTGTSPVV-EGKSPNKHNRFYIVVEPLEESVIQAFKEGKIVDMKMK 513
Query: 521 GGSIPKEFIPA---------------------IEKGI--MNQINYGVVLGY--------- 548
+ I A + +GI +++ ++ G+
Sbjct: 514 KKERRRLLIEAGMDSEEAARVEEYYEGNLFINMTRGIQYLDETKELILEGFREAMRNGPI 573
Query: 549 ---PVIKIKVFLVNGSFH--SVDSSEYAFKNAAAIALKDALKKANSYILEPIMKVEVNLP 603
+ +KV L++ H +V A + A+ +A +LEP KV +N+P
Sbjct: 574 AREKCMGVKVKLMDAKLHEDAVHRGPAQVIPAVRSGIFAAMMQAKPVLLEPYQKVFINVP 633
Query: 604 SEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYSTDLRSNTKG 655
+ +G +I +RG I + + I + P+ E+FG++ +R T G
Sbjct: 634 QDMMGAATREIQNRRGQILEMKQEGDMVTIIAKAPVAEMFGFAGAIRGATSG 685
Score = 79.2 bits (195), Expect = 7e-15
Identities = 60/189 (31%), Positives = 92/189 (48%), Gaps = 35/189 (18%)
Query: 655 GTIGHVDHGKTTLT----AALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHV--- 707
G + H+DHGKTTL+ A +S E+ G+ D + +E+ERGITI+ ++V
Sbjct: 23 GIVAHIDHGKTTLSDNLLAGAGMISEEL-AGQQLYLDFDE---QEQERGITINAANVSMV 78
Query: 708 -EYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVG 766
EYE +D PGH D+ ++ +DGAI+V AV+G MPQT E +L RQ
Sbjct: 79 HEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQT-ETVL--RQAL 135
Query: 767 VPNI--VVFLNKADCVQDKELLDLVEMEIR------------------ELLTEYDFDGEN 806
N+ V+F+NK D + ++ L E++ R E ++ E+
Sbjct: 136 KENVKPVLFINKVDRLINELKLTPQELQERFIKIITEVNKLIKAMAPEEFRDKWKVRVED 195
Query: 807 TKIVIGSAL 815
+ GSA
Sbjct: 196 GSVAFGSAY 204
>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain. This
domain contains a P-loop motif, also found in several
other families such as pfam00071, pfam00025 and
pfam00063. Elongation factor Tu consists of three
structural domains, this plus two C-terminal beta barrel
domains.
Length = 184
Score = 252 bits (645), Expect = 6e-78
Identities = 92/190 (48%), Positives = 118/190 (62%), Gaps = 12/190 (6%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
G IGHVDHGKTTLT AL V+ I + +D EE+ERGITI + V +E++ +
Sbjct: 7 GIIGHVDHGKTTLTDALLYVTGAISKESAKGARVLDKLKEERERGITIKIAAVSFETKKR 66
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
+D PGH D+ K MI GA+Q DGAILV AV+G MPQTREH+LLA+ +GVP I+VF+
Sbjct: 67 LINIIDTPGHVDFTKEMIRGASQADGAILVVDAVEGVMPQTREHLLLAKTLGVP-IIVFI 125
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
NK D V D EL ++VE RELL +Y F GE +V GSAL I +L
Sbjct: 126 NKIDRVDDAELEEVVEEISRELLEKYGFGGETVPVVPGSALTGE-----------GIDEL 174
Query: 835 LDVLDSSIPT 844
L+ LD +P+
Sbjct: 175 LEALDLYLPS 184
Score = 200 bits (510), Expect = 4e-59
Identities = 69/185 (37%), Positives = 104/185 (56%), Gaps = 18/185 (9%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSI 68
RNIGII HVD GKTT T+ +L+ +G+ K E G + D +++E+ERGITI A+VS
Sbjct: 4 RNIGIIGHVDHGKTTLTDALLYVTGAISK--ESAKGARVLDKLKEERERGITIKIAAVSF 61
Query: 69 FWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKY 128
+ K +INIIDTPGHVDFT E+ R DGA++++ A G+ PQT ++
Sbjct: 62 ETK----KRLINIIDTPGHVDFTKEMIRGASQADGAILVVDAVEGVMPQTREHLLLAKTL 117
Query: 129 KVPKMIFVNKMDRI-GANYNNCIIDIKKKF---------NCIVLPIN--FNIGIEENYEG 176
VP ++F+NK+DR+ A + +I ++ V+P + GI+E E
Sbjct: 118 GVPIIVFINKIDRVDDAELEEVVEEISRELLEKYGFGGETVPVVPGSALTGEGIDELLEA 177
Query: 177 IVDII 181
+ +
Sbjct: 178 LDLYL 182
Score = 36.3 bits (85), Expect = 0.035
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 242 IRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPS 278
+ K + +P++ GS+L +GI+ LL ++ YLPS
Sbjct: 148 LEKYGFGGETVPVVPGSALTGEGIDELLEALDLYLPS 184
>gnl|CDD|206731 cd04168, TetM_like, Tet(M)-like family includes Tet(M), Tet(O),
Tet(W), and OtrA, containing tetracycline resistant
proteins. Tet(M), Tet(O), Tet(W), and OtrA are
tetracycline resistance genes found in Gram-positive and
Gram-negative bacteria. Tetracyclines inhibit protein
synthesis by preventing aminoacyl-tRNA from binding to
the ribosomal acceptor site. This subfamily contains
tetracycline resistance proteins that function through
ribosomal protection and are typically found on mobile
genetic elements, such as transposons or plasmids, and
are often conjugative. Ribosomal protection proteins are
homologous to the elongation factors EF-Tu and EF-G.
EF-G and Tet(M) compete for binding on the ribosomes.
Tet(M) has a higher affinity than EF-G, suggesting these
two proteins may have overlapping binding sites and that
Tet(M) must be released before EF-G can bind. Tet(M) and
Tet(O) have been shown to have ribosome-dependent GTPase
activity. These proteins are part of the GTP translation
factor family, which includes EF-G, EF-Tu, EF2, LepA,
and SelB.
Length = 237
Score = 247 bits (632), Expect = 3e-75
Identities = 105/271 (38%), Positives = 149/271 (54%), Gaps = 35/271 (12%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
NIGI+AHVDAGKTT TE +L+ SG+ ++G V GTT TD M+ E++RGITI SA S
Sbjct: 1 NIGILAHVDAGKTTLTESLLYTSGAIRELGSVDKGTTRTDSMELERQRGITIFSAVASFQ 60
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYK 129
WE K +NIIDTPGH+DF EVERSL VLDGA+++I A G+Q QT ++ +K
Sbjct: 61 WEDTK----VNIIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILFRLLRKLN 116
Query: 130 VPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFFWK 189
+P +IFVNK+DR GA+ +IK+K + DI+ +
Sbjct: 117 IPTIIFVNKIDRAGADLEKVYQEIKEKLS-------------------PDIVPMQKVGLY 157
Query: 190 ENSIIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINNNY-SINDIKNSIRKLVLK 248
N NID +Q +ET++ ++ LEKY++ ++ N + + K
Sbjct: 158 PNICDTNNIDDEQ-----------IETVAEGNDELLEKYLSGGPLEELELDNELSARIQK 206
Query: 249 NKIIPIMCGSSLKNKGIEFLLNSICEYLPSP 279
+ P+ GS+LK GI+ LL I P+
Sbjct: 207 ASLFPVYHGSALKGIGIDELLEGITNLFPTS 237
Score = 91.9 bits (229), Expect = 1e-20
Identities = 56/149 (37%), Positives = 83/149 (55%), Gaps = 9/149 (6%)
Query: 655 GTIGHVDHGKTTLTAAL---TKVSSEIYGGEVRAFDTI-DNAPEEKERGITISTSHVEYE 710
G + HVD GKTTLT +L + E+ G V T D+ E++RGITI ++ ++
Sbjct: 3 GILAHVDAGKTTLTESLLYTSGAIREL--GSVDKGTTRTDSMELERQRGITIFSAVASFQ 60
Query: 711 SENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNI 770
E+ +D PGH D+I + + +DGAILV SAV+G QTR L R++ +P I
Sbjct: 61 WEDTKVNIIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILFRLLRKLNIPTI 120
Query: 771 VVFLNKADCVQDKELLDLVEMEIRELLTE 799
+F+NK D + L+ V EI+E L+
Sbjct: 121 -IFVNKID--RAGADLEKVYQEIKEKLSP 146
>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family.
Translocation is mediated by EF-G (also called
translocase). The structure of EF-G closely resembles
that of the complex between EF-Tu and tRNA. This is an
example of molecular mimicry; a protein domain evolved
so that it mimics the shape of a tRNA molecule. EF-G in
the GTP form binds to the ribosome, primarily through
the interaction of its EF-Tu-like domain with the 50S
subunit. The binding of EF-G to the ribosome in this
manner stimulates the GTPase activity of EF-G. On GTP
hydrolysis, EF-G undergoes a conformational change that
forces its arm deeper into the A site on the 30S
subunit. To accommodate this domain, the peptidyl-tRNA
in the A site moves to the P site, carrying the mRNA and
the deacylated tRNA with it. The ribosome may be
prepared for these rearrangements by the initial binding
of EF-G as well. The dissociation of EF-G leaves the
ribosome ready to accept the next aminoacyl-tRNA into
the A site. This group contains only bacterial members.
Length = 268
Score = 225 bits (577), Expect = 4e-67
Identities = 84/272 (30%), Positives = 158/272 (58%), Gaps = 6/272 (2%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
NI ++ H +GKTT E +L+ +G+ ++G V G T++D+ +E++R ++I ++ +
Sbjct: 1 NIALVGHSGSGKTTLAEALLYATGAIDRLGRVEDGNTVSDYDPEEKKRKMSIETSVAPLE 60
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYK 129
W +K IN+IDTPG+ DF E +LR +D A+I++ A SG++ TE VW K
Sbjct: 61 WNGHK----INLIDTPGYADFVGETLSALRAVDAALIVVEAQSGVEVGTEKVWEFLDDAK 116
Query: 130 VPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKSFFWK 189
+P++IF+NKMDR A+++ + +++ F V+PI IG + + G+VD++++K++ +
Sbjct: 117 LPRIIFINKMDRARADFDKTLAALREAFGRPVVPIQLPIGEGDEFTGVVDLLSEKAYRYD 176
Query: 190 ENS-IIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINN-NYSINDIKNSIRKLVL 247
+ I ++ E +LE ++ DE +EKY+ + +++ +R+ +
Sbjct: 177 PGEPSVEIEIPEELKEKVAEAREELLEAVAETDEELMEKYLEEGELTEEELRAGLRRALR 236
Query: 248 KNKIIPIMCGSSLKNKGIEFLLNSICEYLPSP 279
I+P+ GS+L G+ LL+++ E PSP
Sbjct: 237 AGLIVPVFFGSALTGIGVRRLLDALVELAPSP 268
Score = 81.9 bits (203), Expect = 6e-17
Identities = 39/124 (31%), Positives = 60/124 (48%), Gaps = 3/124 (2%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYG-GEVRAFDTI-DNAPEEKERGITISTSHVEYESENK 714
+GH GKTTL AL + I G V +T+ D PEEK+R ++I TS E
Sbjct: 5 VGHSGSGKTTLAEALLYATGAIDRLGRVEDGNTVSDYDPEEKKRKMSIETSVAPLEWNGH 64
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
+D PG+AD++ ++ +D A++V A G T + +P ++F+
Sbjct: 65 KINLIDTPGYADFVGETLSALRAVDAALIVVEAQSGVEVGTEKVWEFLDDAKLP-RIIFI 123
Query: 775 NKAD 778
NK D
Sbjct: 124 NKMD 127
>gnl|CDD|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed.
Length = 425
Score = 217 bits (554), Expect = 5e-62
Identities = 113/311 (36%), Positives = 175/311 (56%), Gaps = 48/311 (15%)
Query: 657 IGHVDHGKTTLTAAL--------------TKVSSEIYGGEVRAFDTI-DNAPEEKERGIT 701
IGHVDHGK+TL L + ++ G E F + D EE+ERG+T
Sbjct: 12 IGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVT 71
Query: 702 ISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVD--GPMPQTREHI 759
I +H ++E++ ++ VDCPGH D++KNMITGA+Q D A+LV +A D G MPQTREH+
Sbjct: 72 IDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHV 131
Query: 760 LLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLAL 818
LAR +G+ ++V +NK D V D++ + V+ E+ +LL + ++ + S A
Sbjct: 132 FLARTLGINQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVS---AF 188
Query: 819 EGKDDNQLGTTSIKK------------LLDVLDSSIPTPNRITDKPFLMPIEDVFSISGR 866
EG DN + K LL+ LD ++ P + TDKP +PI+DV+SISG
Sbjct: 189 EG--DN------VVKKSENMPWYNGPTLLEALD-NLKPPEKPTDKPLRIPIQDVYSISGV 239
Query: 867 GTVVTGKIERGIVKNGEEI--EIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSV 924
GTV G++E G++K G+++ G +K+ IEM + L + G+N+G +R V
Sbjct: 240 GTVPVGRVETGVLKVGDKVVFMPAGVVGEVKS----IEMHHEELPQAEPGDNIGFNVRGV 295
Query: 925 KREEVERGQVL 935
+++++RG V
Sbjct: 296 GKKDIKRGDVC 306
Score = 73.4 bits (181), Expect = 2e-13
Identities = 50/171 (29%), Positives = 83/171 (48%), Gaps = 34/171 (19%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGS--SHKIGEVHHGTT-----------ITDWMQQEQE 56
N+ +I HVD GK+T R+L+ +G+ H I E+ + D +++E+E
Sbjct: 8 NLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERE 67
Query: 57 RGITITSASVSIFWEVNKF---KYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICA--S 111
RG+TI A KF KY I+D PGH DF + D AV+++ A +
Sbjct: 68 RGVTIDLAHK-------KFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDA 120
Query: 112 SGIQPQTETVWFQSQKYKVPKMIF-VNKMDRIGANYNNCIIDIKKKFNCIV 161
G+ PQT F ++ + ++I +NKMD + NY+ +K++ +
Sbjct: 121 GGVMPQTREHVFLARTLGINQLIVAINKMDAV--NYD------EKRYEEVK 163
>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 428
Score = 211 bits (539), Expect = 6e-60
Identities = 115/375 (30%), Positives = 184/375 (49%), Gaps = 43/375 (11%)
Query: 657 IGHVDHGKTTLTAAL---------------TKVSSEIYGGEVRAFDTI-DNAPEEKERGI 700
IGHVD GK+TL L K + E+ G E F + D EE+ERG+
Sbjct: 13 IGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKEL-GKESFKFAWVLDKTKEERERGV 71
Query: 701 TISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDG-------PMP 753
TI +H ++E++ ++ +D PGH D++KNMITGA+Q D A+LV A DG
Sbjct: 72 TIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGG 131
Query: 754 QTREHILLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIG 812
QTREH LAR +G+ ++V +NK D V D+E + + E+ +LL ++ ++ +
Sbjct: 132 QTREHAFLARTLGIKQLIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPI 191
Query: 813 SALLALEGKDDNQLGTTS----IKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGT 868
S +G + + LL+ LD + P R DKP +PI+DV+SISG GT
Sbjct: 192 S---GFKGDNLTKKSENMPWYKGPTLLEALD-QLEPPERPLDKPLRLPIQDVYSISGIGT 247
Query: 869 VVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKREE 928
V G++E G++K G+++ + + IEM + + + G+NVG +R V++ +
Sbjct: 248 VPVGRVESGVIKPGQKVTF--MPAGVVGEVKSIEMHHEEISQAEPGDNVGFNVRGVEKND 305
Query: 929 VERGQVLAK-IGSIKSYNIFECEVYILSKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLP 987
+ RG V+ F ++ +L +GY P + T V C++
Sbjct: 306 IRRGDVIGHSDNPPTVSPEFTAQIIVL-----WHPGIITSGYTPVLHAHTAQVA--CRIA 358
Query: 988 ENVEMVLPGDNIKLN 1002
E + + P KL
Sbjct: 359 ELLSKLDPRTGKKLE 373
Score = 70.0 bits (172), Expect = 2e-12
Identities = 47/173 (27%), Positives = 77/173 (44%), Gaps = 33/173 (19%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGS--SHKIGEVHHGTT-----------ITDWMQQEQE 56
N+ I HVDAGK+T R+L+ G + ++ + D ++E+E
Sbjct: 9 NLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERE 68
Query: 57 RGITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIII-------C 109
RG+TI A + KY IID PGH DF + D AV+++
Sbjct: 69 RGVTIDVA----HSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFE 124
Query: 110 ASSGIQPQTETVWFQSQKYKVPKMIF-VNKMDRIGANYNNCIIDIKKKFNCIV 161
A G+ QT F ++ + ++I VNKMD + +++ +++F IV
Sbjct: 125 AGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLV--SWD------EERFEEIV 169
>gnl|CDD|238715 cd01434, EFG_mtEFG1_IV, EFG_mtEFG1_IV: domains similar to domain IV
of the bacterial translational elongation factor (EF)
EF-G. Included in this group is a domain of
mitochondrial Elongation factor G1 (mtEFG1) proteins
homologous to domain IV of EF-G. Eukaryotic cells harbor
2 protein synthesis systems: one localized in the
cytoplasm, the other in the mitochondria. Most factors
regulating mitochondrial protein synthesis are encoded
by nuclear genes, translated in the cytoplasm, and then
transported to the mitochondria. The eukaryotic system
of elongation factor (EF) components is more complex
than that in prokaryotes, with both cytoplasmic and
mitochondrial elongation factors and multiple isoforms
being expressed in certain species. During the process
of peptide synthesis and tRNA site changes, the ribosome
is moved along the mRNA a distance equal to one codon
with the addition of each amino acid. In bacteria this
translocation step is catalyzed by EF-G_GTP, which is
hydrolyzed to provide the required energy. Thus, this
action releases the uncharged tRNA from the P site and
transfers the newly formed peptidyl-tRNA from the A site
to the P site. Eukaryotic mtEFG1 proteins show
significant homology to bacterial EF-Gs. Mutants in
yeast mtEFG1 have impaired mitochondrial protein
synthesis, respiratory defects and a tendency to lose
mitochondrial DNA. There are two forms of mtEFG present
in mammals (designated mtEFG1s and mtEFG2s) mtEFG2s are
not present in this group.
Length = 116
Score = 185 bits (472), Expect = 7e-55
Identities = 63/118 (53%), Positives = 82/118 (69%), Gaps = 2/118 (1%)
Query: 471 YKESIKKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKEFIP 530
Y+E+I K E ++ KQSGG GQYGHVV+ IEP L F F ++I+GG+IPKE+IP
Sbjct: 1 YRETITKPAEFEYRHKKQSGGAGQYGHVVLEIEP--LPRGSGFEFVNKIVGGAIPKEYIP 58
Query: 531 AIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKAN 588
A+EKG + G + GYPV+ +KV L +GS+H VDSSE AFK AA +A K+A KKA
Sbjct: 59 AVEKGFREALEKGPLAGYPVVDVKVTLYDGSYHDVDSSEMAFKIAARMAFKEAFKKAK 116
>gnl|CDD|206647 cd00881, GTP_translation_factor, GTP translation factor family
primarily contains translation initiation, elongation
and release factors. The GTP translation factor family
consists primarily of translation initiation,
elongation, and release factors, which play specific
roles in protein translation. In addition, the family
includes Snu114p, a component of the U5 small nuclear
riboprotein particle which is a component of the
spliceosome and is involved in excision of introns,
TetM, a tetracycline resistance gene that protects the
ribosome from tetracycline binding, and the unusual
subfamily CysN/ATPS, which has an unrelated function
(ATP sulfurylase) acquired through lateral transfer of
the EF1-alpha gene and development of a new function.
Length = 183
Score = 185 bits (473), Expect = 5e-54
Identities = 79/194 (40%), Positives = 103/194 (53%), Gaps = 16/194 (8%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
G IGHVDHGKTTLT +L + I R +D EE+ERGITI T VE+E +
Sbjct: 3 GVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFLDTLKEERERGITIKTGVVEFEWPKR 62
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
+D PGH D+ K + G AQ DGA+LV A +G PQTREH+ +A G I+V +
Sbjct: 63 RINFIDTPGHEDFSKETVRGLAQADGALLVVDANEGVEPQTREHLNIALA-GGLPIIVAV 121
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDF---DGENTKIVIGSALLALEGKDDNQLGTTSI 831
NK D V +E D V EI+ELL F G++ I+ SAL I
Sbjct: 122 NKIDRV-GEEDFDEVLREIKELLKLIGFTFLKGKDVPIIPISALTGE-----------GI 169
Query: 832 KKLLDVLDSSIPTP 845
++LLD + +P P
Sbjct: 170 EELLDAIVEHLPPP 183
Score = 155 bits (394), Expect = 2e-43
Identities = 63/186 (33%), Positives = 98/186 (52%), Gaps = 20/186 (10%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
N+G+I HVD GKTT T +L+ +G+ + G T D +++E+ERGITI + V
Sbjct: 1 NVGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRK--ETFLDTLKEERERGITIKTGVVEFE 58
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYK 129
W K IN IDTPGH DF+ E R L DGA++++ A+ G++PQT +
Sbjct: 59 WP----KRRINFIDTPGHEDFSKETVRGLAQADGALLVVDANEGVEPQTREHLNIALAGG 114
Query: 130 VPKMIFVNKMDRIG-ANYNNCIIDIKKKFNCIVLPINF-------------NIGIEENYE 175
+P ++ VNK+DR+G +++ + +IK+ I GIEE +
Sbjct: 115 LPIIVAVNKIDRVGEEDFDEVLREIKELLKLIGFTFLKGKDVPIIPISALTGEGIEELLD 174
Query: 176 GIVDII 181
IV+ +
Sbjct: 175 AIVEHL 180
Score = 35.0 bits (81), Expect = 0.092
Identities = 19/47 (40%), Positives = 28/47 (59%)
Query: 233 YSINDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSP 279
I ++ I LK K +PI+ S+L +GIE LL++I E+LP P
Sbjct: 137 REIKELLKLIGFTFLKGKDVPIIPISALTGEGIEELLDAIVEHLPPP 183
>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 [Protein synthesis, Translation
factors].
Length = 426
Score = 190 bits (484), Expect = 1e-52
Identities = 106/305 (34%), Positives = 167/305 (54%), Gaps = 37/305 (12%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFD---------------TIDNAPEEKERGIT 701
IGHVDHGK+T L I + F+ +D EE+ERG+T
Sbjct: 13 IGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVT 72
Query: 702 ISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGP---MPQTREH 758
I +H ++E++ VDCPGH D+IKNMITGA+Q D A+LV + DG PQTREH
Sbjct: 73 IDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREH 132
Query: 759 ILLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLA 817
LAR +G+ ++V +NK D V D+E + ++ E+ L+ + ++ + + SA
Sbjct: 133 AFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAW-- 190
Query: 818 LEGKDDNQLGTTSI------KKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVT 871
DN + + K LL+ LD ++ P + TDKP +PI+DV+SI+G GTV
Sbjct: 191 ---NGDNVIKKSENTPWYKGKTLLEALD-ALEPPEKPTDKPLRIPIQDVYSITGVGTVPV 246
Query: 872 GKIERGIVKNGEEI--EIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKREEV 929
G++E G++K G+++ E G +K+ IEM + +++ G+N+G +R V ++++
Sbjct: 247 GRVETGVLKPGDKVVFEPAGVSGEVKS----IEMHHEQIEQAEPGDNIGFNVRGVSKKDI 302
Query: 930 ERGQV 934
RG V
Sbjct: 303 RRGDV 307
Score = 73.0 bits (179), Expect = 2e-13
Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 29/169 (17%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGS---------SHKIGEVHHGTT----ITDWMQQEQE 56
N+ I HVD GK+TT +L+ G+ + E + + D +++E+E
Sbjct: 9 NVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERE 68
Query: 57 RGITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIIC---ASSG 113
RG+TI A W+ KY + I+D PGH DF + D AV+++
Sbjct: 69 RGVTIDVA----HWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFE 124
Query: 114 IQPQTETVWFQSQKYKVPKMIF-VNKMDRIGANYNNCIIDIKKKFNCIV 161
+QPQT F ++ + ++I +NKMD + NY+ +++F I
Sbjct: 125 VQPQTREHAFLARTLGINQLIVAINKMDSV--NYD------EEEFEAIK 165
>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 [Protein
synthesis, Translation factors].
Length = 581
Score = 187 bits (476), Expect = 3e-50
Identities = 97/356 (27%), Positives = 158/356 (44%), Gaps = 44/356 (12%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
T GHVDHGKTTL ALT +++ D PEEK+RG+TI + +
Sbjct: 4 ATAGHVDHGKTTLLKALTGIAA-------------DRLPEEKKRGMTIDLGFAYFPLPDY 50
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
+D PGH +I N I G +D A+LV A +G M QT EH+ + +G+P+ +V +
Sbjct: 51 RLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVI 110
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
KAD V ++E + EM ++++L Y F +N KI SA +G + + +K L
Sbjct: 111 TKADRV-NEEEIKRTEMFMKQILNSYIFL-KNAKIFKTSAKTG-QGIGELK---KELKNL 164
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTI 894
L+ LD + KP M I+ F + G GTVVTG G VK G+ + ++ +
Sbjct: 165 LESLD------IKRIQKPLRMAIDRAFKVKGAGTVVTGTAFSGEVKVGDNLRLLPINHEV 218
Query: 895 KTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYIL 954
+ + I+ + ++ AG+ + + L V+ E ++RG ++ K + +
Sbjct: 219 R--VKAIQAQNQDVEIAYAGQRIALNLMDVEPESLKRGLLILTPEDPKLRVVVKFIA--- 273
Query: 955 SKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENV-------EMVLPGDNIKLNV 1003
P + TG L + ++ KL +
Sbjct: 274 -------EVPLLELQPYHIAHGMSVTTGKISLLDKGIALLTLDAPLILAKGDKLVL 322
Score = 49.9 bits (119), Expect = 7e-06
Identities = 34/134 (25%), Positives = 52/134 (38%), Gaps = 20/134 (14%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
I HVD GKTT + + +G + D + +E++RG+TI
Sbjct: 2 IIATAGHVDHGKTTLLKAL---TGIA------------ADRLPEEKKRGMTIDLGFAYFP 46
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYK 129
Y + ID PGH F +D A++++ A G+ QT
Sbjct: 47 LP----DYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLG 102
Query: 130 VPKMIFV-NKMDRI 142
+P I V K DR+
Sbjct: 103 IPHTIVVITKADRV 116
>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation factor
[Translation, ribosomal structure and biogenesis].
Length = 447
Score = 181 bits (462), Expect = 2e-49
Identities = 109/353 (30%), Positives = 171/353 (48%), Gaps = 42/353 (11%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENK 714
GT GH+DHGKTTL ALT ++ PEEK+RGITI + E+
Sbjct: 4 GTAGHIDHGKTTLLKALTGGVTDR-------------LPEEKKRGITIDLGFYYRKLEDG 50
Query: 715 HYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
+D PGH D+I N++ G +D A+LV +A +G M QT EH+L+ +G+ N ++ L
Sbjct: 51 VMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGIKNGIIVL 110
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKL 834
KAD V + +E +I+++L + N KI SA G ++ + + L
Sbjct: 111 TKADRVDEAR----IEQKIKQILADLSL--ANAKIFKTSAKTG-RGIEELK---NELIDL 160
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTI 894
L+ R KPF + I+ F++ G GTVVTG + G VK G+++ + + +
Sbjct: 161 LE-------EIERDEQKPFRIAIDRAFTVKGVGTVVTGTVLSGEVKVGDKLYLSPINKEV 213
Query: 895 KTTITGIEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYIL 954
+ + I+ ++E AG+ VG+ L+ V++EE+ERG L K ++ E+ I
Sbjct: 214 R--VRSIQAHDVDVEEAKAGQRVGLALKGVEKEEIERGDWLLKPEPLEVTTRLIVELEID 271
Query: 955 SKEEGGRHTPFFNGYKPQFYFRTTDVTG-ICKLPENVEMVL-----PGDNIKL 1001
+ G + VTG I L +N E+ L GDN +L
Sbjct: 272 PLFK----KTLKQGQPVHIHVGLRSVTGRIVPLEKNAELNLVKPIALGDNDRL 320
Score = 46.6 bits (111), Expect = 5e-05
Identities = 43/182 (23%), Positives = 67/182 (36%), Gaps = 26/182 (14%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIF 69
IG H+D GKTT + L +TD + +E++RGITI F
Sbjct: 2 IIGTAGHIDHGKTTLLK-ALTG--------------GVTDRLPEEKKRGITIDLG----F 42
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYK 129
+ ++ ID PGH DF + L +D A++++ A G+ QT
Sbjct: 43 YYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLG 102
Query: 130 VPKMIFV-NKMDRIGANYNNCIID------IKKKFNCIVLPINFNIGIEENYEGIVDIIN 182
+ I V K DR+ I GIEE ++D++
Sbjct: 103 IKNGIIVLTKADRVDEARIEQKIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLLE 162
Query: 183 KK 184
+
Sbjct: 163 EI 164
>gnl|CDD|239668 cd03697, EFTU_II, EFTU_II: Elongation factor Tu domain II.
Elongation factors Tu (EF-Tu) are three-domain GTPases
with an essential function in the elongation phase of
mRNA translation. The GTPase center of EF-Tu is in the
N-terminal domain (domain I), also known as the
catalytic or G-domain. The G-domain is composed of about
200 amino acid residues, arranged into a predominantly
parallel six-stranded beta-sheet core surrounded by
seven a-helices. Non-catalytic domains II and III are
beta-barrels of seven and six, respectively,
antiparallel beta-strands that share an extended
interface. Either non-catalytic domain is composed of
about 100 amino acid residues. EF-Tu proteins exist in
two principal conformations: in a compact one,
EF-Tu*GTP, with tight interfaces between all three
domains and a high affinity for aminoacyl-tRNA, and in
an open one, EF-Tu*GDP, with essentially no
G-domain-domain II interactions and a low affinity for
aminoacyl-tRNA. EF-Tu has approximately a 100-fold
higher affinity for GDP than for GTP.
Length = 87
Score = 168 bits (427), Expect = 4e-49
Identities = 66/87 (75%), Positives = 78/87 (89%)
Query: 853 FLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGL 912
FLMPIEDVFSI GRGTVVTG+IERG +K G+E+EIVG+ +T+KTT+TGIEMF+KTLDE
Sbjct: 1 FLMPIEDVFSIPGRGTVVTGRIERGTIKVGDEVEIVGFGETLKTTVTGIEMFRKTLDEAE 60
Query: 913 AGENVGILLRSVKREEVERGQVLAKIG 939
AG+NVG+LLR VKRE+VERG VLAK G
Sbjct: 61 AGDNVGVLLRGVKREDVERGMVLAKPG 87
>gnl|CDD|226593 COG4108, PrfC, Peptide chain release factor RF-3 [Translation,
ribosomal structure and biogenesis].
Length = 528
Score = 173 bits (442), Expect = 4e-46
Identities = 129/480 (26%), Positives = 233/480 (48%), Gaps = 58/480 (12%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVH------HGTTITDWMQQEQERGITIT 62
R II+H DAGKTT TE++L + G+ + G V H + DWM+ E++RGI++T
Sbjct: 13 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKS--DWMEIEKQRGISVT 70
Query: 63 SASVSIFWEVNKFKY---MINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTE 119
S+ V +F Y ++N++DTPGH DF+ + R+L +D AV++I A+ GI+PQT
Sbjct: 71 SS-------VMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTL 123
Query: 120 TVWFQSQKYK-VPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIV 178
+ F+ + + +P F+NK+DR G + + +I+++ PI + IG+ ++++G+
Sbjct: 124 KL-FEVCRLRDIPIFTFINKLDREGRDPLELLDEIEEELGIQCAPITWPIGMGKDFKGVY 182
Query: 179 DIINK-------KSFFWKENSIIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINN 231
+ N + + I+K +D +L A E + E L E N
Sbjct: 183 HLYNDEVELYESGHTDQERRADIVKGLDNPELDA--LLGEDLAEQLREELELVQGAG--N 238
Query: 232 NYSINDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDVDFKNNDYNI 291
+ + L ++ P+ GS+L N G++ L+++ ++ PSP + +
Sbjct: 239 EFD--------LEAFLAGELTPVFFGSALGNFGVDHFLDALVDWAPSPRARQ--ADTREV 288
Query: 292 NLNSNKFVSLVFKI--FHDP-FLGSLSFIRIYSG-FIKVGDLVYNSTKKVKEKIFRILRM 347
+KF VFKI DP ++F+R+ SG F + + + T K K+ L
Sbjct: 289 EPTEDKFSGFVFKIQANMDPKHRDRIAFMRVCSGKFERGMKVTHVRTGK-DVKLSDALTF 347
Query: 348 FANSKKDINDAHFGDIVVIVGLKESST---GDTLCSLSENIQLENIETPIPVI--SISIE 402
A ++ + +A+ GD I+GL T GDT E ++ I P + + ++
Sbjct: 348 MAQDRETVEEAYAGD---IIGLHNHGTIQIGDTFTE-GEKLKFTGIPNFAPELFRRVRLK 403
Query: 403 PIFKNDQEKLLNILQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKT 462
K Q++L L++ +E + + + IL +G+L E++ R+ E N++
Sbjct: 404 DPLK--QKQLKKGLEQLAEEGAVQVFK-PLDGNDLILGAVGQLQFEVVQARLKNEYNVEA 460
Score = 71.1 bits (175), Expect = 1e-12
Identities = 47/145 (32%), Positives = 72/145 (49%), Gaps = 9/145 (6%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIY-GGEVRA-----FDTIDNAPEEKERGITISTSHVEYE 710
I H D GKTTLT L I G V+ D EK+RGI++++S ++++
Sbjct: 18 ISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFD 77
Query: 711 SENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNI 770
+ +D PGH D+ ++ +D A++V A G PQT + + R +P I
Sbjct: 78 YADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLRDIP-I 136
Query: 771 VVFLNKADCV-QDK-ELLDLVEMEI 793
F+NK D +D ELLD +E E+
Sbjct: 137 FTFINKLDREGRDPLELLDEIEEEL 161
>gnl|CDD|185474 PTZ00141, PTZ00141, elongation factor 1- alpha; Provisional.
Length = 446
Score = 169 bits (429), Expect = 3e-45
Identities = 102/305 (33%), Positives = 155/305 (50%), Gaps = 31/305 (10%)
Query: 657 IGHVDHGKTTLTAALT---------------KVSSEIYGGEVRAFDTIDNAPEEKERGIT 701
IGHVD GK+T T L K ++E+ G + +D E+ERGIT
Sbjct: 13 IGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGIT 72
Query: 702 ISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMP-------Q 754
I + ++E+ ++ +D PGH D+IKNMITG +Q D AILV ++ G Q
Sbjct: 73 IDIALWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQ 132
Query: 755 TREHILLARQVGVPNIVVFLNKAD---CVQDKELLDLVEMEIRELLTEYDFDGENTKIVI 811
TREH LLA +GV ++V +NK D +E D ++ E+ L + ++ E +
Sbjct: 133 TREHALLAFTLGVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIP 192
Query: 812 GSALLA--LEGKDDNQLGTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTV 869
S + K DN LL+ LD+ P P R DKP +P++DV+ I G GTV
Sbjct: 193 ISGWQGDNMIEKSDNMPWYKG-PTLLEALDTLEP-PKRPVDKPLRLPLQDVYKIGGIGTV 250
Query: 870 VTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKREEV 929
G++E GI+K G + T T + +EM + L E + G+NVG +++V +++
Sbjct: 251 PVGRVETGILKPGMVVTFAPSGVT--TEVKSVEMHHEQLAEAVPGDNVGFNVKNVSVKDI 308
Query: 930 ERGQV 934
+RG V
Sbjct: 309 KRGYV 313
Score = 58.6 bits (142), Expect = 1e-08
Identities = 45/158 (28%), Positives = 73/158 (46%), Gaps = 25/158 (15%)
Query: 10 NIGIIAHVDAGKTTTTERILF------------YSGSSHKIGEVHHGTT-ITDWMQQEQE 56
N+ +I HVD+GK+TTT +++ + + ++G+ + D ++ E+E
Sbjct: 9 NLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERE 68
Query: 57 RGITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGI-- 114
RGITI A W+ KY IID PGH DF + D A++++ +++G
Sbjct: 69 RGITIDIA----LWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFE 124
Query: 115 -----QPQTETVWFQSQKYKVPKMIF-VNKMDRIGANY 146
QT + V +MI +NKMD NY
Sbjct: 125 AGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTVNY 162
>gnl|CDD|239678 cd03707, EFTU_III, Domain III of elongation factor (EF) Tu. Ef-Tu
consists of three structural domains, designated I, II
and III. Domain III adopts a beta barrel structure.
Domain III is involved in binding to both charged tRNA
and binding to elongation factor Ts (EF-Ts). EF-Ts is the
guanine-nucleotide-exchange factor for EF-Tu. EF-Tu and
EF-G participate in the elongation phase during protein
biosynthesis on the ribosome. Their functional cycles
depend on GTP binding and its hydrolysis. The EF-Tu
complexed with GTP and aminoacyl-tRNA delivers tRNA to
the ribosome, whereas EF-G stimulates translocation, a
process in which tRNA and mRNA movements occur in the
ribosome. Crystallographic studies revealed structural
similarities ("molecular mimicry") between tertiary
structures of EF-G and the EF-Tu-aminoacyl-tRNA ternary
complex. Domains III, IV, and V of EF-G mimic the tRNA
structure in the EF-Tu ternary complex; domains III, IV
and V can be related to the acceptor stem, anticodon
helix and T stem of tRNA respectively.
Length = 90
Score = 156 bits (396), Expect = 6e-45
Identities = 55/80 (68%), Positives = 65/80 (81%)
Query: 942 KSYNIFECEVYILSKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKL 1001
K + FE EVY+L+KEEGGRHTPFF+GY+PQFY RTTDVTG LPE EMV+PGDN+K+
Sbjct: 1 KPHTKFEAEVYVLTKEEGGRHTPFFSGYRPQFYIRTTDVTGSITLPEGTEMVMPGDNVKM 60
Query: 1002 NVTLLSSIAIEIGLRFAIRE 1021
V L+ IA+E GLRFAIRE
Sbjct: 61 TVELIHPIALEKGLRFAIRE 80
>gnl|CDD|214887 smart00889, EFG_IV, Elongation factor G, domain IV. Translation
elongation factors are responsible for two main
processes during protein synthesis on the ribosome. EF1A
(or EF-Tu) is responsible for the selection and binding
of the cognate aminoacyl-tRNA to the A-site (acceptor
site) of the ribosome. EF2 (or EF-G) is responsible for
the translocation of the peptidyl-tRNA from the A-site
to the P-site (peptidyl-tRNA site) of the ribosome,
thereby freeing the A-site for the next aminoacyl-tRNA
to bind. Elongation factors are responsible for
achieving accuracy of translation and both EF1A and EF2
are remarkably conserved throughout evolution.
Elongation factor EF2 (EF-G) is a G-protein. It brings
about the translocation of peptidyl-tRNA and mRNA
through a ratchet-like mechanism: the binding of GTP-EF2
to the ribosome causes a counter-clockwise rotation in
the small ribosomal subunit; the hydrolysis of GTP to
GDP by EF2 and the subsequent release of EF2 causes a
clockwise rotation of the small subunit back to the
starting position. This twisting action destabilises
tRNA-ribosome interactions, freeing the tRNA to
translocate along the ribosome upon GTP-hydrolysis by
EF2. EF2 binding also affects the entry and exit channel
openings for the mRNA, widening it when bound to enable
the mRNA to translocate along the ribosome. EF2 has five
domains. This entry represents domain IV found in EF2
(or EF-G) of both prokaryotes and eukaryotes. The
EF2-GTP-ribosome complex undergoes extensive structural
rearrangement for tRNA-mRNA movement to occur. Domain
IV, which extends from the 'body' of the EF2 molecule
much like a lever arm, appears to be essential for the
structural transition to take place.
Length = 120
Score = 157 bits (399), Expect = 7e-45
Identities = 64/122 (52%), Positives = 83/122 (68%), Gaps = 3/122 (2%)
Query: 468 QVSYKESI-KKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPK 526
QV+Y+E+I K + EGK+ KQSGG GQY V++ +EP LE F F I+GG IPK
Sbjct: 1 QVAYRETITKPVKEAEGKHKKQSGGDGQYARVILEVEP--LERGSGFEFDDTIVGGVIPK 58
Query: 527 EFIPAIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKK 586
E+IPA+EKG + G + GYPV+ +KV L++GS+H VDSSE AFK AA A K+AL K
Sbjct: 59 EYIPAVEKGFREALEEGPLAGYPVVDVKVTLLDGSYHEVDSSEMAFKPAARRAFKEALLK 118
Query: 587 AN 588
A
Sbjct: 119 AG 120
>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed.
Length = 731
Score = 172 bits (439), Expect = 1e-44
Identities = 129/459 (28%), Positives = 229/459 (49%), Gaps = 85/459 (18%)
Query: 266 EFLLNSICEYLPSP-----Y--------DVDFKNNDYNINLNSN-KFVSLVFKIFHDPFL 311
E +L+ + ++LP+P Y D++ + +N + N V +V I DP
Sbjct: 245 EVVLDMVVKHLPNPIEAQKYRIPKIWKGDLNSEVGKAMLNCDPNGPLVMMVTDIIVDPHA 304
Query: 312 GSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKKDINDAHFGDIVVIVGLKE 371
G ++ R++SG ++ G VY K K ++ ++ ++++ + G+I + GLK+
Sbjct: 305 GEVATGRVFSGTLRKGQEVYLVGAKKKNRVQQVGIYMGPEREEVEEIPAGNIAAVTGLKD 364
Query: 372 SSTGDTLCSLSENIQLENIE-TPIPVISISIEPIFKN--DQEKLLNILQKFCKEDPSLLL 428
+ G+T+ S+ + E+++ PV++++IE KN D KL+ +L++ KEDP+L++
Sbjct: 365 ARAGETVVSVEDMTPFESLKHISEPVVTVAIEA--KNPKDLPKLIEVLRQLAKEDPTLVV 422
Query: 429 SINNNTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKESIKK---IVTQEGKY 485
IN TGE +LSGMGELHLE+I RI ++ I+ S+P V Y+E+++ +V EGK
Sbjct: 423 KINEETGEHLLSGMGELHLEVITYRIKRDYGIEVVTSEPIVVYRETVRGKSQVV--EGK- 479
Query: 486 IKQSGGKGQYGH--VVIRIEPISLE---------------NKENFIFKSEIIGGSIPKEF 528
S K H I +EP+ E KE I + ++I + K+
Sbjct: 480 ---SPNK----HNRFYISVEPLEEEVIEAIKEGEISEDMDKKEAKILREKLIEAGMDKDE 532
Query: 529 ---IPAIE---------KGI--MNQINYGVVLGY------------PVIKIKVFLVNGSF 562
+ AI KGI +N++ ++ G+ PV +KV L +
Sbjct: 533 AKRVWAIYNGNVFIDMTKGIQYLNEVMELIIEGFREAMKEGPLAAEPVRGVKVRLHDAKL 592
Query: 563 HSVDSSEYAFKNAAAI------ALKDALKKANSYILEPIMKVEVNLPSEFLGIVVGDINK 616
H D+ + A + A+ A+ A +LEPI KV++N+P +++G V +I
Sbjct: 593 HE-DA---IHRGPAQVIPAVRNAIFAAMLTAKPTLLEPIQKVDINVPQDYMGAVTREIQG 648
Query: 617 KRGIINTIIDHENFKIINSYIPLRELFGYSTDLRSNTKG 655
+RG I + + II + P+ E+FG++ ++RS T+G
Sbjct: 649 RRGKILDMEQEGDMAIIEAEAPVAEMFGFAGEIRSATEG 687
Score = 154 bits (391), Expect = 1e-38
Identities = 63/141 (44%), Positives = 93/141 (65%), Gaps = 6/141 (4%)
Query: 3 NKVLYFRNIGIIAHVDAGKTTTTERILFYSG--SSHKIGEVHHGTTITDWMQQEQERGIT 60
RNIGIIAH+D GKTT ++ +L +G S GE D+ ++EQ RGIT
Sbjct: 15 KNPEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQ----LALDFDEEEQARGIT 70
Query: 61 ITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTET 120
I +A+VS+ E +Y+IN+IDTPGHVDF +V R++R +DGA++++ A G+ PQTET
Sbjct: 71 IKAANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTET 130
Query: 121 VWFQSQKYKVPKMIFVNKMDR 141
V Q+ + +V ++F+NK+DR
Sbjct: 131 VLRQALRERVKPVLFINKVDR 151
Score = 87.6 bits (218), Expect = 1e-17
Identities = 64/153 (41%), Positives = 85/153 (55%), Gaps = 23/153 (15%)
Query: 655 GTIGHVDHGKTTLT----AALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVE-- 708
G I H+DHGKTTL+ A +S E+ GE A D + EE+ RGITI ++V
Sbjct: 24 GIIAHIDHGKTTLSDNLLAGAGMISEEL-AGEQLALDFDE---EEQARGITIKAANVSMV 79
Query: 709 YESENKHYA--HVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQV- 765
+E E K Y +D PGH D+ ++ +DGAI+V AV+G MPQT E +L RQ
Sbjct: 80 HEYEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQT-ETVL--RQAL 136
Query: 766 --GV-PNIVVFLNKADCVQDKEL-LDLVEMEIR 794
V P V+F+NK D + KEL L EM+ R
Sbjct: 137 RERVKP--VLFINKVDRLI-KELKLTPQEMQQR 166
>gnl|CDD|206732 cd04169, RF3, Release Factor 3 (RF3) protein involved in the
terminal step of translocation in bacteria. Peptide
chain release factor 3 (RF3) is a protein involved in
the termination step of translation in bacteria.
Termination occurs when class I release factors (RF1 or
RF2) recognize the stop codon at the A-site of the
ribosome and activate the release of the nascent
polypeptide. The class II release factor RF3 then
initiates the release of the class I RF from the
ribosome. RF3 binds to the RF/ribosome complex in the
inactive (GDP-bound) state. GDP/GTP exchange occurs,
followed by the release of the class I RF. Subsequent
hydrolysis of GTP to GDP triggers the release of RF3
from the ribosome. RF3 also enhances the efficiency of
class I RFs at less preferred stop codons and at stop
codons in weak contexts.
Length = 268
Score = 155 bits (394), Expect = 3e-42
Identities = 80/283 (28%), Positives = 151/283 (53%), Gaps = 29/283 (10%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVH----HGTTITDWMQQEQERGITITSA 64
R II+H DAGKTT TE++L + G+ + G V +DWM+ E++RGI++TS+
Sbjct: 3 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGAVKARKSRKHATSDWMEIEKQRGISVTSS 62
Query: 65 SVSIFWEVNKFKY---MINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETV 121
V +F+Y +IN++DTPGH DF+ + R+L +D AV++I A+ G++PQT +
Sbjct: 63 -------VMQFEYKGCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKL 115
Query: 122 WFQSQKYKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDII 181
+ + +P + F+NK+DR G + + +I+ + P+ + IG+ ++++G+ D
Sbjct: 116 FEVCRLRGIPIITFINKLDREGRDPLELLDEIENELGIDCAPMTWPIGMGKDFKGVYDRY 175
Query: 182 NKKSFFWKENS-----IIIKNIDKDQLSAFDYYNELMLETLSNNDEFFLEKYINNNYSIN 236
+K+ + ++ + + D + E + E L +E L + +
Sbjct: 176 DKEIYLYERGAGGAIKAPEETKGLDDPKLDELLGEDLAEQLR--EELELVEGAGPEFD-- 231
Query: 237 DIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSP 279
++L L ++ P+ GS+L N G++ LL++ + P+P
Sbjct: 232 ------KELFLAGELTPVFFGSALNNFGVQELLDAFVKLAPAP 268
Score = 68.4 bits (168), Expect = 2e-12
Identities = 49/145 (33%), Positives = 77/145 (53%), Gaps = 9/145 (6%)
Query: 657 IGHVDHGKTTLTAAL------TKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYE 710
I H D GKTTLT L + + + + R T D EK+RGI++++S +++E
Sbjct: 8 ISHPDAGKTTLTEKLLLFGGAIQEAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFE 67
Query: 711 SENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNI 770
+ +D PGH D+ ++ +D A++V A G PQTR+ + R G+P I
Sbjct: 68 YKGCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIP-I 126
Query: 771 VVFLNKAD-CVQDK-ELLDLVEMEI 793
+ F+NK D +D ELLD +E E+
Sbjct: 127 ITFINKLDREGRDPLELLDEIENEL 151
>gnl|CDD|206672 cd01885, EF2, Elongation Factor 2 (EF2) in archaea and eukarya.
Translocation requires hydrolysis of a molecule of GTP
and is mediated by EF-G in bacteria and by eEF2 in
eukaryotes. The eukaryotic elongation factor eEF2 is a
GTPase involved in the translocation of the
peptidyl-tRNA from the A site to the P site on the
ribosome. The 95-kDa protein is highly conserved, with
60% amino acid sequence identity between the human and
yeast proteins. Two major mechanisms are known to
regulate protein elongation and both involve eEF2.
First, eEF2 can be modulated by reversible
phosphorylation. Increased levels of phosphorylated eEF2
reduce elongation rates presumably because
phosphorylated eEF2 fails to bind the ribosomes.
Treatment of mammalian cells with agents that raise the
cytoplasmic Ca2+ and cAMP levels reduce elongation rates
by activating the kinase responsible for phosphorylating
eEF2. In contrast, treatment of cells with insulin
increases elongation rates by promoting eEF2
dephosphorylation. Second, the protein can be
post-translationally modified by ADP-ribosylation.
Various bacterial toxins perform this reaction after
modification of a specific histidine residue to
diphthamide, but there is evidence for endogenous ADP
ribosylase activity. Similar to the bacterial toxins, it
is presumed that modification by the endogenous enzyme
also inhibits eEF2 activity.
Length = 218
Score = 152 bits (387), Expect = 5e-42
Identities = 65/168 (38%), Positives = 101/168 (60%), Gaps = 11/168 (6%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSG--SSHKIGEVHHGTTITDWMQQEQERGITITSASV 66
RNI IIAHVD GKTT ++ +L +G S G+ D + EQERGITI S+++
Sbjct: 1 RNICIIAHVDHGKTTLSDSLLASAGIISEKLAGKAR----YLDTREDEQERGITIKSSAI 56
Query: 67 SIFWEVNKFK-----YMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETV 121
S+++E + K Y+IN+ID+PGHVDF+ EV +LR+ DGA++++ A G+ QTETV
Sbjct: 57 SLYFEYEEEKMDGNDYLINLIDSPGHVDFSSEVTAALRLTDGALVVVDAVEGVCVQTETV 116
Query: 122 WFQSQKYKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIG 169
Q+ + +V ++ +NK+DR+ + ++ IV +N I
Sbjct: 117 LRQALEERVKPVLVINKIDRLILELKLSPEEAYQRLLRIVEDVNAIIE 164
Score = 85.4 bits (212), Expect = 1e-18
Identities = 51/138 (36%), Positives = 70/138 (50%), Gaps = 20/138 (14%)
Query: 655 GTIGHVDHGKTTLTAAL---TKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHV---- 707
I HVDHGKTTL+ +L + SE G+ R DT + +E+ERGITI +S +
Sbjct: 4 CIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYLDTRE---DEQERGITIKSSAISLYF 60
Query: 708 EYESE---NKHYA--HVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLA 762
EYE E Y +D PGH D+ + DGA++V AV+G QT +L
Sbjct: 61 EYEEEKMDGNDYLINLIDSPGHVDFSSEVTAALRLTDGALVVVDAVEGVCVQT--ETVL- 117
Query: 763 RQVGVPNI--VVFLNKAD 778
RQ + V+ +NK D
Sbjct: 118 RQALEERVKPVLVINKID 135
>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 [Protein
synthesis, Translation factors].
Length = 527
Score = 159 bits (403), Expect = 3e-41
Identities = 118/488 (24%), Positives = 224/488 (45%), Gaps = 58/488 (11%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEV------HHGTTITDWMQQEQERGITIT 62
R II+H DAGKTT TE++L Y G+ G V H + DWM+ E++RGI+IT
Sbjct: 12 RTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKS--DWMEMEKQRGISIT 69
Query: 63 SASVSIFWEVNKFKY---MINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTE 119
++ V +F Y ++N++DTPGH DF+ + R+L +D +++I A+ G++ +T
Sbjct: 70 TS-------VMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTR 122
Query: 120 TVWFQSQKYKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVD 179
+ ++ P F+NK+DR + + +++ + PI + IG + ++G+
Sbjct: 123 KLMEVTRLRDTPIFTFMNKLDRDIRDPLELLDEVENELKINCAPITWPIGCGKLFKGVYH 182
Query: 180 IINKKSFFW-------KENSIIIKNIDKDQLSAF---DYYNELMLETLSNNDEFFLEKYI 229
++ +++ + + +K ++ L + D +L DE L +
Sbjct: 183 LLKDETYLYQSGTGGTIQAVRQVKGLNNPALDSAVGSDLAQQL-------RDELELVEGA 235
Query: 230 NNNYSINDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDVDFKNNDY 289
+N + ++ P+ G++L N G++ L+ + ++ P P ++
Sbjct: 236 SNEFD--------LAAFHGGEMTPVFFGTALGNFGVDHFLDGLLQWAPKPEARQ--SDTR 285
Query: 290 NINLNSNKFVSLVFKI--FHDP-FLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILR 346
+ KF VFKI DP ++F+R+ SG + G + + I L
Sbjct: 286 TVEPTEEKFSGFVFKIQANMDPKHRDRVAFMRVVSGKYEKGMKLKHVRTGKDVVISDALT 345
Query: 347 MFANSKKDINDAHFGDIVVIVGLKESST---GDTLCSLSENIQLENIETPIPVISISIEP 403
A ++ + +A+ GD I+GL T GDT E I+ I P + I
Sbjct: 346 FMAGDREHVEEAYAGD---IIGLHNHGTIQIGDTFTQ-GEKIKFTGIPNFAPELFRRIRL 401
Query: 404 IFKNDQEKLLNILQKFCKEDP-SLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKT 462
Q++LL L + +E + ++NN + I+ +G L +++V R+ +E N++
Sbjct: 402 KDPLKQKQLLKGLVQLSEEGAVQVFRPLDNN--DLIVGAVGVLQFDVVVYRLKEEYNVEA 459
Query: 463 KISKPQVS 470
+ V+
Sbjct: 460 RYEPVNVA 467
Score = 64.5 bits (157), Expect = 2e-10
Identities = 46/158 (29%), Positives = 74/158 (46%), Gaps = 19/158 (12%)
Query: 650 RSNTKGTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTI-----------DNAPEEKER 698
+ T I H D GKTT+T + +YGG ++ + D EK+R
Sbjct: 10 KRRTFAIISHPDAGKTTITEKVL-----LYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQR 64
Query: 699 GITISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREH 758
GI+I+TS +++ + +D PGH D+ ++ +D ++V A G +TR+
Sbjct: 65 GISITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKL 124
Query: 759 ILLARQVGVPNIVVFLNKAD--CVQDKELLDLVEMEIR 794
+ + R P I F+NK D ELLD VE E++
Sbjct: 125 MEVTRLRDTP-IFTFMNKLDRDIRDPLELLDEVENELK 161
>gnl|CDD|202760 pfam03764, EFG_IV, Elongation factor G, domain IV. This domain is
found in elongation factor G, elongation factor 2 and
some tetracycline resistance proteins and adopts a
ribosomal protein S5 domain 2-like fold.
Length = 120
Score = 143 bits (363), Expect = 5e-40
Identities = 59/123 (47%), Positives = 72/123 (58%), Gaps = 4/123 (3%)
Query: 467 PQVSYKESIKKIV-TQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIP 525
PQV+Y+E+I K V + K KQSGG GQY V++RIEP F E GG P
Sbjct: 1 PQVAYRETIGKDVKERAYKLKKQSGGDGQYAKVILRIEP---LPGGGNEFVDETKGGQYP 57
Query: 526 KEFIPAIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALK 585
EF PA+EKG + G + G PV +KV L +GS+H VDSSE AF AA A K+AL
Sbjct: 58 NEFKPAVEKGFQEAMKEGPLAGEPVRDVKVTLTDGSYHEVDSSEAAFIPAARRAFKEALL 117
Query: 586 KAN 588
KA
Sbjct: 118 KAG 120
>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery
of selenocysteinyl-tRNA to the ribosome. SelB is an
elongation factor needed for the co-translational
incorporation of selenocysteine. Selenocysteine is coded
by a UGA stop codon in combination with a specific
downstream mRNA hairpin. In bacteria, the C-terminal
part of SelB recognizes this hairpin, while the
N-terminal part binds GTP and tRNA in analogy with
elongation factor Tu (EF-Tu). It specifically recognizes
the selenocysteine charged tRNAsec, which has a UCA
anticodon, in an EF-Tu like manner. This allows
insertion of selenocysteine at in-frame UGA stop codons.
In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a
stem-loop structure immediately downstream of the UGA
codon (the SECIS sequence). The absence of active SelB
prevents the participation of selenocysteyl-tRNAsec in
translation. Archaeal and animal mechanisms of
selenocysteine incorporation are more complex. Although
the SECIS elements have different secondary structures
and conserved elements between archaea and eukaryotes,
they do share a common feature. Unlike in E. coli, these
SECIS elements are located in the 3' UTRs. This group
contains bacterial SelBs, as well as, one from archaea.
Length = 170
Score = 144 bits (366), Expect = 8e-40
Identities = 66/163 (40%), Positives = 92/163 (56%), Gaps = 19/163 (11%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITI--STSHVEYESE 712
GT GH+DHGKTTL ALT +T D PEEK+RGITI ++++
Sbjct: 3 GTAGHIDHGKTTLIKALT------------GIET-DRLPEEKKRGITIDLGFAYLDLPD- 48
Query: 713 NKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVV 772
K +D PGH ++KNM+ GA +D +LV +A +G MPQTREH+ + +G+ +V
Sbjct: 49 GKRLGFIDVPGHEKFVKNMLAGAGGIDAVLLVVAADEGIMPQTREHLEILELLGIKKGLV 108
Query: 773 FLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSAL 815
L KAD V D++ L+LVE EI ELL + I S++
Sbjct: 109 VLTKADLV-DEDRLELVEEEILELLAGTFL--ADAPIFPVSSV 148
Score = 47.2 bits (113), Expect = 7e-06
Identities = 32/110 (29%), Positives = 47/110 (42%), Gaps = 20/110 (18%)
Query: 11 IGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTI-TDWMQQEQERGITITSASVSIF 69
IG H+D GKTT + + T I TD + +E++RGITI +
Sbjct: 2 IGTAGHIDHGKTTLIKAL----------------TGIETDRLPEEKKRGITIDLGFAYLD 45
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTE 119
K + ID PGH F + +D ++++ A GI PQT
Sbjct: 46 LPDGK---RLGFIDVPGHEKFVKNMLAGAGGIDAVLLVVAADEGIMPQTR 92
>gnl|CDD|211860 TIGR03680, eif2g_arch, translation initiation factor 2 subunit
gamma. This model represents the archaeal translation
initiation factor 2 subunit gamma and is found in all
known archaea. eIF-2 functions in the early steps of
protein synthesis by forming a ternary complex with GTP
and initiator tRNA.
Length = 406
Score = 150 bits (381), Expect = 3e-39
Identities = 112/338 (33%), Positives = 166/338 (49%), Gaps = 50/338 (14%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVR---------AFDTIDNAPE-EKERGITIST 704
G +GHVDHGKTTLT ALT V ++ + E++ A I PE + T
Sbjct: 8 GMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEP 67
Query: 705 SHVEYESENKHY---AHVDCPGHADYIKNMITGAAQMDGAILVCSAVDG-PMPQTREHIL 760
SE + + VD PGH + M++GAA MDGA+LV +A + P PQTREH++
Sbjct: 68 VCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLM 127
Query: 761 LARQVGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEG 820
+G+ NIV+ NK D V ++ L+ E EI+E + EN I+ SAL
Sbjct: 128 ALEIIGIKNIVIVQNKIDLVSKEKALENYE-EIKEFVKGT--IAENAPIIPVSAL----- 179
Query: 821 KDDNQLGTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGT--------VVTG 872
+ N I LL+ ++ IPTP R DKP LM + F ++ GT V+ G
Sbjct: 180 HNAN------IDALLEAIEKFIPTPERDLDKPPLMYVARSFDVNKPGTPPEKLKGGVIGG 233
Query: 873 KIERGIVKNGEEIEIV-GYK---------QTIKTTITGIEMFKKTLDEGLAGENVGI--- 919
+ +G +K G+EIEI G K + I T IT + ++E G VG+
Sbjct: 234 SLIQGKLKVGDEIEIRPGIKVEKGGKTKWEPIYTEITSLRAGGYKVEEARPGGLVGVGTK 293
Query: 920 LLRSVKREEVERGQVLAKIGSI-KSYNIFECEVYILSK 956
L ++ + + GQV+ K G++ + E EV++L +
Sbjct: 294 LDPALTKADALAGQVVGKPGTLPPVWESLELEVHLLER 331
Score = 45.4 bits (108), Expect = 1e-04
Identities = 38/155 (24%), Positives = 62/155 (40%), Gaps = 39/155 (25%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITIT--SASVS 67
NIG++ HVD GKTT T+ + +G TD +E +RGI+I A
Sbjct: 6 NIGMVGHVDHGKTTLTKAL---TG------------VWTDTHSEELKRGISIRLGYADAE 50
Query: 68 IFWEVNKFKYM--------------------INIIDTPGHVDFTIEVERSLRVLDGAVII 107
I+ ++ +D PGH + ++DGA+++
Sbjct: 51 IYKCPECDGPECYTTEPVCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGALLV 110
Query: 108 ICASSGI-QPQTETVWFQSQKYKVPKMIFV-NKMD 140
I A+ QPQT + + ++ V NK+D
Sbjct: 111 IAANEPCPQPQTREHLMALEIIGIKNIVIVQNKID 145
>gnl|CDD|179105 PRK00741, prfC, peptide chain release factor 3; Provisional.
Length = 526
Score = 149 bits (379), Expect = 7e-38
Identities = 119/423 (28%), Positives = 200/423 (47%), Gaps = 87/423 (20%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEV------HHGTTITDWMQQEQERGITIT 62
R II+H DAGKTT TE++L + G+ + G V H T +DWM+ E++RGI++T
Sbjct: 11 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHAT--SDWMEMEKQRGISVT 68
Query: 63 SASVSIFWEVNKFKY---MINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTE 119
S+ V +F Y +IN++DTPGH DF+ + R+L +D A+++I A+ G++PQT
Sbjct: 69 SS-------VMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTR 121
Query: 120 TVWFQSQKYKV------PKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEEN 173
+ +V P F+NK+DR G + +I++ PI + IG+ +
Sbjct: 122 KL------MEVCRLRDTPIFTFINKLDRDGREPLELLDEIEEVLGIACAPITWPIGMGKR 175
Query: 174 YEGIVDIINKKSFFWK-------ENSIIIKNIDKDQLSAF---DYYNELM-----LETLS 218
++G+ D+ N + ++ + IIK +D +L D +L ++ S
Sbjct: 176 FKGVYDLYNDEVELYQPGEGHTIQEVEIIKGLDNPELDELLGEDLAEQLREELELVQGAS 235
Query: 219 NNDEFFLEKYINNNYSINDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPS 278
N EF LE + L ++ P+ GS+L N G++ L++ E+ P+
Sbjct: 236 N--EFDLEAF------------------LAGELTPVFFGSALNNFGVQEFLDAFVEWAPA 275
Query: 279 PYDVDFKNNDYNINLNSNKFVSLVFKI-------FHDPFLGSLSFIRIYSG-FIKVGDLV 330
P + ++ + KF VFKI D ++F+R+ SG F K +
Sbjct: 276 P--QPRQTDEREVEPTEEKFSGFVFKIQANMDPKHRD----RIAFVRVCSGKFEKGMKVR 329
Query: 331 YNSTKKVKEKIFRILRMFANSKKDINDAHFGDIVVIVGLKESST---GDTLCSLSENIQL 387
+ T K +I L A ++ + +A+ GD I+GL T GDT E ++
Sbjct: 330 HVRTGK-DVRISNALTFMAQDREHVEEAYAGD---IIGLHNHGTIQIGDTFTQ-GEKLKF 384
Query: 388 ENI 390
I
Sbjct: 385 TGI 387
Score = 50.9 bits (123), Expect = 3e-06
Identities = 50/147 (34%), Positives = 71/147 (48%), Gaps = 19/147 (12%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIY-GGEVRA-----FDTIDNAPEEKERGITISTSHVEYE 710
I H D GKTTLT L I G V+ T D EK+RGI++++S +++
Sbjct: 16 ISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFP 75
Query: 711 SENKHYAHVDCPGHAD-----YIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQV 765
+ +D PGH D Y T A +D A++V A G PQTR+ + + R
Sbjct: 76 YRDCLINLLDTPGHEDFSEDTY----RTLTA-VDSALMVIDAAKGVEPQTRKLMEVCRLR 130
Query: 766 GVPNIVVFLNKAD-CVQDK-ELLDLVE 790
P I F+NK D ++ ELLD +E
Sbjct: 131 DTP-IFTFINKLDRDGREPLELLDEIE 156
>gnl|CDD|206670 cd01883, EF1_alpha, Elongation Factor 1-alpha (EF1-alpha) protein
family. EF1 is responsible for the GTP-dependent
binding of aminoacyl-tRNAs to the ribosomes. EF1 is
composed of four subunits: the alpha chain which binds
GTP and aminoacyl-tRNAs, the gamma chain that probably
plays a role in anchoring the complex to other cellular
components and the beta and delta (or beta') chains.
This subfamily is the alpha subunit, and represents the
counterpart of bacterial EF-Tu for the archaea
(aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha
interacts with the actin of the eukaryotic cytoskeleton
and may thereby play a role in cellular transformation
and apoptosis. EF-Tu can have no such role in bacteria.
In humans, the isoform eEF1A2 is overexpressed in 2/3 of
breast cancers and has been identified as a putative
oncogene. This subfamily also includes Hbs1, a G protein
known to be important for efficient growth and protein
synthesis under conditions of limiting translation
initiation in yeast, and to associate with Dom34. It has
been speculated that yeast Hbs1 and Dom34 proteins may
function as part of a complex with a role in gene
expression.
Length = 219
Score = 138 bits (350), Expect = 5e-37
Identities = 64/185 (34%), Positives = 95/185 (51%), Gaps = 27/185 (14%)
Query: 657 IGHVDHGKTTLT---------------AALTKVSSEIYGGEVRAFDTI-DNAPEEKERGI 700
IGHVD GK+TLT K + E+ G E + + D EE+ERG+
Sbjct: 5 IGHVDAGKSTLTGHLLYKLGGVDKRTIEKYEKEAKEM-GKESFKYAWVLDKLKEERERGV 63
Query: 701 TISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDG-------PMP 753
TI ++E+E + +D PGH D++KNMITGA+Q D A+LV SA G
Sbjct: 64 TIDVGLAKFETEKYRFTIIDAPGHRDFVKNMITGASQADVAVLVVSARKGEFEAGFEKGG 123
Query: 754 QTREHILLARQVGVPNIVVFLNKADCVQ---DKELLDLVEMEIRELLTEYDFDGENTKIV 810
QTREH LLAR +GV ++V +NK D V +E D ++ ++ L + ++ ++ +
Sbjct: 124 QTREHALLARTLGVKQLIVAVNKMDDVTVNWSQERYDEIKKKVSPFLKKVGYNPKDVPFI 183
Query: 811 IGSAL 815
S
Sbjct: 184 PISGF 188
Score = 66.0 bits (162), Expect = 5e-12
Identities = 48/179 (26%), Positives = 77/179 (43%), Gaps = 43/179 (24%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTT-------------------ITDW 50
N+ +I HVDAGK+T T +L+ K+G V T + D
Sbjct: 1 NLVVIGHVDAGKSTLTGHLLY------KLGGVDKRTIEKYEKEAKEMGKESFKYAWVLDK 54
Query: 51 MQQEQERGITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICA 110
+++E+ERG+TI + KY IID PGH DF + D AV+++ A
Sbjct: 55 LKEERERGVTIDVG----LAKFETEKYRFTIIDAPGHRDFVKNMITGASQADVAVLVVSA 110
Query: 111 SSG-------IQPQTETVWFQSQKYKVPKMI-FVNKMDRIGANYNNCIIDIKKKFNCIV 161
G QT ++ V ++I VNKMD + N++ +++++ I
Sbjct: 111 RKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVNWS------QERYDEIK 163
>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit
gamma; Validated.
Length = 411
Score = 142 bits (360), Expect = 2e-36
Identities = 107/339 (31%), Positives = 151/339 (44%), Gaps = 85/339 (25%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITI------------ 702
G +GHVDHGKTTL ALT V + D EE +RGITI
Sbjct: 13 GMVGHVDHGKTTLVQALTGVWT-------------DRHSEELKRGITIRLGYADATIRKC 59
Query: 703 -STSHVEYESENKHYAH-------------VDCPGHADYIKNMITGAAQMDGAILVCSAV 748
E + + VD PGH + M++GAA MDGAILV +A
Sbjct: 60 PDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGAILVIAAN 119
Query: 749 DG-PMPQTREHILLARQVGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDG--- 804
+ P PQT+EH++ +G+ NIV+ NK D V + L+ E +I+E + G
Sbjct: 120 EPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKERALENYE-QIKEFV-----KGTVA 173
Query: 805 ENTKIVIGSALLALEGKDDNQLGTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSIS 864
EN I+ SAL N I L++ ++ IPTP R DKP M + F ++
Sbjct: 174 ENAPIIPVSAL-----HKVN------IDALIEAIEEEIPTPERDLDKPPRMYVARSFDVN 222
Query: 865 GRGT--------VVTGKIERGIVKNGEEIEIV-GYK---------QTIKTTITGIEMFKK 906
GT V+ G + +G++K G+EIEI G K + I T I + +
Sbjct: 223 KPGTPPEKLKGGVIGGSLIQGVLKVGDEIEIRPGIKVEEGGKTKWEPITTKIVSLRAGGE 282
Query: 907 TLDE----GLAGENVGILLR-SVKREEVERGQVLAKIGS 940
++E GL G VG L S+ + + G V K G+
Sbjct: 283 KVEEARPGGLVG--VGTKLDPSLTKADALAGSVAGKPGT 319
Score = 42.5 bits (101), Expect = 8e-04
Identities = 35/141 (24%), Positives = 53/141 (37%), Gaps = 54/141 (38%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITI-------- 61
NIG++ HVD GKTT + + +G TD +E +RGITI
Sbjct: 11 NIGMVGHVDHGKTTLVQAL---TGVW------------TDRHSEELKRGITIRLGYADAT 55
Query: 62 --------------TSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSL--------R 99
T + ++ +D PGH E L
Sbjct: 56 IRKCPDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGH-----ET---LMATMLSGAA 107
Query: 100 VLDGAVIIICASSGI-QPQTE 119
++DGA+++I A+ QPQT+
Sbjct: 108 LMDGAILVIAANEPCPQPQTK 128
>gnl|CDD|227583 COG5258, GTPBP1, GTPase [General function prediction only].
Length = 527
Score = 143 bits (363), Expect = 5e-36
Identities = 118/416 (28%), Positives = 188/416 (45%), Gaps = 71/416 (17%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEY----- 709
G GHVDHGK+TL L + G R++ +D E ERG++ S Y
Sbjct: 121 GVAGHVDHGKSTLVGVLVTGRLDDGDGATRSY--LDVQKHEVERGLSADISLRVYGFDDG 178
Query: 710 ------------------ESENKHYAHVDCPGHADYIKNMITG--AAQMDGAILVCSAVD 749
+ +K + VD GH +++ I G ++D +LV +A D
Sbjct: 179 KVVRLKNPLDEAEKAAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADD 238
Query: 750 GPMPQTREHILLARQVGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTKI 809
G T+EH+ +A + +P IVV + K D V D +VE EI LL
Sbjct: 239 GVTKMTKEHLGIALAMELPVIVV-VTKIDMVPDDRFQGVVE-EISALLK----------- 285
Query: 810 VIGSALLALEGKDDNQLGTTSIK----------------KLLDVLD---SSIPTPNRITD 850
+G L ++ DD L ++K + LD+LD +P R D
Sbjct: 286 RVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFLLLPKRRRWDD 345
Query: 851 K-PFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYK--QTIKTTITGIEMFKKT 907
+ PFLM I+ ++S++G GTVV+G ++ GI+ G+ + + +K + + + IEM
Sbjct: 346 EGPFLMYIDKIYSVTGVGTVVSGSVKSGILHVGDTVLLGPFKDGKFREVVVKSIEMHHYR 405
Query: 908 LDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYILSKEEGGRH-TPFF 966
+D AG +GI L+ V++EE+ERG VL+ K+ F+ EV +L RH T
Sbjct: 406 VDSAKAGSIIGIALKGVEKEELERGMVLSAGADPKAVREFDAEVLVL------RHPTTIR 459
Query: 967 NGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKLNVTLL-SSIAIEIGLRFAIRE 1021
GY+P F++ T + + ++PGD + + +E G +F RE
Sbjct: 460 AGYEPVFHYETIREAVYFE-EIDKGFLMPGDRGVVRMRFKYRPHHVEEGQKFVFRE 514
>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation
factor; Provisional.
Length = 614
Score = 142 bits (359), Expect = 5e-35
Identities = 86/289 (29%), Positives = 137/289 (47%), Gaps = 52/289 (17%)
Query: 656 TIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENKH 715
T GHVDHGKTTL A+T V++ D PEEK+RG+TI
Sbjct: 5 TAGHVDHGKTTLLQAITGVNA-------------DRLPEEKKRGMTIDLG---------- 41
Query: 716 YAH-----------VDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQ 764
YA+ +D PGH ++ NM+ G +D A+LV + DG M QTREH+ + +
Sbjct: 42 YAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQL 101
Query: 765 VGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDN 824
G P + V L KAD V D+ + V +++ +L EY F K+ + + A EG
Sbjct: 102 TGNPMLTVALTKADRV-DEARIAEVRRQVKAVLREYGFAE--AKLFVTA---ATEG---- 151
Query: 825 QLGTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEE 884
I L + L +P F + I+ F++ G G VVTG G VK G+
Sbjct: 152 ----RGIDALREHL-LQLPEREHAAQHRFRLAIDRAFTVKGAGLVVTGTALSGEVKVGDT 206
Query: 885 IEIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGI-LLRSVKREEVERG 932
+ + G + ++ + G+ + ++ AG+ + + + ++E++ RG
Sbjct: 207 LWLTGVNKPMR--VRGLHAQNQPTEQAQAGQRIALNIAGDAEKEQINRG 253
Score = 38.5 bits (90), Expect = 0.018
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 37/117 (31%)
Query: 13 IIA---HVDAGKTTTTERILFYSGSSHKIGEVHHGTTI-TDWMQQEQERGITITSASVSI 68
IIA HVD GKTT + I T + D + +E++RG+TI
Sbjct: 2 IIATAGHVDHGKTTLLQAI----------------TGVNADRLPEEKKRGMTIDLG---- 41
Query: 69 FWEVNKFKY-------MINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT 118
+ Y ++ ID PGH F + + +D A++++ G+ QT
Sbjct: 42 ------YAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQT 92
>gnl|CDD|165621 PLN00043, PLN00043, elongation factor 1-alpha; Provisional.
Length = 447
Score = 137 bits (347), Expect = 2e-34
Identities = 100/310 (32%), Positives = 157/310 (50%), Gaps = 41/310 (13%)
Query: 657 IGHVDHGKTTLTAALT---------------KVSSEIYGGEVRAFDTIDNAPEEKERGIT 701
IGHVD GK+T T L K ++E+ + +D E+ERGIT
Sbjct: 13 IGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGIT 72
Query: 702 ISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMP-------Q 754
I + ++E+ + +D PGH D+IKNMITG +Q D A+L+ + G Q
Sbjct: 73 IDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQ 132
Query: 755 TREHILLARQVGVPNIVVFLNKADCVQ---DKELLDLVEMEIRELLTEYDFDGENTKIVI 811
TREH LLA +GV ++ NK D K D + E+ L + ++ + V
Sbjct: 133 TREHALLAFTLGVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFV- 191
Query: 812 GSALLALEGKDDNQLG-TTSIK-----KLLDVLDSSIPTPNRITDKPFLMPIEDVFSISG 865
+ EG DN + +T++ LL+ LD I P R +DKP +P++DV+ I G
Sbjct: 192 --PISGFEG--DNMIERSTNLDWYKGPTLLEALD-QINEPKRPSDKPLRLPLQDVYKIGG 246
Query: 866 RGTVVTGKIERGIVKNGEEIEIVGYKQT-IKTTITGIEMFKKTLDEGLAGENVGILLRSV 924
GTV G++E G++K G +V + T + T + +EM ++L E L G+NVG +++V
Sbjct: 247 IGTVPVGRVETGVIKPG---MVVTFGPTGLTTEVKSVEMHHESLQEALPGDNVGFNVKNV 303
Query: 925 KREEVERGQV 934
++++RG V
Sbjct: 304 AVKDLKRGYV 313
Score = 58.2 bits (140), Expect = 1e-08
Identities = 53/180 (29%), Positives = 80/180 (44%), Gaps = 26/180 (14%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHK---------IGEVHHGTTITDW----MQQEQE 56
NI +I HVD+GK+TTT +++ G K E++ + W ++ E+E
Sbjct: 9 NIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERE 68
Query: 57 RGITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSG--- 113
RGITI A W+ KY +ID PGH DF + D AV+II +++G
Sbjct: 69 RGITIDIA----LWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFE 124
Query: 114 ----IQPQTETVWFQSQKYKVPKMI-FVNKMDRIGANYNNCIID-IKKKFNCIVLPINFN 167
QT + V +MI NKMD Y+ D I K+ + + + +N
Sbjct: 125 AGISKDGQTREHALLAFTLGVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYN 184
>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit
(eIF-2gamma; GTPase) [Translation, ribosomal structure
and biogenesis].
Length = 415
Score = 134 bits (340), Expect = 1e-33
Identities = 102/351 (29%), Positives = 160/351 (45%), Gaps = 76/351 (21%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITI------------ 702
G +GHVDHGKTTLT AL+ V + D EE +RGITI
Sbjct: 14 GMVGHVDHGKTTLTKALSGVWT-------------DRHSEELKRGITIKLGYADAKIYKC 60
Query: 703 ------STSHVEYESEN--------KHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAV 748
E + N + + VD PGH + M++GAA MDGA+LV +A
Sbjct: 61 PECYRPECYTTEPKCPNCGAETELVRRVSFVDAPGHETLMATMLSGAALMDGALLVIAAN 120
Query: 749 DG-PMPQTREHILLARQVGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENT 807
+ P PQTREH++ +G+ NI++ NK D V + L+ E +I+E + EN
Sbjct: 121 EPCPQPQTREHLMALEIIGIKNIIIVQNKIDLVSRERALENYE-QIKEFVKGT--VAENA 177
Query: 808 KIVIGSALLALEGKDDNQLGTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRG 867
I+ SA +I L++ ++ IPTP R DKP M + F ++ G
Sbjct: 178 PIIPISAQHK-----------ANIDALIEAIEKYIPTPERDLDKPPRMYVARSFDVNKPG 226
Query: 868 T--------VVTGKIERGIVKNGEEIEIV-GYK---------QTIKTTITGIEMFKKTLD 909
T V+ G + +G+++ G+EIEI G + I T I ++ + ++
Sbjct: 227 TPPEELKGGVIGGSLVQGVLRVGDEIEIRPGIVVEKGGKTVWEPITTEIVSLQAGGEDVE 286
Query: 910 EGLAGENVGI---LLRSVKREEVERGQVLAKIGSIKS-YNIFECEVYILSK 956
E G VG+ L ++ + + GQV+ K G++ + E ++L +
Sbjct: 287 EARPGGLVGVGTKLDPTLTKADALVGQVVGKPGTLPPVWTSIRIEYHLLER 337
Score = 45.4 bits (108), Expect = 1e-04
Identities = 40/155 (25%), Positives = 61/155 (39%), Gaps = 39/155 (25%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITI-------- 61
NIG++ HVD GKTT T+ + SG TD +E +RGITI
Sbjct: 12 NIGMVGHVDHGKTTLTKAL---SGVW------------TDRHSEELKRGITIKLGYADAK 56
Query: 62 --------------TSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVII 107
T + ++ +D PGH + ++DGA+++
Sbjct: 57 IYKCPECYRPECYTTEPKCPNCGAETELVRRVSFVDAPGHETLMATMLSGAALMDGALLV 116
Query: 108 ICAS-SGIQPQTETVWFQSQKYKVPKMIFV-NKMD 140
I A+ QPQT + + +I V NK+D
Sbjct: 117 IAANEPCPQPQTREHLMALEIIGIKNIIIVQNKID 151
>gnl|CDD|206678 cd01891, TypA_BipA, Tyrosine phosphorylated protein A (TypA)/BipA
family belongs to ribosome-binding GTPases. BipA is a
protein belonging to the ribosome-binding family of
GTPases and is widely distributed in bacteria and
plants. BipA was originally described as a protein that
is induced in Salmonella typhimurium after exposure to
bactericidal/permeability-inducing protein (a cationic
antimicrobial protein produced by neutrophils), and has
since been identified in E. coli as well. The properties
thus far described for BipA are related to its role in
the process of pathogenesis by enteropathogenic E. coli.
It appears to be involved in the regulation of several
processes important for infection, including
rearrangements of the cytoskeleton of the host,
bacterial resistance to host defense peptides,
flagellum-mediated cell motility, and expression of K5
capsular genes. It has been proposed that BipA may
utilize a novel mechanism to regulate the expression of
target genes. In addition, BipA from enteropathogenic E.
coli has been shown to be phosphorylated on a tyrosine
residue, while BipA from Salmonella and from E. coli K12
strains is not phosphorylated under the conditions
assayed. The phosphorylation apparently modifies the
rate of nucleotide hydrolysis, with the phosphorylated
form showing greatly increased GTPase activity.
Length = 194
Score = 125 bits (315), Expect = 1e-32
Identities = 58/138 (42%), Positives = 83/138 (60%), Gaps = 6/138 (4%)
Query: 8 FRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVS 67
RNI IIAHVD GKTT + +L SG+ + EV G + D E+ERGITI + + +
Sbjct: 2 IRNIAIIAHVDHGKTTLVDALLKQSGTFRENEEV--GERVMDSNDLERERGITILAKNTA 59
Query: 68 IFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
I ++ INIIDTPGH DF EVER L ++DG ++++ AS G PQT V ++ +
Sbjct: 60 ITYKD----TKINIIDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALE 115
Query: 128 YKVPKMIFVNKMDRIGAN 145
+ ++ +NK+DR A
Sbjct: 116 AGLKPIVVINKIDRPDAR 133
Score = 93.0 bits (232), Expect = 2e-21
Identities = 65/201 (32%), Positives = 96/201 (47%), Gaps = 26/201 (12%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENKHY 716
I HVDHGKTTL AL K S E +D+ E+ERGITI + ++
Sbjct: 8 IAHVDHGKTTLVDALLKQSGTFRENEEVGERVMDSNDLERERGITILAKNTAITYKDTKI 67
Query: 717 AHVDCPGHADY------IKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNI 770
+D PGHAD+ + +M+ DG +L+ A +GPMPQTR + A + G+ I
Sbjct: 68 NIIDTPGHADFGGEVERVLSMV------DGVLLLVDASEGPMPQTRFVLKKALEAGLKPI 121
Query: 771 VVFLNKAD--CVQDKELLDLVEMEIRELLTEYDFDGE--NTKIVIGSAL--LALEGKDDN 824
VV +NK D + +E++D E+ +L E + E + IV SA A DD
Sbjct: 122 VV-INKIDRPDARPEEVVD----EVFDLFLELNATDEQLDFPIVYASAKNGWASLNLDDP 176
Query: 825 QLGTTSIKKLLDVLDSSIPTP 845
+ + L + + +P P
Sbjct: 177 ---SEDLDPLFETIIEHVPAP 194
>gnl|CDD|206677 cd01890, LepA, LepA also known as Elongation Factor 4 (EF4). LepA
(also known as elongation factor 4, EF4) belongs to the
GTPase family and exhibits significant homology to the
translation factors EF-G and EF-Tu, indicating its
possible involvement in translation and association with
the ribosome. LepA is ubiquitous in bacteria and
eukaryota (e.g. yeast GUF1p), but is missing from
archaea. This pattern of phyletic distribution suggests
that LepA evolved through a duplication of the EF-G gene
in bacteria, followed by early transfer into the
eukaryotic lineage, most likely from the
promitochondrial endosymbiont. Yeast GUF1p is not
essential and mutant cells did not reveal any marked
phenotype.
Length = 179
Score = 123 bits (311), Expect = 3e-32
Identities = 58/179 (32%), Positives = 101/179 (56%), Gaps = 9/179 (5%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSI 68
RN IIAH+D GK+T +R+L +G+ + E + D M E+ERGITI + +V +
Sbjct: 1 RNFSIIAHIDHGKSTLADRLLELTGT---VSEREMKEQVLDSMDLERERGITIKAQAVRL 57
Query: 69 FWEVNKFK-YMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
F++ + Y++N+IDTPGHVDF+ EV RSL +GA++++ A+ G++ QT ++ + +
Sbjct: 58 FYKAKDGEEYLLNLIDTPGHVDFSYEVSRSLAACEGALLVVDATQGVEAQTLANFYLALE 117
Query: 128 YKVPKMIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINF-----NIGIEENYEGIVDII 181
+ + +NK+D A+ + +I+ +G+E+ E IV+ I
Sbjct: 118 NNLEIIPVINKIDLPAADPDRVKQEIEDVLGLDASEAILVSAKTGLGVEDLLEAIVERI 176
Score = 57.2 bits (139), Expect = 3e-09
Identities = 39/129 (30%), Positives = 65/129 (50%), Gaps = 7/129 (5%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITI--STSHVEYESENK 714
I H+DHGK+TL L +++ + E++ +D+ E+ERGITI + Y++++
Sbjct: 6 IAHIDHGKSTLADRLLELTGTVSEREMKE-QVLDSMDLERERGITIKAQAVRLFYKAKDG 64
Query: 715 H---YAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIV 771
+D PGH D+ + A +GA+LV A G QT + LA + + I+
Sbjct: 65 EEYLLNLIDTPGHVDFSYEVSRSLAACEGALLVVDATQGVEAQTLANFYLALENNL-EII 123
Query: 772 VFLNKADCV 780
+NK D
Sbjct: 124 PVINKIDLP 132
>gnl|CDD|239755 cd04088, EFG_mtEFG_II, EFG_mtEFG_II: this subfamily represents the
domain II of elongation factor G (EF-G) in bacteria and,
the C-terminus of mitochondrial Elongation factor G1
(mtEFG1) and G2 (mtEFG2)_like proteins found in
eukaryotes. During the process of peptide synthesis and
tRNA site changes, the ribosome is moved along the mRNA
a distance equal to one codon with the addition of each
amino acid. In bacteria this translocation step is
catalyzed by EF-G_GTP, which is hydrolyzed to provide
the required energy. Thus, this action releases the
uncharged tRNA from the P site and transfers the newly
formed peptidyl-tRNA from the A site to the P site.
Eukaryotic cells harbor 2 protein synthesis systems: one
localized in the cytoplasm, the other in the
mitochondria. Most factors regulating mitochondrial
protein synthesis are encoded by nuclear genes,
translated in the cytoplasm, and then transported to the
mitochondria. The eukaryotic system of elongation factor
(EF) components is more complex than that in
prokaryotes, with both cytoplasmic and mitochondrial
elongation factors and multiple isoforms being expressed
in certain species. mtEFG1 and mtEFG2 show significant
homology to bacterial EF-Gs. Mutants in yeast mtEFG1
have impaired mitochondrial protein synthesis,
respiratory defects and a tendency to lose mitochondrial
DNA. No clear phenotype has been found for mutants in
the yeast homologue of mtEFG2, MEF2.
Length = 83
Score = 117 bits (295), Expect = 2e-31
Identities = 44/83 (53%), Positives = 62/83 (74%)
Query: 298 FVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKKDIND 357
FV+LVFK HDPF+G LSF+R+YSG +K G +YNSTK KE++ R+LRM ++++ +
Sbjct: 1 FVALVFKTIHDPFVGKLSFVRVYSGTLKAGSTLYNSTKGKKERVGRLLRMHGKKQEEVEE 60
Query: 358 AHFGDIVVIVGLKESSTGDTLCS 380
A GDI + GLK+++TGDTLC
Sbjct: 61 AGAGDIGAVAGLKDTATGDTLCD 83
>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1
[Inorganic ion transport and metabolism].
Length = 431
Score = 126 bits (318), Expect = 9e-31
Identities = 85/312 (27%), Positives = 140/312 (44%), Gaps = 42/312 (13%)
Query: 656 TIGHVDHGKTTLTAALTKVSSEIYGGEV-----------RAFDTIDNA------PEEKER 698
T G VD GK+TL L + IY ++ + ID A E+E+
Sbjct: 11 TCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQ 70
Query: 699 GITISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREH 758
GITI ++ + +E + + D PGH Y +NM TGA+ D AIL+ A G + QTR H
Sbjct: 71 GITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRH 130
Query: 759 ILLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLA 817
+A +G+ ++VV +NK D V +E+ + + + + + I I A
Sbjct: 131 SFIASLLGIRHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLK-DVRFIPIS----A 185
Query: 818 LEGKDDNQLGTT------SIKKLLDVLDSSIPTPNRITDKPFLMPIEDV--FSISGRGTV 869
L G DN + + LL++L+ ++ + + K F P++ V ++ RG
Sbjct: 186 LLG--DNVVSKSENMPWYKGPTLLEILE-TVEIADDRSAKAFRFPVQYVNRPNLDFRG-- 240
Query: 870 VTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKRE-E 928
G I G VK G+ E+V + + I F L + AGE V ++L E +
Sbjct: 241 YAGTIASGSVKVGD--EVVVLPSGKTSRVKRIVTFDGELAQASAGEAVTLVL---ADEID 295
Query: 929 VERGQVLAKIGS 940
+ RG ++ +
Sbjct: 296 ISRGDLIVAADA 307
Score = 56.5 bits (137), Expect = 3e-08
Identities = 38/141 (26%), Positives = 66/141 (46%), Gaps = 20/141 (14%)
Query: 16 HVDAGKTTTTERILFYSGS--SHKIGEVH-----HGTT--------ITDWMQQEQERGIT 60
VD GK+T R+L+ + + ++ + GT + D ++ E+E+GIT
Sbjct: 14 SVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGIT 73
Query: 61 ITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTET 120
I A ++ K K++I DTPGH +T + D A++++ A G+ QT
Sbjct: 74 IDVAY--RYFSTEKRKFII--ADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRR 129
Query: 121 VWFQSQKYKVPKMIF-VNKMD 140
F + + ++ VNKMD
Sbjct: 130 HSFIASLLGIRHVVVAVNKMD 150
>gnl|CDD|240409 PTZ00416, PTZ00416, elongation factor 2; Provisional.
Length = 836
Score = 128 bits (323), Expect = 4e-30
Identities = 59/147 (40%), Positives = 92/147 (62%), Gaps = 12/147 (8%)
Query: 3 NKVLYFRNIGIIAHVDAGKTTTTERILFYSG--SSHKIGEVHHGTTITDWMQQEQERGIT 60
+ RN+ +IAHVD GK+T T+ ++ +G SS G+ TD EQERGIT
Sbjct: 14 DNPDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGD----ARFTDTRADEQERGIT 69
Query: 61 ITSASVSIFWE------VNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGI 114
I S +S+++E +K ++IN+ID+PGHVDF+ EV +LRV DGA++++ G+
Sbjct: 70 IKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGV 129
Query: 115 QPQTETVWFQSQKYKVPKMIFVNKMDR 141
QTETV Q+ + ++ ++F+NK+DR
Sbjct: 130 CVQTETVLRQALQERIRPVLFINKVDR 156
Score = 72.8 bits (179), Expect = 6e-13
Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 25/156 (16%)
Query: 639 LRELFGYSTDLRSNTKGTIGHVDHGKTTLTAALTK---VSSEIYGGEVRAFDTIDNAPEE 695
+RE+ +R+ + I HVDHGK+TLT +L + S G+ R DT +E
Sbjct: 9 IREIMDNPDQIRNMS--VIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDT---RADE 63
Query: 696 KERGITI-STS---HVEYESENKHYAH------VDCPGHADYIKNMITGAAQM-DGAILV 744
+ERGITI ST + E++ E+ +D PGH D+ + +T A ++ DGA++V
Sbjct: 64 QERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDF-SSEVTAALRVTDGALVV 122
Query: 745 CSAVDGPMPQTREHILLARQVGVPNI--VVFLNKAD 778
V+G QT E +L RQ I V+F+NK D
Sbjct: 123 VDCVEGVCVQT-ETVL--RQALQERIRPVLFINKVD 155
Score = 66.6 bits (163), Expect = 4e-11
Identities = 53/181 (29%), Positives = 91/181 (50%), Gaps = 29/181 (16%)
Query: 315 SFIRIYSGFIKVG--------DLVYNSTKKVKEK-IFRILRMFANSKKDINDAHFGDIVV 365
+F R++SG + G + V + + EK I R + M + I D G+ V
Sbjct: 390 AFGRVFSGTVATGQKVRIQGPNYVPGKKEDLFEKNIQRTVLMMGRYVEQIEDVPCGNTVG 449
Query: 366 IVG----LKESSTGDTLCSLSENIQLENIE----TPIPVISISIEPIFKNDQE--KLLNI 415
+VG L +S T ++ + NI + PV+ +++EP KN ++ KL+
Sbjct: 450 LVGVDQYLVKSGT------ITTSETAHNIRDMKYSVSPVVRVAVEP--KNPKDLPKLVEG 501
Query: 416 LQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKE-NNIKTKISKPQVSYKES 474
L++ K DP L++ +GE I++G GELH+EI + + + NI +S P VSY+E+
Sbjct: 502 LKRLAKSDP-LVVCTTEESGEHIVAGCGELHVEICLKDLEDDYANIDIIVSDPVVSYRET 560
Query: 475 I 475
+
Sbjct: 561 V 561
Score = 51.2 bits (123), Expect = 2e-06
Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 10/71 (14%)
Query: 591 ILEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFK------IINSYIPLRELFG 644
+LEP+ V++ P + +G + +N++RG++ E + I +Y+P+ E FG
Sbjct: 718 LLEPMFLVDITAPEDAMGGIYSVLNRRRGVVI----GEEQRPGTPLSNIKAYLPVAESFG 773
Query: 645 YSTDLRSNTKG 655
++ LR+ T G
Sbjct: 774 FTAALRAATSG 784
>gnl|CDD|233394 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 [Regulatory functions,
Other, Cellular processes, Adaptations to atypical
conditions, Protein synthesis, Translation factors].
Length = 594
Score = 123 bits (310), Expect = 5e-29
Identities = 56/137 (40%), Positives = 80/137 (58%), Gaps = 6/137 (4%)
Query: 8 FRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVS 67
RNI IIAHVD GKTT + +L SG+ V + D E+ERGITI + + +
Sbjct: 1 IRNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAE--RVMDSNDLERERGITILAKNTA 58
Query: 68 IFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
I + K INI+DTPGH DF EVER L ++DG ++++ AS G PQT V ++ +
Sbjct: 59 IRYNGTK----INIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALE 114
Query: 128 YKVPKMIFVNKMDRIGA 144
+ ++ +NK+DR A
Sbjct: 115 LGLKPIVVINKIDRPSA 131
Score = 120 bits (304), Expect = 3e-28
Identities = 86/279 (30%), Positives = 127/279 (45%), Gaps = 29/279 (10%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEV---RAFDTIDNAPEEKERGITISTSHVEYESEN 713
I HVDHGKTTL AL K S E R D+ D E+ERGITI +
Sbjct: 7 IAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSND---LERERGITILAKNTAIRYNG 63
Query: 714 KHYAHVDCPGHADY------IKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGV 767
VD PGHAD+ + M+ DG +L+ A +GPMPQTR + A ++G+
Sbjct: 64 TKINIVDTPGHADFGGEVERVLGMV------DGVLLLVDASEGPMPQTRFVLKKALELGL 117
Query: 768 PNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGE--NTKIVIGSALLALEGKDDNQ 825
IVV +NK D + D V E+ +L E D E + IV S D +
Sbjct: 118 KPIVV-INKID--RPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDD 174
Query: 826 LGTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEI 885
+ L D + +P P D+P M + ++ G + G++ RG VK G+++
Sbjct: 175 PSDN-MAPLFDAIVRHVPAPKGDLDEPLQMLVTNLDYDEYLGRIAIGRVHRGTVKKGQQV 233
Query: 886 EIVGYKQTIKTT-ITGIEMFK----KTLDEGLAGENVGI 919
++ TI+ I+ + F+ +DE AG+ V +
Sbjct: 234 ALMKRDGTIENGRISKLLGFEGLERVEIDEAGAGDIVAV 272
Score = 74.3 bits (183), Expect = 2e-13
Identities = 51/221 (23%), Positives = 103/221 (46%), Gaps = 30/221 (13%)
Query: 268 LLNSICEYLPSPYDVDFKNNDYNINLNSNKFVSLVFKIFHDPFLGSLSFIRIYSGFIKVG 327
L ++I ++P+P +L+ LV + +D +LG ++ R++ G +K G
Sbjct: 182 LFDAIVRHVPAP----------KGDLD-EPLQMLVTNLDYDEYLGRIAIGRVHRGTVKKG 230
Query: 328 D---LVYNSTKKVKEKIFRILRMFANSKKDINDAHFGDIVVIVGLKESSTGDTLCSLSEN 384
L+ +I ++L + +I++A GDIV + GL++ + G+T+
Sbjct: 231 QQVALMKRDGTIENGRISKLLGFEGLERVEIDEAGAGDIVAVAGLEDINIGETIADPEVP 290
Query: 385 IQLENIETPIPVISISIEPIFKND-----QE-------KLLNILQKFCKEDPSLLLSINN 432
L I P +S++ ND +E + + L + + + +L +
Sbjct: 291 EALPTITVDEPTLSMTFSV---NDSPLAGKEGKKVTSRHIRDRLMRELETNVALRVEDTE 347
Query: 433 NTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKE 473
+ + +SG GELHL I+++ + +E + ++ +PQV YKE
Sbjct: 348 SADKFEVSGRGELHLSILIETMRRE-GFELQVGRPQVIYKE 387
Score = 42.7 bits (101), Expect = 0.001
Identities = 20/66 (30%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 592 LEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSY-IPLRELFGYSTDLR 650
LEPI ++ +++P E +G V+ + K++G + + N + + IP R L G+ T+
Sbjct: 393 LEPIEELTIDVPEEHVGAVIEKLGKRKGEMVDMEPSGNGRTRLEFKIPSRGLIGFRTEFL 452
Query: 651 SNTKGT 656
++T+GT
Sbjct: 453 TDTRGT 458
>gnl|CDD|217387 pfam03143, GTP_EFTU_D3, Elongation factor Tu C-terminal domain.
Elongation factor Tu consists of three structural
domains, this is the third domain. This domain adopts a
beta barrel structure. This the third domain is involved
in binding to both charged tRNA and binding to EF-Ts
pfam00889.
Length = 91
Score = 110 bits (277), Expect = 8e-29
Identities = 41/82 (50%), Positives = 50/82 (60%), Gaps = 5/82 (6%)
Query: 940 SIKSYNIFECEVYILSKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNI 999
IK + F+ +VYIL+ TP FNGY+P FY T DVTG LP E V+PGDN
Sbjct: 1 PIKPHTKFKAQVYILNH-----PTPIFNGYRPVFYCHTADVTGKFILPGKKEFVMPGDNA 55
Query: 1000 KLNVTLLSSIAIEIGLRFAIRE 1021
+ V L+ IA+E G RFAIRE
Sbjct: 56 IVTVELIKPIAVEKGQRFAIRE 77
>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress
response [Signal transduction mechanisms].
Length = 603
Score = 117 bits (296), Expect = 3e-27
Identities = 55/137 (40%), Positives = 80/137 (58%), Gaps = 6/137 (4%)
Query: 8 FRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVS 67
RNI IIAHVD GKTT + +L SG+ + EV + D E+ERGITI + + +
Sbjct: 5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEV--AERVMDSNDLEKERGITILAKNTA 62
Query: 68 IFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
+ + INI+DTPGH DF EVER L ++DG ++++ AS G PQT V ++
Sbjct: 63 VNYN----GTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALA 118
Query: 128 YKVPKMIFVNKMDRIGA 144
+ ++ +NK+DR A
Sbjct: 119 LGLKPIVVINKIDRPDA 135
Score = 109 bits (275), Expect = 1e-24
Identities = 90/282 (31%), Positives = 127/282 (45%), Gaps = 35/282 (12%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGE---VRAFDTIDNAPEEKERGITI---STSHVEYE 710
I HVDHGKTTL AL K S E R D+ D EKERGITI +T+ V Y
Sbjct: 11 IAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSND---LEKERGITILAKNTA-VNYN 66
Query: 711 SENKHYAHVDCPGHADY------IKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQ 764
VD PGHAD+ + +M+ DG +L+ A +GPMPQTR + A
Sbjct: 67 --GTRINIVDTPGHADFGGEVERVLSMV------DGVLLLVDASEGPMPQTRFVLKKALA 118
Query: 765 VGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTK--IVIGSALLALEGKD 822
+G+ IVV +NK D + D V E+ +L E E IV SA D
Sbjct: 119 LGLKPIVV-INKID--RPDARPDEVVDEVFDLFVELGATDEQLDFPIVYASARNGTASLD 175
Query: 823 DNQLGTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNG 882
+ L + + +P P D+P M + + S G + G+I RG VK
Sbjct: 176 PEDEADD-MAPLFETILDHVPAPKGDLDEPLQMQVTQLDYNSYVGRIGIGRIFRGTVKPN 234
Query: 883 EEIEIVGYKQTIKT-TITGIEMF----KKTLDEGLAGENVGI 919
+++ ++ T + IT + F + ++E AG+ V I
Sbjct: 235 QQVALIKSDGTTENGRITKLLGFLGLERIEIEEAEAGDIVAI 276
Score = 72.7 bits (179), Expect = 5e-13
Identities = 49/222 (22%), Positives = 102/222 (45%), Gaps = 32/222 (14%)
Query: 268 LLNSICEYLPSPYDVDFKNNDYNINLNSNK-FVSLVFKIFHDPFLGSLSFIRIYSGFIKV 326
L +I +++P+P + ++ V ++ ++ ++G + RI+ G +K
Sbjct: 186 LFETILDHVPAPKG------------DLDEPLQMQVTQLDYNSYVGRIGIGRIFRGTVKP 233
Query: 327 GD---LVYNSTKKVKEKIFRILRMFANSKKDINDAHFGDIVVIVGLKESSTGDTLCSLSE 383
L+ + +I ++L + +I +A GDIV I GL++ + GDT+C
Sbjct: 234 NQQVALIKSDGTTENGRITKLLGFLGLERIEIEEAEAGDIVAIAGLEDINIGDTICDPDN 293
Query: 384 NIQLENIETPIPVISISIEPIFKND-----QE-------KLLNILQKFCKEDPSLLLSIN 431
L + P +S++ ND +E ++ + L K + + +L +
Sbjct: 294 PEALPALSVDEPTLSMTFSV---NDSPFAGKEGKFVTSRQIRDRLNKELETNVALRVEET 350
Query: 432 NNTGETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKE 473
+ +SG GELHL I+++ + +E + ++S+P+V KE
Sbjct: 351 ESPDAFEVSGRGELHLSILIENMRRE-GFELQVSRPEVIIKE 391
Score = 39.1 bits (92), Expect = 0.013
Identities = 18/73 (24%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 585 KKANSYILEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKI-INSYIPLRELF 643
K+ + EP +V +++P E G V+ + +++G + + ++ + IP R L
Sbjct: 390 KEIDGVKCEPFEEVTIDVPEEHQGAVIEKLGERKGEMKDMAPDGKGRVRLEFVIPARGLI 449
Query: 644 GYSTDLRSNTKGT 656
G+ T+ + T+GT
Sbjct: 450 GFRTEFLTMTRGT 462
>gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit;
Provisional.
Length = 843
Score = 117 bits (296), Expect = 8e-27
Identities = 59/147 (40%), Positives = 90/147 (61%), Gaps = 18/147 (12%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSG--SSHKIGEVHHGTTITDWMQQEQERGITITSASV 66
RN+ +IAHVD GK+T T+ ++ +G + G+V +TD E ERGITI S +
Sbjct: 20 RNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVR----MTDTRADEAERGITIKSTGI 75
Query: 67 SIFWEVNK-----FK-------YMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGI 114
S+++E+ FK Y+IN+ID+PGHVDF+ EV +LR+ DGA++++ G+
Sbjct: 76 SLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGV 135
Query: 115 QPQTETVWFQSQKYKVPKMIFVNKMDR 141
QTETV Q+ ++ ++ VNKMDR
Sbjct: 136 CVQTETVLRQALGERIRPVLTVNKMDR 162
Score = 62.4 bits (152), Expect = 8e-10
Identities = 54/163 (33%), Positives = 80/163 (49%), Gaps = 33/163 (20%)
Query: 639 LRELFGYSTDLRSNTKGTIGHVDHGKTTLT----AALTKVSSEIYGGEVRAFDTIDNAPE 694
LR + ++R+ + I HVDHGK+TLT AA ++ E+ G+VR DT +
Sbjct: 9 LRRIMDKKHNIRNMS--VIAHVDHGKSTLTDSLVAAAGIIAQEV-AGDVRMTDTRA---D 62
Query: 695 EKERGITI--------------STSHVEYESENKHYA--HVDCPGHADYIKNMITGAAQM 738
E ERGITI S + E + Y +D PGH D+ + +T A ++
Sbjct: 63 EAERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDF-SSEVTAALRI 121
Query: 739 -DGAILVCSAVDGPMPQTREHILLARQVGVPNI--VVFLNKAD 778
DGA++V ++G QT E +L RQ I V+ +NK D
Sbjct: 122 TDGALVVVDCIEGVCVQT-ETVL--RQALGERIRPVLTVNKMD 161
Score = 59.7 bits (145), Expect = 6e-09
Identities = 47/179 (26%), Positives = 90/179 (50%), Gaps = 20/179 (11%)
Query: 314 LSFIRIYSGFIKVGDLV------YNSTKK----VKEKIFRILRMFANSKKDINDAHFGDI 363
+F R++SG + G V Y +K VK + R + ++ + D G+
Sbjct: 393 FAFGRVFSGTVATGMKVRIMGPNYVPGEKKDLYVK-SVQRTVIWMGKKQESVEDVPCGNT 451
Query: 364 VVIVGLKESSTGDTLCSLSENIQLENIE----TPIPVISISIEPIFKNDQEKLLNILQKF 419
V +VGL + T + + + + I+ + PV+ ++++ +D KL+ L++
Sbjct: 452 VAMVGLDQFITKNATLTNEKEVDAHPIKAMKFSVSPVVRVAVQCKNASDLPKLVEGLKRL 511
Query: 420 CKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKE---NNIKTKISKPQVSYKESI 475
K DP + +I +GE I++G GELHLEI + + L++ + K+S P VS++E++
Sbjct: 512 AKSDPMVQCTIEE-SGEHIIAGAGELHLEICL-KDLQDDFMGGAEIKVSDPVVSFRETV 568
Score = 50.5 bits (121), Expect = 4e-06
Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 2/71 (2%)
Query: 587 ANSYILEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIIN--SYIPLRELFG 644
A +LEP+ VE+ P + LG + +N+KRG + + + N +Y+P+ E FG
Sbjct: 721 AKPRLLEPVYLVEIQAPEQALGGIYSVLNQKRGHVFEEMQRPGTPLYNIKAYLPVIESFG 780
Query: 645 YSTDLRSNTKG 655
+S LR+ T G
Sbjct: 781 FSGTLRAATSG 791
>gnl|CDD|206729 cd04166, CysN_ATPS, CysN, together with protein CysD, forms the ATP
sulfurylase (ATPS) complex. CysN_ATPS subfamily. CysN,
together with protein CysD, form the ATP sulfurylase
(ATPS) complex in some bacteria and lower eukaryotes.
ATPS catalyzes the production of ATP sulfurylase (APS)
and pyrophosphate (PPi) from ATP and sulfate. CysD,
which catalyzes ATP hydrolysis, is a member of the ATP
pyrophosphatase (ATP PPase) family. CysN hydrolysis of
GTP is required for CysD hydrolysis of ATP; however,
CysN hydrolysis of GTP is not dependent on CysD
hydrolysis of ATP. CysN is an example of lateral gene
transfer followed by acquisition of new function. In
many organisms, an ATPS exists which is not
GTP-dependent and shares no sequence or structural
similarity to CysN.
Length = 209
Score = 103 bits (260), Expect = 4e-25
Identities = 54/178 (30%), Positives = 86/178 (48%), Gaps = 19/178 (10%)
Query: 656 TIGHVDHGKTTLTAAL---TK----------VSSEIYGGEVRAFD---TIDNAPEEKERG 699
T G VD GK+TL L +K S+ G + D +D E+E+G
Sbjct: 4 TCGSVDDGKSTLIGRLLYDSKSIFEDQLAALERSKSSGTQGEKLDLALLVDGLQAEREQG 63
Query: 700 ITISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHI 759
ITI ++ + + + + D PGH Y +NM+TGA+ D AIL+ A G + QTR H
Sbjct: 64 ITIDVAYRYFSTPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHS 123
Query: 760 LLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIGSALL 816
+A +G+ ++VV +NK D V D+E+ + ++ + E+ + SAL
Sbjct: 124 YIASLLGIRHVVVAVNKMDLVDYDEEVFEEIKADYLAFAASLGI--EDITFIPISALE 179
Score = 61.8 bits (151), Expect = 1e-10
Identities = 40/143 (27%), Positives = 67/143 (46%), Gaps = 19/143 (13%)
Query: 16 HVDAGKTTTTERILFYSGS--SHKIGEVH----HGTT--------ITDWMQQEQERGITI 61
VD GK+T R+L+ S S ++ + GT + D +Q E+E+GITI
Sbjct: 7 SVDDGKSTLIGRLLYDSKSIFEDQLAALERSKSSGTQGEKLDLALLVDGLQAEREQGITI 66
Query: 62 TSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETV 121
A ++ K K++I DTPGH +T + D A++++ A G+ QT
Sbjct: 67 DVAY--RYFSTPKRKFII--ADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRH 122
Query: 122 WFQSQKYKVPKMIF-VNKMDRIG 143
+ + + ++ VNKMD +
Sbjct: 123 SYIASLLGIRHVVVAVNKMDLVD 145
>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 [Unknown function, General].
Length = 595
Score = 110 bits (278), Expect = 5e-25
Identities = 49/111 (44%), Positives = 73/111 (65%), Gaps = 4/111 (3%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSI 68
RN IIAH+D GK+T +R+L Y+G+ I E + D M E+ERGITI + +V +
Sbjct: 4 RNFSIIAHIDHGKSTLADRLLEYTGA---ISEREMREQVLDSMDLERERGITIKAQAVRL 60
Query: 69 FW-EVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT 118
+ + Y++N+IDTPGHVDF+ EV RSL +GA++++ A+ GI+ QT
Sbjct: 61 NYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQT 111
Score = 73.1 bits (180), Expect = 4e-13
Identities = 71/274 (25%), Positives = 118/274 (43%), Gaps = 25/274 (9%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHV-----EYES 711
I H+DHGK+TL L + + I E+R +D+ E+ERGITI V +
Sbjct: 9 IAHIDHGKSTLADRLLEYTGAISEREMRE-QVLDSMDLERERGITIKAQAVRLNYKAKDG 67
Query: 712 ENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIV 771
E +D PGH D+ + A +GA+L+ A G QT ++ LA + + I+
Sbjct: 68 ETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDL-EII 126
Query: 772 VFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSI 831
+NK D + V+ EI E++ G + I A G I
Sbjct: 127 PVINKIDLPSAD--PERVKKEIEEVI------GLDASEAI--LASAKTG--------IGI 168
Query: 832 KKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYK 891
+++L+ + +P P D P I D + RG V ++ G +K G++I +
Sbjct: 169 EEILEAIVKRVPPPKGDPDAPLKALIFDSHYDNYRGVVALVRVFEGTIKPGDKIRFMSTG 228
Query: 892 QTIKTTITGIEMFKKTLDEGLAGENVGILLRSVK 925
+ + G+ K T + L+ VG ++ +K
Sbjct: 229 KEYEVDEVGVFTPKLTKTDELSAGEVGYIIAGIK 262
Score = 68.5 bits (168), Expect = 9e-12
Identities = 54/223 (24%), Positives = 97/223 (43%), Gaps = 31/223 (13%)
Query: 264 GIEFLLNSICEYLPSPYDVDFKNNDYNINLNSNKFVSLVFKIFHDPFLGSLSFIRIYSGF 323
GIE +L +I + +P P +L+F +D + G ++ +R++ G
Sbjct: 167 GIEEILEAIVKRVPPPKGDPDA-----------PLKALIFDSHYDNYRGVVALVRVFEGT 215
Query: 324 IKVGDLV-YNSTKKVKEKIFRILRMFANSKKDINDAHF--GDI-VVIVGLKESS---TGD 376
IK GD + + ST K + + + + K G++ +I G+K+ S GD
Sbjct: 216 IKPGDKIRFMSTGKE----YEVDEVGVFTPKLTKTDELSAGEVGYIIAGIKDVSDVRVGD 271
Query: 377 TLCSLSENI--QLENIETPIPVISISIEPIFKNDQEKLLNILQKFCKEDPSLLLSINNNT 434
T+ + L + P++ + PI D E L + L+K D S L+ +
Sbjct: 272 TITHVKNPAKEPLPGFKEVKPMVFAGLYPIDTEDYEDLRDALEKLKLNDAS--LTYEPES 329
Query: 435 GETILSG-----MGELHLEIIVDRILKENNIKTKISKPQVSYK 472
+ G +G LH+EII +R+ +E N+ + P V Y+
Sbjct: 330 SPALGFGFRCGFLGLLHMEIIQERLEREFNLDLITTAPSVIYR 372
Score = 38.5 bits (90), Expect = 0.018
Identities = 41/187 (21%), Positives = 75/187 (40%), Gaps = 25/187 (13%)
Query: 518 EIIGGSIPKEFIPAIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAA 577
EII + +EF N ++ P + +V+L NG VD+ +
Sbjct: 348 EIIQERLEREF------------NLDLITTAPSVIYRVYLTNGEVIEVDNPS-DLPDPGK 394
Query: 578 IALKDALKKANSYILEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSY- 636
I ++ EP +K + P+E+LG ++ +KRG+ + + ++ Y
Sbjct: 395 IE----------HVEEPYVKATIITPTEYLGPIMTLCQEKRGVQTNMEYLDPNRVELIYE 444
Query: 637 IPLRE-LFGYSTDLRSNTKGTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEE 695
+PL E ++ + L+S ++G + L K+ I G V A I + +
Sbjct: 445 MPLAEIVYDFFDKLKSISRGYASFDYELIGYRPSDLVKLDILINGEPVDALSFIVHRDKA 504
Query: 696 KERGITI 702
RG I
Sbjct: 505 YSRGREI 511
>gnl|CDD|197906 smart00838, EFG_C, Elongation factor G C-terminus. This domain
includes the carboxyl terminal regions of Elongation
factor G, elongation factor 2 and some tetracycline
resistance proteins and adopt a ferredoxin-like fold.
Length = 85
Score = 98.0 bits (245), Expect = 1e-24
Identities = 33/65 (50%), Positives = 48/65 (73%)
Query: 591 ILEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYSTDLR 650
+LEPIMKVEV +P E++G V+GD+N +RG I + ++I + +PL E+FGY+TDLR
Sbjct: 1 LLEPIMKVEVTVPEEYMGDVIGDLNSRRGKIEGMEQRGGAQVIKAKVPLSEMFGYATDLR 60
Query: 651 SNTKG 655
S T+G
Sbjct: 61 SATQG 65
>gnl|CDD|239683 cd03713, EFG_mtEFG_C, EFG_mtEFG_C: domains similar to the
C-terminal domain of the bacterial translational
elongation factor (EF) EF-G. Included in this group is
the C-terminus of mitochondrial Elongation factor G1
(mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells
harbor 2 protein synthesis systems: one localized in the
cytoplasm, the other in the mitochondria. Most factors
regulating mitochondrial protein synthesis are encoded
by nuclear genes, translated in the cytoplasm, and then
transported to the mitochondria. The eukaryotic system
of elongation factor (EF) components is more complex
than that in prokaryotes, with both cytoplasmic and
mitochondrial elongation factors and multiple isoforms
being expressed in certain species. During the process
of peptide synthesis and tRNA site changes, the ribosome
is moved along the mRNA a distance equal to one codon
with the addition of each amino acid. In bacteria this
translocation step is catalyzed by EF-G_GTP, which is
hydrolyzed to provide the required energy. Thus, this
action releases the uncharged tRNA from the P site and
transfers the newly formed peptidyl-tRNA from the A site
to the P site. Eukaryotic mtEFG1 proteins show
significant homology to bacterial EF-Gs. Mutants in
yeast mtEFG1 have impaired mitochondrial protein
synthesis, respiratory defects and a tendency to lose
mitochondrial DNA. No clear phenotype has been found for
mutants in the yeast homologue of mtEFG2, MEF2.
Length = 78
Score = 97.6 bits (244), Expect = 1e-24
Identities = 33/64 (51%), Positives = 46/64 (71%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYSTDLRSN 652
EPIMKVEV +P E++G V+GD++ +RG I +K+I + +PL E+FGYSTDLRS
Sbjct: 1 EPIMKVEVTVPEEYMGDVIGDLSSRRGQILGTESRGGWKVIKAEVPLAEMFGYSTDLRSL 60
Query: 653 TKGT 656
T+G
Sbjct: 61 TQGR 64
>gnl|CDD|223557 COG0481, LepA, Membrane GTPase LepA [Cell envelope biogenesis,
outer membrane].
Length = 603
Score = 108 bits (273), Expect = 3e-24
Identities = 47/111 (42%), Positives = 72/111 (64%), Gaps = 4/111 (3%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSI 68
RN IIAH+D GK+T +R+L +G + E + D M E+ERGITI + +V +
Sbjct: 10 RNFSIIAHIDHGKSTLADRLLELTGG---LSEREMRAQVLDSMDIERERGITIKAQAVRL 66
Query: 69 FWEVNKFK-YMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT 118
++ + Y++N+IDTPGHVDF+ EV RSL +GA++++ AS G++ QT
Sbjct: 67 NYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQT 117
Score = 63.7 bits (156), Expect = 3e-10
Identities = 58/224 (25%), Positives = 102/224 (45%), Gaps = 33/224 (14%)
Query: 264 GIEFLLNSICEYLPSP-YDVDFKNNDYNINLNSNKFVSLVFKIFHDPFLGSLSFIRIYSG 322
GIE +L +I E +P P D D +L+F ++D +LG + +RI+ G
Sbjct: 173 GIEDVLEAIVEKIPPPKGDPD------------APLKALIFDSWYDNYLGVVVLVRIFDG 220
Query: 323 FIKVGDLVY-NSTKKVKEKIFRILRM--FANSKKDINDAHFGDI-VVIVGLKESS---TG 375
+K GD + ST K + + + F +++ G++ +I G+K+ G
Sbjct: 221 TLKKGDKIRMMSTGKE----YEVDEVGIFTPKMVKVDELKAGEVGYIIAGIKDVRDARVG 276
Query: 376 DTLCSLSENIQ--LENIETPIPVISISIEPIFKNDQEKLLNILQKFCKEDPSLLLSINNN 433
DT+ S L + P++ + P+ +D E L + L+K D S L+
Sbjct: 277 DTITLASNPATEPLPGFKEVKPMVFAGLYPVDSDDYEDLRDALEKLQLNDAS--LTYEPE 334
Query: 434 TGETILSG-----MGELHLEIIVDRILKENNIKTKISKPQVSYK 472
T + + G +G LH+EII +R+ +E ++ + P V YK
Sbjct: 335 TSQALGFGFRCGFLGLLHMEIIQERLEREFDLDLITTAPSVVYK 378
Score = 62.6 bits (153), Expect = 8e-10
Identities = 78/280 (27%), Positives = 125/280 (44%), Gaps = 37/280 (13%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVE----YESE 712
I H+DHGK+TL L +++ + E+RA +D+ E+ERGITI V +
Sbjct: 15 IAHIDHGKSTLADRLLELTGGLSEREMRA-QVLDSMDIERERGITIKAQAVRLNYKAKDG 73
Query: 713 NKHYAH-VDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIV 771
+ + +D PGH D+ + A +GA+LV A G QT ++ LA + + I+
Sbjct: 74 ETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENNL-EII 132
Query: 772 VFLNKADCVQDKELL-----DLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDNQL 826
LNK D L + V+ EI E + + V+ SA +
Sbjct: 133 PVLNKID-------LPAADPERVKQEI-----EDIIGIDASDAVLVSA--------KTGI 172
Query: 827 GTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIE 886
G I+ +L+ + IP P D P I D + + G VV +I G +K G++I
Sbjct: 173 G---IEDVLEAIVEKIPPPKGDPDAPLKALIFDSWYDNYLGVVVLVRIFDGTLKKGDKIR 229
Query: 887 IVGYKQTIKTTITGIEMFKKTLDEGL-AGENVGILLRSVK 925
++ + + GI K + L AGE VG ++ +K
Sbjct: 230 MMSTGKEYEVDEVGIFTPKMVKVDELKAGE-VGYIIAGIK 268
Score = 39.5 bits (93), Expect = 0.009
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 589 SYILEPIMKVEVNLPSEFLGIVVGDINKKRGI-INTIIDHENFKIINSYIPLREL-FGYS 646
I EP +K + P E+LG V+ +KRGI I+ +N ++ +PL E+ F +
Sbjct: 402 EEIEEPYVKATIITPQEYLGNVMELCQEKRGIQIDMEYLDQNRVMLTYELPLAEIVFDFF 461
Query: 647 TDLRSNTKG 655
L+S +KG
Sbjct: 462 DKLKSISKG 470
>gnl|CDD|238838 cd01680, EFG_like_IV, Elongation Factor G-like domain IV. This
family includes the translational elongation factor
termed EF-2 (for Archaea and Eukarya) and EF-G (for
Bacteria), ribosomal protection proteins that mediate
tetracycline resistance and, an evolutionarily conserved
U5 snRNP-specific protein (U5-116kD). In complex with
GTP, EF-G/EF-2 promotes the translocation step of
translation. During translocation the peptidyl-tRNA is
moved from the A site to the P site of the small subunit
of ribosome and the mRNA is shifted one codon relative
to the ribosome. It has been shown that EF-G/EF-2_IV
domain mimics the shape of anticodon arm of the tRNA in
the structurally homologous ternary complex of Petra,
EF-Tu (another transcriptional elongation factor) and
GTP analog. The tip portion of this domain is found in a
position that overlaps the anticodon arm of the A-site
tRNA, implying that EF-G/EF-2 displaces the A-site tRNA
to the P-site by physical interaction with the anticodon
arm.
Length = 116
Score = 98.5 bits (246), Expect = 3e-24
Identities = 38/117 (32%), Positives = 65/117 (55%), Gaps = 2/117 (1%)
Query: 471 YKESIKKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIFKSEIIGGSIPKEFIP 530
Y+E+I+K V G++ ++ GGK Q+G V +R+EP LE + +P E
Sbjct: 1 YRETIRKSVEATGEFERELGGKPQFGEVTLRVEP--LERGSGVRVVDPVDEELLPAELKE 58
Query: 531 AIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKKA 587
A+E+GI + G + GYP+ ++V +++ +H S+E F+ AA A + A +KA
Sbjct: 59 AVEEGIRDACASGPLTGYPLTDVRVTVLDVPYHEGVSTEAGFRAAAGRAFESAAQKA 115
>gnl|CDD|206730 cd04167, Snu114p, Snu114p, a spliceosome protein, is a GTPase.
Snu114p subfamily. Snu114p is one of several proteins
that make up the U5 small nuclear ribonucleoprotein
(snRNP) particle. U5 is a component of the spliceosome,
which catalyzes the splicing of pre-mRNA to remove
introns. Snu114p is homologous to EF-2, but typically
contains an additional N-terminal domain not found in
Ef-2. This protein is part of the GTP translation factor
family and the Ras superfamily, characterized by five
G-box motifs.
Length = 213
Score = 101 bits (253), Expect = 3e-24
Identities = 52/150 (34%), Positives = 85/150 (56%), Gaps = 13/150 (8%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTI---TDWMQQEQERGITITSAS 65
RN+ I H+ GKT+ + ++ + + V G TD + EQERGI+I S
Sbjct: 1 RNVCIAGHLHHGKTSLLDMLIEQT--HKRTPSVKLGWKPLRYTDTRKDEQERGISIKSNP 58
Query: 66 VSIFWEVNKFK-YMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
+S+ E +K K Y+INIIDTPGHV+F EV +LR+ DG V+++ G+ TE +
Sbjct: 59 ISLVLEDSKGKSYLINIIDTPGHVNFMDEVAAALRLCDGVVLVVDVVEGLTSVTERLIRH 118
Query: 125 SQKYKVPKMIFVNKMDRIGANYNNCIIDIK 154
+ + +P ++ +NK+DR+ I+++K
Sbjct: 119 AIQEGLPMVLVINKIDRL-------ILELK 141
Score = 60.4 bits (147), Expect = 4e-10
Identities = 37/130 (28%), Positives = 62/130 (47%), Gaps = 9/130 (6%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRA---FDTIDNAPEEKERGITISTSHVEYESEN 713
GH+ HGKT+L L + + + D +E+ERGI+I ++ + E+
Sbjct: 6 AGHLHHGKTSLLDMLIEQTHKRTPSVKLGWKPLRYTDTRKDEQERGISIKSNPISLVLED 65
Query: 714 -KHYAHV----DCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVP 768
K +++ D PGH +++ + DG +LV V+G T I A Q G+P
Sbjct: 66 SKGKSYLINIIDTPGHVNFMDEVAAALRLCDGVVLVVDVVEGLTSVTERLIRHAIQEGLP 125
Query: 769 NIVVFLNKAD 778
+V+ +NK D
Sbjct: 126 -MVLVINKID 134
>gnl|CDD|206676 cd01889, SelB_euk, SelB, the dedicated elongation factor for
delivery of selenocysteinyl-tRNA to the ribosome. SelB
is an elongation factor needed for the co-translational
incorporation of selenocysteine. Selenocysteine is coded
by a UGA stop codon in combination with a specific
downstream mRNA hairpin. In bacteria, the C-terminal
part of SelB recognizes this hairpin, while the
N-terminal part binds GTP and tRNA in analogy with
elongation factor Tu (EF-Tu). It specifically recognizes
the selenocysteine charged tRNAsec, which has a UCA
anticodon, in an EF-Tu like manner. This allows
insertion of selenocysteine at in-frame UGA stop codons.
In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a
stem-loop structure immediately downstream of the UGA
codon (the SECIS sequence). The absence of active SelB
prevents the participation of selenocysteyl-tRNAsec in
translation. Archaeal and animal mechanisms of
selenocysteine incorporation are more complex. Although
the SECIS elements have different secondary structures
and conserved elements between archaea and eukaryotes,
they do share a common feature. Unlike in E. coli, these
SECIS elements are located in the 3' UTRs. This group
contains eukaryotic SelBs and some from archaea.
Length = 192
Score = 99.7 bits (249), Expect = 8e-24
Identities = 51/144 (35%), Positives = 75/144 (52%), Gaps = 24/144 (16%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITI----STSHVEYE 710
G +GHVD GKT+L AL++++S AFD P+ +ERGIT+ S+ V+
Sbjct: 4 GLLGHVDSGKTSLAKALSEIAS------TAAFD---KNPQSQERGITLDLGFSSFEVDKP 54
Query: 711 SENKHYAH----------VDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHIL 760
+ + VDCPGHA I+ +I GA +D +LV A G QT E ++
Sbjct: 55 KHLEDNENPQIENYQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDAKKGIQTQTAECLV 114
Query: 761 LARQVGVPNIVVFLNKADCVQDKE 784
+ + P IVV LNK D + ++E
Sbjct: 115 IGELLCKPLIVV-LNKIDLIPEEE 137
Score = 48.9 bits (117), Expect = 3e-06
Identities = 40/157 (25%), Positives = 64/157 (40%), Gaps = 21/157 (13%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITI-------- 61
N+G++ HVD+GKT+ + L S T D Q QERGIT+
Sbjct: 2 NVGLLGHVDSGKTSLA-KALSEIAS----------TAAFDKNPQSQERGITLDLGFSSFE 50
Query: 62 --TSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTE 119
+ Y I ++D PGH + +++D ++++ A GIQ QT
Sbjct: 51 VDKPKHLEDNENPQIENYQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDAKKGIQTQTA 110
Query: 120 TVWFQSQKYKVPKMIFVNKMDRIGANYNNCIIDIKKK 156
+ P ++ +NK+D I I+ KK
Sbjct: 111 ECLVIGELLCKPLIVVLNKIDLIPEEERKRKIEKMKK 147
>gnl|CDD|206675 cd01888, eIF2_gamma, Gamma subunit of initiation factor 2 (eIF2
gamma). eIF2 is a heterotrimeric translation initiation
factor that consists of alpha, beta, and gamma subunits.
The GTP-bound gamma subunit also binds initiator
methionyl-tRNA and delivers it to the 40S ribosomal
subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is
released from the ribosome. The gamma subunit has no
intrinsic GTPase activity, but is stimulated by the
GTPase activating protein (GAP) eIF5, and GDP/GTP
exchange is stimulated by the guanine nucleotide
exchange factor (GEF) eIF2B. eIF2B is a heteropentamer,
and the epsilon chain binds eIF2. Both eIF5 and
eIF2B-epsilon are known to bind strongly to eIF2-beta,
but have also been shown to bind directly to eIF2-gamma.
It is possible that eIF2-beta serves simply as a
high-affinity docking site for eIF5 and eIF2B-epsilon,
or that eIF2-beta serves a regulatory role. eIF2-gamma
is found only in eukaryotes and archaea. It is closely
related to SelB, the selenocysteine-specific elongation
factor from eubacteria. The translational factor
components of the ternary complex, IF2 in eubacteria and
eIF2 in eukaryotes are not the same protein (despite
their unfortunately similar names). Both factors are
GTPases; however, eubacterial IF-2 is a single
polypeptide, while eIF2 is heterotrimeric. eIF2-gamma is
a member of the same family as eubacterial IF2, but the
two proteins are only distantly related. This family
includes translation initiation, elongation, and release
factors.
Length = 197
Score = 99.6 bits (249), Expect = 9e-24
Identities = 69/221 (31%), Positives = 99/221 (44%), Gaps = 55/221 (24%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITI------------ 702
GTIGHV HGKTTL AL+ V + EE +R ITI
Sbjct: 4 GTIGHVAHGKTTLVKALSGVWT-------------VRHKEELKRNITIKLGYANAKIYKC 50
Query: 703 -------STSHVEYESEN--------KHYAHVDCPGHADYIKNMITGAAQMDGAILVCSA 747
E E +H + VDCPGH + M++GAA MDGA+L+ +A
Sbjct: 51 PNCGCPRPYDTPECECPGCGGETKLVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAA 110
Query: 748 VDG-PMPQTREHILLARQVGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGEN 806
+ P PQT EH+ +G+ +I++ NK D V++++ L+ E +I+E + EN
Sbjct: 111 NEPCPQPQTSEHLAALEIMGLKHIIILQNKIDLVKEEQALENYE-QIKEFVKGT--IAEN 167
Query: 807 TKIVIGSALLALEGKDDNQLGTTSIKKLLDVLDSSIPTPNR 847
I+ SA L +I L + + IPTP R
Sbjct: 168 APIIPISAQLK-----------YNIDVLCEYIVKKIPTPPR 197
Score = 37.6 bits (88), Expect = 0.015
Identities = 47/199 (23%), Positives = 71/199 (35%), Gaps = 59/199 (29%)
Query: 10 NIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITI-------- 61
NIG I HV GKTT + + SG V T ++E +R ITI
Sbjct: 2 NIGTIGHVAHGKTTLVKAL---SG-------VW-----TVRHKEELKRNITIKLGYANAK 46
Query: 62 ---------------TSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVI 106
K ++ +D PGH + V+DGA++
Sbjct: 47 IYKCPNCGCPRPYDTPECECPGCGGETKLVRHVSFVDCPGHEILMATMLSGAAVMDGALL 106
Query: 107 IICAS-SGIQPQTETVWFQSQKYKVPKMIFV-NKMDRIGA-----NYNNCIIDIKK---- 155
+I A+ QPQT + + +I + NK+D + NY IK+
Sbjct: 107 LIAANEPCPQPQTSEHLAALEIMGLKHIIILQNKIDLVKEEQALENYE----QIKEFVKG 162
Query: 156 --KFNCIVLPI----NFNI 168
N ++PI +NI
Sbjct: 163 TIAENAPIIPISAQLKYNI 181
>gnl|CDD|239677 cd03706, mtEFTU_III, Domain III of mitochondrial EF-TU (mtEF-TU).
mtEF-TU is highly conserved and is 55-60% identical to
bacterial EF-TU. The overall structure is similar to that
observed in the Escherichia coli and Thermus aquaticus
EF-TU. However, compared with that observed in
prokaryotic EF-TU the nucleotide-binding domain (domain
I) of EF-TUmt is in a different orientation relative to
the rest of the structure. Furthermore, domain III is
followed by a short 11-amino acid extension that forms
one helical turn. This extension seems to be specific to
the mitochondrial factors and has not been observed in
any of the prokaryotic factors.
Length = 93
Score = 94.7 bits (236), Expect = 3e-23
Identities = 33/80 (41%), Positives = 49/80 (61%)
Query: 942 KSYNIFECEVYILSKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLPENVEMVLPGDNIKL 1001
K ++ E +VYILSK EGGRH PF + ++PQ + T D LP EMV+PG++ K+
Sbjct: 1 KPHDKVEAQVYILSKAEGGRHKPFVSNFQPQMFSLTWDCAARIDLPPGKEMVMPGEDTKV 60
Query: 1002 NVTLLSSIAIEIGLRFAIRE 1021
+ L + +E G RF +R+
Sbjct: 61 TLILRRPMVLEKGQRFTLRD 80
>gnl|CDD|235462 PRK05433, PRK05433, GTP-binding protein LepA; Provisional.
Length = 600
Score = 104 bits (263), Expect = 4e-23
Identities = 46/120 (38%), Positives = 72/120 (60%), Gaps = 22/120 (18%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTIT---------DWMQQEQERGI 59
RN IIAH+D GK+T +R++ +G T++ D M E+ERGI
Sbjct: 8 RNFSIIAHIDHGKSTLADRLIELTG------------TLSEREMKAQVLDSMDLERERGI 55
Query: 60 TITSASVSIFWEVNKFK-YMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT 118
TI + +V + ++ + Y++N+IDTPGHVDF+ EV RSL +GA++++ AS G++ QT
Sbjct: 56 TIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQT 115
Score = 48.1 bits (116), Expect = 2e-05
Identities = 54/224 (24%), Positives = 101/224 (45%), Gaps = 33/224 (14%)
Query: 264 GIEFLLNSICEYLPSP-YDVDFKNNDYNINLNSNKFVSLVFKIFHDPFLGSLSFIRIYSG 322
GIE +L +I E +P P D D +L+F ++D + G + +R+ G
Sbjct: 171 GIEEVLEAIVERIPPPKGDPD------------APLKALIFDSWYDNYRGVVVLVRVVDG 218
Query: 323 FIKVGDLVY-NSTKKVKEKIFRILRM--FANSKKDINDAHFGDI-VVIVGLKE---SSTG 375
+K GD + ST K + + + F +++ G++ +I G+K+ + G
Sbjct: 219 TLKKGDKIKMMSTGKE----YEVDEVGVFTPKMVPVDELSAGEVGYIIAGIKDVRDARVG 274
Query: 376 DTLCSLSENIQ--LENIETPIPVISISIEPIFKNDQEKLLNILQKFCKEDPSLLLSINNN 433
DT+ + L + P++ + P+ +D E L + L+K D S L+
Sbjct: 275 DTITLAKNPAEEPLPGFKEVKPMVFAGLYPVDSDDYEDLRDALEKLQLNDAS--LTYEPE 332
Query: 434 TGETILSG-----MGELHLEIIVDRILKENNIKTKISKPQVSYK 472
T + + G +G LH+EII +R+ +E ++ + P V Y+
Sbjct: 333 TSQALGFGFRCGFLGLLHMEIIQERLEREFDLDLITTAPSVVYE 376
Score = 39.6 bits (94), Expect = 0.008
Identities = 28/82 (34%), Positives = 44/82 (53%), Gaps = 20/82 (24%)
Query: 657 IGHVDHGKTTL-------TAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHV-- 707
I H+DHGK+TL T L++ E++A +D+ E+ERGITI V
Sbjct: 13 IAHIDHGKSTLADRLIELTGTLSE-------REMKA-QVLDSMDLERERGITIKAQAVRL 64
Query: 708 EYESEN-KHYA-H-VDCPGHAD 726
Y++++ + Y + +D PGH D
Sbjct: 65 NYKAKDGETYILNLIDTPGHVD 86
Score = 38.9 bits (92), Expect = 0.013
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 590 YILEPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRE-LFGYSTD 648
I EPI+K + +P E++G V+ +KRG+ + N + +PL E +F +
Sbjct: 401 EIEEPIVKATIIVPQEYVGAVMELCQEKRGVQKDMEYLGNRVELTYELPLAEIVFDFFDR 460
Query: 649 LRSNTKG 655
L+S ++G
Sbjct: 461 LKSVSRG 467
>gnl|CDD|239759 cd04092, mtEFG2_II_like, mtEFG2_C: C-terminus of mitochondrial
Elongation factor G2 (mtEFG2)-like proteins found in
eukaryotes. Eukaryotic cells harbor 2 protein synthesis
systems: one localized in the cytoplasm, the other in
the mitochondria. Most factors regulating mitochondrial
protein synthesis are encoded by nuclear genes,
translated in the cytoplasm, and then transported to the
mitochondria. The eukaryotic system of elongation factor
(EF) components is more complex than that in
prokaryotes, with both cytoplasmic and mitochondrial
elongation factors and multiple isoforms being expressed
in certain species. Eukaryotic EF-2 operates in the
cytosolic protein synthesis machinery of eukaryotes,
EF-Gs in protein synthesis in bacteria. Eukaryotic
mtEFG1 proteins show significant homology to bacterial
EF-Gs. No clear phenotype has been found for mutants in
the yeast homologue of mtEFG2, MEF2. There are two
forms of mtEFG present in mammals (designated mtEFG1s
and mtEFG2s) mtEFG1s are not present in this group.
Length = 83
Score = 93.9 bits (234), Expect = 4e-23
Identities = 37/81 (45%), Positives = 54/81 (66%)
Query: 298 FVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKKDIND 357
+L FK+ HDP G L+F+R+YSG +K G +YN+ KE+I R+L+ FA+ ++I
Sbjct: 1 LCALAFKVVHDPQRGPLTFVRVYSGTLKRGSALYNTNTGKKERISRLLQPFADQYQEIPS 60
Query: 358 AHFGDIVVIVGLKESSTGDTL 378
G+I VI GLK++ TGDTL
Sbjct: 61 LSAGNIGVITGLKQTRTGDTL 81
>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain. Proteins
with a small GTP-binding domain recognized by this model
include Ras, RhoA, Rab11, translation elongation factor
G, translation initiation factor IF-2, tetratcycline
resistance protein TetM, CDC42, Era, ADP-ribosylation
factors, tdhF, and many others. In some proteins the
domain occurs more than once.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 [Unknown function, General].
Length = 162
Score = 95.1 bits (237), Expect = 1e-22
Identities = 41/183 (22%), Positives = 70/183 (38%), Gaps = 30/183 (16%)
Query: 9 RNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSI 68
I I+ + GK+T R+L S I E GTT +E G T
Sbjct: 2 IKIVIVGDPNVGKSTLLNRLLGNKIS---ITEYKPGTTRNYVTTVIEEDGKTYK------ 52
Query: 69 FWEVNKFKYMINIIDTPGHVDF-------TIEVERSLRVLDGAVIIICASSGIQPQTETV 121
N++DT G D+ VE SLRV D ++++ ++ QT+ +
Sbjct: 53 ----------FNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEI 102
Query: 122 WFQSQKYKVPKMIFVNKMDRIGANYNNCIIDIKKKFN-CIVLPINFNIGIEENYEGIVDI 180
+ VP ++ NK+D A + + K N ++P+ + +N + I
Sbjct: 103 I-HHAESGVPIILVGNKIDLRDAKLKTHVAFLFAKLNGEPIIPL--SAETGKNIDSAFKI 159
Query: 181 INK 183
+
Sbjct: 160 VEA 162
Score = 46.6 bits (111), Expect = 9e-06
Identities = 32/140 (22%), Positives = 51/140 (36%), Gaps = 26/140 (18%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGIT--ISTSHVEYESE 712
+G + GK+TL L + E + G T T+ +E + +
Sbjct: 5 VIVGDPNVGKSTLLNRLLGN---------------KISITEYKPGTTRNYVTTVIEEDGK 49
Query: 713 NKHYAHVDCPGHADYIK------NMITGAAQM-DGAILVCSAVDGPMPQTREHILLARQV 765
+ +D G DY + + ++ D ILV + QT+E I A
Sbjct: 50 TYKFNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAES- 108
Query: 766 GVPNIVVFLNKADCVQDKEL 785
GVP I++ NK D K
Sbjct: 109 GVP-IILVGNKIDLRDAKLK 127
>gnl|CDD|213679 TIGR02034, CysN, sulfate adenylyltransferase, large subunit.
Metabolic assimilation of sulfur from inorganic sulfate,
requires sulfate activation by coupling to a nucleoside,
for the production of high-energy nucleoside
phosphosulfates. This pathway appears to be similar in
all prokaryotic organisms. Activation is first achieved
through sulfation of sulfate with ATP by sulfate
adenylyltransferase (ATP sulfurylase) to produce
5'-phosphosulfate (APS), coupled by GTP hydrolysis.
Subsequently, APS is phosphorylated by an APS kinase to
produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS). In
Escherichia coli, ATP sulfurylase is a heterodimer
composed of two subunits encoded by cysD and cysN, with
APS kinase encoded by cysC. These genes are located in a
unidirectionally transcribed gene cluster, and have been
shown to be required for the synthesis of
sulfur-containing amino acids. 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) [Central intermediary metabolism, Sulfur
metabolism].
Length = 406
Score = 100 bits (252), Expect = 2e-22
Identities = 85/313 (27%), Positives = 145/313 (46%), Gaps = 42/313 (13%)
Query: 656 TIGHVDHGKTTLTAALTKVSSEIY-----------------GGEVRAFDTIDNAPEEKER 698
T G VD GK+TL L + +IY GGE+ +D E+E+
Sbjct: 5 TCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQ 64
Query: 699 GITISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREH 758
GITI ++ + ++ + + D PGH Y +NM TGA+ D A+L+ A G + QTR H
Sbjct: 65 GITIDVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRH 124
Query: 759 ILLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLA 817
+A +G+ ++V+ +NK D V D+E+ + ++ + + F + + SAL
Sbjct: 125 SYIASLLGIRHVVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGF--RDVTFIPLSAL-- 180
Query: 818 LEGKDDNQL-GTTSIK-----KLLDVLDSSIPTPNRITDKPFLMPIEDVF--SISGRGTV 869
K DN + + S+ LL++L+ ++ D P P++ V ++ RG
Sbjct: 181 ---KGDNVVSRSESMPWYSGPTLLEILE-TVEVERDAQDLPLRFPVQYVNRPNLDFRG-- 234
Query: 870 VTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKRE-E 928
G I G V G+E+ ++ + + I F L++ AG+ V + L E +
Sbjct: 235 YAGTIASGSVHVGDEVVVL--PSGRSSRVARIVTFDGDLEQARAGQAVTLTL---DDEID 289
Query: 929 VERGQVLAKIGSI 941
+ RG +LA S
Sbjct: 290 ISRGDLLAAADSA 302
Score = 48.9 bits (117), Expect = 1e-05
Identities = 46/170 (27%), Positives = 76/170 (44%), Gaps = 29/170 (17%)
Query: 17 VDAGKTTTTERILFYSGSSHKIGEVH----------HGTT--------ITDWMQQEQERG 58
VD GK+T R+L + I E HGT + D +Q E+E+G
Sbjct: 9 VDDGKSTLIGRLLHDTKQ---IYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQG 65
Query: 59 ITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT 118
ITI A ++ +K K++ + DTPGH +T + D AV+++ A G+ QT
Sbjct: 66 ITIDVAYR--YFSTDKRKFI--VADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQT 121
Query: 119 ETVWFQSQKYKVPKMIF-VNKMDRIGANYNNCIID-IKKKFNCIVLPINF 166
+ + + ++ VNKMD + Y+ + + IKK + + F
Sbjct: 122 RRHSYIASLLGIRHVVLAVNKMDLVD--YDEEVFENIKKDYLAFAEQLGF 169
>gnl|CDD|238772 cd01514, Elongation_Factor_C, Elongation factor G C-terminus. This
domain includes the carboxyl terminal regions of
elongation factors (EFs) bacterial EF-G, eukaryotic and
archeal EF-2 and eukaryotic mitochondrial mtEFG1s and
mtEFG2s. This group also includes proteins similar to
the ribosomal protection proteins Tet(M) and Tet(O),
BipA, LepA and, spliceosomal proteins: human 116kD U5
small nuclear ribonucleoprotein (snRNP) protein (U5-116
kD) and yeast counterpart Snu114p. This domain adopts a
ferredoxin-like fold consisting of an alpha-beta
sandwich with anti-parallel beta-sheets, resembling the
topology of domain III found in the elongation factors
EF-G and eukaryotic EF-2, with which it forms the
C-terminal block. The two domains however are not
superimposable and domain III lacks some of the
characteristics of this domain. EF-2/EF-G in complex
with GTP, promotes the translocation step of
translation. During translocation the peptidyl-tRNA is
moved from the A site to the P site, the uncharged tRNA
from the P site to the E-site and, the mRNA is shifted
one codon relative to the ribosome. Tet(M) and Tet(O)
mediate Tc resistance. Typical Tcs bind to the ribosome
and inhibit the elongation phase of protein synthesis,
by inhibiting the occupation of site A by
aminoacyl-tRNA. Tet(M) and Tet(O) catalyze the release
of tetracycline (Tc) from the ribosome in a
GTP-dependent manner. BipA is a highly conserved
protein with global regulatory properties in Escherichia
coli. Yeast Snu114p is essential for cell viability and
for splicing in vivo. Experiments suggest that GTP
binding and probably GTP hydrolysis is important for the
function of the U5-116 kD/Snu114p. The function of LepA
proteins is unknown.
Length = 79
Score = 89.1 bits (222), Expect = 2e-21
Identities = 31/65 (47%), Positives = 46/65 (70%), Gaps = 1/65 (1%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRG-IINTIIDHENFKIINSYIPLRELFGYSTDLRS 651
EPIMKVE+ +P E+LG V+GD++K+RG I+ +I + +PL E+FG++TDLRS
Sbjct: 1 EPIMKVEITVPEEYLGAVIGDLSKRRGEILGMEPRGTGRVVIKAELPLAEMFGFATDLRS 60
Query: 652 NTKGT 656
T+G
Sbjct: 61 LTQGR 65
>gnl|CDD|240362 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2
gamma subunit; Provisional.
Length = 460
Score = 97.8 bits (244), Expect = 3e-21
Identities = 81/277 (29%), Positives = 123/277 (44%), Gaps = 73/277 (26%)
Query: 655 GTIGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITIS----------- 703
GTIGHV HGK+T+ AL+ V + + EK R ITI
Sbjct: 38 GTIGHVAHGKSTVVKALSGVKTVRF-------------KREKVRNITIKLGYANAKIYKC 84
Query: 704 ------TSHVEYESEN----------------KHYAHVDCPGHADYIKNMITGAAQMDGA 741
T + Y S +H + VDCPGH + M+ GAA MD A
Sbjct: 85 PKCPRPTCYQSYGSSKPDNPPCPGCGHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAA 144
Query: 742 ILVCSAVDG-PMPQTREHILLARQVGVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEY 800
+L+ +A + P PQT EH+ + + +I++ NK D V++ + D E EIR +
Sbjct: 145 LLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEAQAQDQYE-EIRNFVK-- 201
Query: 801 DFDGENTKIVIGSALLALEGKDDNQLGTTSIKKLLDVLDSSIPTPNR-ITDKPFLM---- 855
+N I+ SA L +I +L+ + + IP P R +T P ++
Sbjct: 202 GTIADNAPIIPISAQLKY-----------NIDVVLEYICTQIPIPKRDLTSPPRMIVIRS 250
Query: 856 -----PIEDVFSISGRGTVVTGKIERGIVKNGEEIEI 887
P ED+ ++ +G V G I +G++K G+EIEI
Sbjct: 251 FDVNKPGEDIENL--KGGVAGGSILQGVLKVGDEIEI 285
>gnl|CDD|104396 PRK10218, PRK10218, GTP-binding protein; Provisional.
Length = 607
Score = 98.2 bits (244), Expect = 5e-21
Identities = 56/137 (40%), Positives = 80/137 (58%), Gaps = 6/137 (4%)
Query: 8 FRNIGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVS 67
RNI IIAHVD GKTT +++L SG+ E + D E+ERGITI + + +
Sbjct: 5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQE--RVMDSNDLEKERGITILAKNTA 62
Query: 68 IFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQK 127
I W Y INI+DTPGH DF EVER + ++D ++++ A G PQT V ++
Sbjct: 63 IKWN----DYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFA 118
Query: 128 YKVPKMIFVNKMDRIGA 144
Y + ++ +NK+DR GA
Sbjct: 119 YGLKPIVVINKVDRPGA 135
Score = 92.5 bits (229), Expect = 4e-19
Identities = 77/234 (32%), Positives = 109/234 (46%), Gaps = 6/234 (2%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESENKHY 716
I HVDHGKTTL L + S +D+ EKERGITI + + +
Sbjct: 11 IAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRI 70
Query: 717 AHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFLNK 776
VD PGHAD+ + + +D +LV A DGPMPQTR A G+ IVV +NK
Sbjct: 71 NIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPIVV-INK 129
Query: 777 ADCVQDKELLDLVEMEIRELLTEYDFDGE--NTKIVIGSALLALEGKDDNQLGTTSIKKL 834
D + D V ++ +L D E + IV SAL + G D + + L
Sbjct: 130 VD--RPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMA-EDMTPL 186
Query: 835 LDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIV 888
+ +P P+ D PF M I + S G + G+I+RG VK +++ I+
Sbjct: 187 YQAIVDHVPAPDVDLDGPFQMQISQLDYNSYVGVIGIGRIKRGKVKPNQQVTII 240
Score = 50.5 bits (120), Expect = 4e-06
Identities = 49/218 (22%), Positives = 101/218 (46%), Gaps = 24/218 (11%)
Query: 268 LLNSICEYLPSPYDVDFKNNDYNINLNSNKFVSLVFKIFHDPFLGSLSFIRIYSGFIKVG 327
L +I +++P+P DVD D + + ++ ++ ++G + RI G +K
Sbjct: 186 LYQAIVDHVPAP-DVDL---DGPFQMQ-------ISQLDYNSYVGVIGIGRIKRGKVKPN 234
Query: 328 D---LVYNSTKKVKEKIFRILRMFANSKKDINDAHFGDIVVIVGLKESSTGDTLCSLSEN 384
++ + K K+ ++L + + + A GDIV I GL E + DT+C
Sbjct: 235 QQVTIIDSEGKTRNAKVGKVLGHLGLERIETDLAEAGDIVAITGLGELNISDTVCDTQNV 294
Query: 385 IQLENIETPIPVIS----ISIEPIFKNDQEKLLN--ILQKFCKE---DPSLLLSINNNTG 435
L + P +S ++ P + + + + IL + KE + +L + +
Sbjct: 295 EALPALSVDEPTVSMFFCVNTSPFCGKEGKFVTSRQILDRLNKELVHNVALRVEETEDAD 354
Query: 436 ETILSGMGELHLEIIVDRILKENNIKTKISKPQVSYKE 473
+SG GELHL ++++ + +E + +S+P+V ++E
Sbjct: 355 AFRVSGRGELHLSVLIENMRRE-GFELAVSRPKVIFRE 391
>gnl|CDD|206674 cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ eukaryotic
Initiation Factor 5B (eIF5B) family. IF2/eIF5B
contribute to ribosomal subunit joining and function as
GTPases that are maximally activated by the presence of
both ribosomal subunits. As seen in other GTPases,
IF2/IF5B undergoes conformational changes between its
GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess
three characteristic segments, including a divergent
N-terminal region followed by conserved central and
C-terminal segments. This core region is conserved among
all known eukaryotic and archaeal IF2/eIF5Bs and
eubacterial IF2s.
Length = 169
Score = 90.2 bits (225), Expect = 8e-21
Identities = 56/165 (33%), Positives = 71/165 (43%), Gaps = 28/165 (16%)
Query: 658 GHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGIT--ISTSHVEYESENKH 715
GHVDHGKTTL + K + + GE GIT I V + +
Sbjct: 7 GHVDHGKTTLLDKIRK--TNVAAGEAG--------------GITQHIGAYQVPIDVKIPG 50
Query: 716 YAHVDCPGHADYIKNMITGAAQM-DGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFL 774
+D PGH + NM A + D AILV +A DG MPQT E I A+ VP I+V +
Sbjct: 51 ITFIDTPGHEAF-TNMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAANVP-IIVAI 108
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDFDGEN----TKIVIGSAL 815
NK D E ++ L+E GE IV SA
Sbjct: 109 NKIDKPYGTEADP---ERVKNELSELGLVGEEWGGDVSIVPISAK 150
Score = 58.6 bits (143), Expect = 7e-10
Identities = 38/132 (28%), Positives = 59/132 (44%), Gaps = 24/132 (18%)
Query: 13 IIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGIT--ITSASVSIFW 70
++ HVD GKTT ++I T + + GIT I + V I
Sbjct: 5 VMGHVDHGKTTLLDKI--------------RKTNV----AAGEAGGITQHIGAYQVPIDV 46
Query: 71 EVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYKV 130
++ I IDTPGH FT R V D A++++ A G+ PQT ++ V
Sbjct: 47 KIPG----ITFIDTPGHEAFTNMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAANV 102
Query: 131 PKMIFVNKMDRI 142
P ++ +NK+D+
Sbjct: 103 PIIVAINKIDKP 114
>gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Provisional.
Length = 632
Score = 97.7 bits (244), Expect = 9e-21
Identities = 91/317 (28%), Positives = 148/317 (46%), Gaps = 60/317 (18%)
Query: 656 TIGHVDHGKTTLT---------------AALTKVSSEI--YGGEVRAFDTIDNAPEEKER 698
T G VD GK+TL AAL + S ++ G E+ +D E+E+
Sbjct: 29 TCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQ 88
Query: 699 GITISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREH 758
GITI ++ + + + + D PGH Y +NM+TGA+ D AI++ A G + QTR H
Sbjct: 89 GITIDVAYRYFATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRH 148
Query: 759 ILLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLA 817
+A +G+ ++V+ +NK D V D+E+ D + + R + + T I I SAL
Sbjct: 149 SFIASLLGIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGL-HDVTFIPI-SAL-- 204
Query: 818 LEGKDDNQL----------GTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDV------F 861
K DN + G + LL+ L++ +R K F P++ V F
Sbjct: 205 ---KGDNVVTRSARMPWYEGPS----LLEHLETVEIASDR-NLKDFRFPVQYVNRPNLDF 256
Query: 862 SISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILL 921
RG G + G+V+ G+E+ ++ +T + + I LDE AG+ V + L
Sbjct: 257 ----RG--FAGTVASGVVRPGDEVVVLPSGKT--SRVKRIVTPDGDLDEAFAGQAVTLTL 308
Query: 922 RSVKREEVE--RGQVLA 936
+E++ RG +LA
Sbjct: 309 ----ADEIDISRGDMLA 321
Score = 46.8 bits (112), Expect = 5e-05
Identities = 41/146 (28%), Positives = 64/146 (43%), Gaps = 26/146 (17%)
Query: 17 VDAGKTTTTERILFYSGSSHKIGEVH----------HGTT--------ITDWMQQEQERG 58
VD GK+T R+L+ S I E GT + D + E+E+G
Sbjct: 33 VDDGKSTLIGRLLY---DSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQG 89
Query: 59 ITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT 118
ITI A ++ K K++ + DTPGH +T + D A+I++ A G+ QT
Sbjct: 90 ITIDVAYR--YFATPKRKFI--VADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT 145
Query: 119 ETVWFQSQKYKVPKMIF-VNKMDRIG 143
F + + ++ VNKMD +
Sbjct: 146 RRHSFIASLLGIRHVVLAVNKMDLVD 171
>gnl|CDD|201388 pfam00679, EFG_C, Elongation factor G C-terminus. This domain
includes the carboxyl terminal regions of Elongation
factor G, elongation factor 2 and some tetracycline
resistance proteins and adopt a ferredoxin-like fold.
Length = 89
Score = 86.8 bits (216), Expect = 1e-20
Identities = 34/67 (50%), Positives = 50/67 (74%), Gaps = 1/67 (1%)
Query: 591 ILEPIMKVEVNLPSEFLGIVVGDINKKRG-IINTIIDHENFKIINSYIPLRELFGYSTDL 649
+LEPIMKVE+ +P E+LG V+GD+N++RG I++ D +I + +PL ELFG+ST+L
Sbjct: 2 LLEPIMKVEITVPEEYLGDVIGDLNQRRGEILDMEPDGGGRVVIEAEVPLAELFGFSTEL 61
Query: 650 RSNTKGT 656
RS T+G
Sbjct: 62 RSLTQGR 68
>gnl|CDD|239667 cd03696, selB_II, selB_II: this subfamily represents the domain of
elongation factor SelB, homologous to domain II of
EF-Tu. SelB may function by replacing EF-Tu. 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' or 5' non-coding elements of mRNA have been found as
probable structures for directing selenocysteine
incorporation.
Length = 83
Score = 86.4 bits (215), Expect = 2e-20
Identities = 31/85 (36%), Positives = 54/85 (63%), Gaps = 2/85 (2%)
Query: 853 FLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGL 912
F +PI+ VF++ G+GTVVTG + G VK G+++EI+ + + + I++ K ++E
Sbjct: 1 FRLPIDRVFTVKGQGTVVTGTVLSGSVKVGDKVEILPLGEETR--VRSIQVHGKDVEEAK 58
Query: 913 AGENVGILLRSVKREEVERGQVLAK 937
AG+ V + L V +++ERG VL+
Sbjct: 59 AGDRVALNLTGVDAKDLERGDVLSS 83
>gnl|CDD|235349 PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional.
Length = 474
Score = 93.1 bits (232), Expect = 1e-19
Identities = 87/318 (27%), Positives = 151/318 (47%), Gaps = 53/318 (16%)
Query: 656 TIGHVDHGKTTLTAALTKVSSEIYGGEVRAF-----------DTIDNA------PEEKER 698
T G VD GK+TL L + +IY ++ + + +D A E+E+
Sbjct: 32 TCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQ 91
Query: 699 GITISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREH 758
GITI ++ + +E + + D PGH Y +NM TGA+ D AIL+ A G + QTR H
Sbjct: 92 GITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRH 151
Query: 759 ILLARQVGVPNIVVFLNKADCVQ-DKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLA 817
+A +G+ ++VV +NK D V +E+ + + + + + + + V L A
Sbjct: 152 SFIATLLGIKHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGN-LDIRFV---PLSA 207
Query: 818 LEGKDDNQL----------GTTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVF--SISG 865
LEG DN + G T LL+VL+ ++ + +PF P++ V ++
Sbjct: 208 LEG--DNVVSQSESMPWYSGPT----LLEVLE-TVDIQRVVDAQPFRFPVQYVNRPNLDF 260
Query: 866 RGTVVTGKIERGIVKNGEEIEIV--GYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRS 923
RG G + G+VK G+ ++++ G + + +T F L+E AGE + ++L
Sbjct: 261 RG--YAGTLASGVVKVGDRVKVLPSGKESNVARIVT----FDGDLEEAFAGEAITLVL-- 312
Query: 924 VKRE-EVERGQVLAKIGS 940
+ E ++ RG +L
Sbjct: 313 -EDEIDISRGDLLVAADE 329
Score = 45.7 bits (109), Expect = 1e-04
Identities = 46/146 (31%), Positives = 68/146 (46%), Gaps = 32/146 (21%)
Query: 17 VDAGKTTTTERILFYSGSSHKIGE-----VH-----HGTT--------ITDWMQQEQERG 58
VD GK+T R+L + +I E +H HGT + D +Q E+E+G
Sbjct: 36 VDDGKSTLIGRLLH---DTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQG 92
Query: 59 ITITSASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT 118
ITI A ++ K K++ I DTPGH +T + D A+++I A G+ QT
Sbjct: 93 ITIDVAYR--YFSTEKRKFI--IADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQT 148
Query: 119 ETVWFQSQ----KYKVPKMIFVNKMD 140
F + K+ V + VNKMD
Sbjct: 149 RRHSFIATLLGIKHLV---VAVNKMD 171
>gnl|CDD|239758 cd04091, mtEFG1_II_like, mtEFG1_C: C-terminus of mitochondrial
Elongation factor G1 (mtEFG1)-like proteins found in
eukaryotes. Eukaryotic cells harbor 2 protein synthesis
systems: one localized in the cytoplasm, the other in
the mitochondria. Most factors regulating mitochondrial
protein synthesis are encoded by nuclear genes,
translated in the cytoplasm, and then transported to the
mitochondria. The eukaryotic system of elongation factor
(EF) components is more complex than that in
prokaryotes, with both cytoplasmic and mitochondrial
elongation factors and multiple isoforms being expressed
in certain species. Eukaryotic EF-2 operates in the
cytosolic protein synthesis machinery of eukaryotes,
EF-Gs in protein synthesis in bacteria. Eukaryotic
mtEFG1 proteins show significant homology to bacterial
EF-Gs. Mutants in yeast mtEFG1 have impaired
mitochondrial protein synthesis, respiratory defects and
a tendency to lose mitochondrial DNA. There are two
forms of mtEFG present in mammals (designated mtEFG1s
and mtEFG2s) mtEFG2s are not present in this group.
Length = 81
Score = 82.7 bits (205), Expect = 3e-19
Identities = 31/83 (37%), Positives = 50/83 (60%), Gaps = 2/83 (2%)
Query: 298 FVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKKDIND 357
FV L FK+ F G L+++RIY G +K GD +YN K ++ R++RM +N +++ +
Sbjct: 1 FVGLAFKLEEGRF-GQLTYMRIYQGKLKKGDTIYNVRTGKKVRVPRLVRMHSNEMEEVEE 59
Query: 358 AHFGDIVVIVGLKESSTGDTLCS 380
A GDI I G+ + ++GDT
Sbjct: 60 AGAGDICAIFGI-DCASGDTFTD 81
>gnl|CDD|239764 cd04097, mtEFG1_C, mtEFG1_C: C-terminus of mitochondrial Elongation
factor G1 (mtEFG1)-like proteins found in eukaryotes.
Eukaryotic cells harbor 2 protein synthesis systems: one
localized in the cytoplasm, the other in the
mitochondria. Most factors regulating mitochondrial
protein synthesis are encoded by nuclear genes,
translated in the cytoplasm, and then transported to the
mitochondria. The eukaryotic system of elongation factor
(EF) components is more complex than that in
prokaryotes, with both cytoplasmic and mitochondrial
elongation factors and multiple isoforms being expressed
in certain species. Eukaryotic EF-2 operates in the
cytosolic protein synthesis machinery of eukaryotes,
EF-Gs in protein synthesis in bacteria. Eukaryotic
mtEFG1 proteins show significant homology to bacterial
EF-Gs. Mutants in yeast mtEFG1 have impaired
mitochondrial protein synthesis, respiratory defects and
a tendency to lose mitochondrial DNA. There are two
forms of mtEFG present in mammals (designated mtEFG1s
and mtEFG2s) mtEFG2s are not present in this group.
Length = 78
Score = 81.2 bits (201), Expect = 8e-19
Identities = 32/64 (50%), Positives = 46/64 (71%), Gaps = 2/64 (3%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGII-NTIIDHENFKIINSYIPLRELFGYSTDLRS 651
EPIMKVEV P+EF G V+G +NK++G I +T + F + + +PL ++FGYST+LRS
Sbjct: 1 EPIMKVEVTAPTEFQGNVIGLLNKRKGTIVDTDTGEDEFTLE-AEVPLNDMFGYSTELRS 59
Query: 652 NTKG 655
T+G
Sbjct: 60 MTQG 63
>gnl|CDD|217388 pfam03144, GTP_EFTU_D2, Elongation factor Tu domain 2. Elongation
factor Tu consists of three structural domains, this is
the second domain. This domain adopts a beta barrel
structure. This the second domain is involved in binding
to charged tRNA. This domain is also found in other
proteins such as elongation factor G and translation
initiation factor IF-2. This domain is structurally
related to pfam03143, and in fact has weak sequence
matches to this domain.
Length = 70
Score = 77.3 bits (191), Expect = 2e-17
Identities = 26/70 (37%), Positives = 41/70 (58%)
Query: 867 GTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGLAGENVGILLRSVKR 926
GTV TG++E G +K G+++ I K +T +EMF L E +AG N GI+L +
Sbjct: 1 GTVATGRVESGTLKKGDKVVIGPNGTGKKGRVTSLEMFHGDLREAVAGANAGIILAGIGL 60
Query: 927 EEVERGQVLA 936
++++RG L
Sbjct: 61 KDIKRGDTLT 70
Score = 54.6 bits (132), Expect = 2e-09
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 312 GSLSFIRIYSGFIKVGDLVYN--STKKVKEKIFRILRMFANSKKDINDAHFGDIVVIVGL 369
G+++ R+ SG +K GD V + K ++ + + ++ + A+ G I+ +GL
Sbjct: 1 GTVATGRVESGTLKKGDKVVIGPNGTGKKGRVTSLEMFHGDLREAVAGANAGIILAGIGL 60
Query: 370 KESSTGDTLC 379
K+ GDTL
Sbjct: 61 KDIKRGDTLT 70
>gnl|CDD|238652 cd01342, Translation_Factor_II_like, Translation_Factor_II_like:
Elongation factor Tu (EF-Tu) domain II-like proteins.
Elongation factor Tu consists of three structural
domains, this family represents the second domain.
Domain II adopts a beta barrel structure and is involved
in binding to charged tRNA. Domain II is found in other
proteins such as elongation factor G and translation
initiation factor IF-2. This group also includes the C2
subdomain of domain IV of IF-2 that has the same fold as
domain II of (EF-Tu). Like IF-2 from certain prokaryotes
such as Thermus thermophilus, mitochondrial IF-2 lacks
domain II, which is thought to be involved in binding
of E.coli IF-2 to 30S subunits.
Length = 83
Score = 77.4 bits (191), Expect = 2e-17
Identities = 26/85 (30%), Positives = 48/85 (56%), Gaps = 2/85 (2%)
Query: 853 FLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEGL 912
+ VF GRGTV TG++E G +K G+++ + +K + ++ FK +DE +
Sbjct: 1 LRALVFKVFKDKGRGTVATGRVESGTLKKGDKVRVGPGGGGVKGKVKSLKRFKGEVDEAV 60
Query: 913 AGENVGILLRSVKREEVERGQVLAK 937
AG+ VGI+L+ +++++ G L
Sbjct: 61 AGDIVGIVLK--DKDDIKIGDTLTD 83
Score = 56.9 bits (138), Expect = 4e-10
Identities = 30/87 (34%), Positives = 44/87 (50%), Gaps = 8/87 (9%)
Query: 298 FVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNST--KKVKEKIFRILRMFANSKKDI 355
+LVFK+F D G+++ R+ SG +K GD V VK K+ + R K ++
Sbjct: 1 LRALVFKVFKDKGRGTVATGRVESGTLKKGDKVRVGPGGGGVKGKVKSLKRF----KGEV 56
Query: 356 NDAHFGDIVVIVGLKES--STGDTLCS 380
++A GDIV IV + GDTL
Sbjct: 57 DEAVAGDIVGIVLKDKDDIKIGDTLTD 83
>gnl|CDD|239664 cd03693, EF1_alpha_II, EF1_alpha_II: this family represents the
domain II of elongation factor 1-alpha (EF-1a) that is
found in archaea and all eukaryotic lineages. EF-1A is
very abundant in the cytosol, where it is involved in
the GTP-dependent binding of aminoacyl-tRNAs to the A
site of the ribosomes in the second step of translation
from mRNAs to proteins. Both domain II of EF1A and
domain IV of IF2/eIF5B have been implicated in
recognition of the 3'-ends of tRNA. More than 61% of
eukaryotic elongation factor 1A (eEF-1A) in cells is
estimated to be associated with actin cytoskeleton. The
binding of eEF1A to actin is a noncanonical function
that may link two distinct cellular processes,
cytoskeleton organization and gene expression.
Length = 91
Score = 73.7 bits (182), Expect = 6e-16
Identities = 31/86 (36%), Positives = 53/86 (61%), Gaps = 2/86 (2%)
Query: 849 TDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTL 908
TDKP +PI+DV+ I G GTV G++E G++K G + + + +EM + L
Sbjct: 1 TDKPLRLPIQDVYKIGGIGTVPVGRVETGVLKPGMVVTFAPAG--VTGEVKSVEMHHEPL 58
Query: 909 DEGLAGENVGILLRSVKREEVERGQV 934
+E L G+NVG +++V +++++RG V
Sbjct: 59 EEALPGDNVGFNVKNVSKKDIKRGDV 84
>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 509
Score = 78.0 bits (193), Expect = 9e-15
Identities = 70/244 (28%), Positives = 96/244 (39%), Gaps = 64/244 (26%)
Query: 658 GHVDHGKTTLTAAL--TKVSSEIYGGEVRAFDTIDNAPEEKERGIT--ISTSHVEYES-E 712
GHVDHGKTTL + T V A E GIT I V + +
Sbjct: 12 GHVDHGKTTLLDKIRKTNV-----------------AAGE-AGGITQHIGAYQVPLDVIK 53
Query: 713 NKHYAHVDCPGHADYIKNMIT-GAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIV 771
+D PGH M GA+ D AILV +A DG MPQT E I A+ GVP IV
Sbjct: 54 IPGITFIDTPGHE-AFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVP-IV 111
Query: 772 VFLNKADCVQDKELLDLVEMEIRELLTEYDFD----GENTKIVIGSALLALEGKDDNQLG 827
V +NK D + + +EL EY G + V SA
Sbjct: 112 VAINKIDKPEAN-----PDKVKQEL-QEYGLVPEEWGGDVIFVPVSAK-----------T 154
Query: 828 TTSIKKLLDVLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERG-------IVK 880
I +LL+++ + + ++ RGTV+ K+++G IV+
Sbjct: 155 GEGIDELLELILLL-------AEV---LELKANPEGPARGTVIEVKLDKGLGPVATVIVQ 204
Query: 881 NGEE 884
+G
Sbjct: 205 DGTL 208
Score = 59.1 bits (144), Expect = 7e-09
Identities = 40/135 (29%), Positives = 59/135 (43%), Gaps = 23/135 (17%)
Query: 13 IIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGIT--ITSASVSIFW 70
I+ HVD GKTT ++I T + + GIT I + V +
Sbjct: 10 IMGHVDHGKTTLLDKI--------------RKTNV----AAGEAGGITQHIGAYQVPLDV 51
Query: 71 EVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYKV 130
I IDTPGH FT R V D A++++ A G+ PQT ++ V
Sbjct: 52 IKIP---GITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGV 108
Query: 131 PKMIFVNKMDRIGAN 145
P ++ +NK+D+ AN
Sbjct: 109 PIVVAINKIDKPEAN 123
>gnl|CDD|232995 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 [Protein
synthesis, Translation factors].
Length = 587
Score = 77.9 bits (192), Expect = 1e-14
Identities = 73/236 (30%), Positives = 104/236 (44%), Gaps = 41/236 (17%)
Query: 657 IGHVDHGKTTLTAAL--TKVSSEIYGGEVRAFDTIDNAPEEKERGIT--ISTSHVEYESE 712
+GHVDHGKT+L ++ TKV+ GG IT I HVE E +
Sbjct: 93 MGHVDHGKTSLLDSIRKTKVAQGEAGG------------------ITQHIGAYHVENE-D 133
Query: 713 NKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVV 772
K +D PGH + GA D +LV +A DG MPQT E I A+ VP I+V
Sbjct: 134 GKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVP-IIV 192
Query: 773 FLNKADCVQDKELLDLVEMEIREL-LTEYDFDGENTKIVIGSALLALEGKDDNQLGTTSI 831
+NK D + + D V+ E+ E L D+ G+ T V SAL I
Sbjct: 193 AINKID--KPEANPDRVKQELSEYGLVPEDWGGD-TIFVPVSALTG-----------DGI 238
Query: 832 KKLLD--VLDSSIPTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEI 885
+LLD +L S + + + + GRG V T ++ G ++ G+ +
Sbjct: 239 DELLDMILLQSEVEELKANPNGQASGVVIEAQLDKGRGPVATVLVQSGTLRVGDIV 294
Score = 61.3 bits (149), Expect = 2e-09
Identities = 40/135 (29%), Positives = 61/135 (45%), Gaps = 21/135 (15%)
Query: 11 IGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIFW 70
+ I+ HVD GKT+ + I K+ + G GIT + +
Sbjct: 90 VTIMGHVDHGKTSLLDSI-----RKTKVAQGEAG-------------GITQHIGAYHVEN 131
Query: 71 EVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYKV 130
E K MI +DTPGH FT R +V D V+++ A G+ PQT ++ V
Sbjct: 132 EDGK---MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANV 188
Query: 131 PKMIFVNKMDRIGAN 145
P ++ +NK+D+ AN
Sbjct: 189 PIIVAINKIDKPEAN 203
>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated.
Length = 746
Score = 68.0 bits (167), Expect = 2e-11
Identities = 61/188 (32%), Positives = 79/188 (42%), Gaps = 58/188 (30%)
Query: 617 KRGI---INTIIDHENFKIINSYIPLRELFGYSTDLRSNTKG-------------TI-GH 659
K G+ IN +D E +++ E FG+ L S + TI GH
Sbjct: 204 KLGVMATINQSLDQETAELLA------EEFGHEVKLVSLLEDDDEEDLVPRPPVVTIMGH 257
Query: 660 VDHGKTTLTAAL--TKVSSEIYGGEVRAFDTIDNAPEEKERGIT--ISTSHVEYESENKH 715
VDHGKT+L A+ T V++ GE GIT I VE
Sbjct: 258 VDHGKTSLLDAIRKTNVAA----GE--------------AGGITQHIGAYQVETN--GGK 297
Query: 716 YAHVDCPGHADYIKNMIT-----GAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNI 770
+D PGH + T GA D +LV +A DG MPQT E I A+ GVP I
Sbjct: 298 ITFLDTPGHEAF-----TAMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVP-I 351
Query: 771 VVFLNKAD 778
+V +NK D
Sbjct: 352 IVAINKID 359
Score = 47.2 bits (113), Expect = 4e-05
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 10/73 (13%)
Query: 78 MINIIDTPGHVDFTIEVERSLR-----VLDGAVIIICASSGIQPQTETVWFQSQKYKVPK 132
I +DTPGH FT ++R V D V+++ A G+ PQT ++ VP
Sbjct: 297 KITFLDTPGHEAFT-----AMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVPI 351
Query: 133 MIFVNKMDRIGAN 145
++ +NK+D+ GAN
Sbjct: 352 IVAINKIDKPGAN 364
>gnl|CDD|239669 cd03698, eRF3_II_like, eRF3_II_like: domain similar to domain II of
the eukaryotic class II release factor (eRF3). In
eukaryotes, translation termination is mediated by two
interacting release factors, eRF1 and eRF3, which act as
class I and II factors, respectively. eRF1 functions as
an omnipotent release factor, decoding all three stop
codons and triggering the release of the nascent peptide
catalyzed by the ribsome. eRF3 is a GTPase, which
enhances the termination efficiency by stimulating the
eRF1 activity in a GTP-dependent manner. Sequence
comparison of class II release factors with elongation
factors shows that eRF3 is more similar to eEF1alpha
whereas prokaryote RF3 is more similar to EF-G, implying
that their precise function may differ. Only eukaryote
RF3s are found in this group. Saccharomyces cerevisiae
eRF3 (Sup35p) is a translation termination factor which
is divided into three regions N, M and a C-terminal
eEF1a-like region essential for translation termination.
Sup35NM is a non-pathogenic prion-like protein with
the property of aggregating into polymer-like fibrils.
This group also contains proteins similar to S.
cerevisiae Hbs1, a G protein known to be important for
efficient growth and protein synthesis under conditions
of limiting translation initiation and, to associate
with Dom34. It has been speculated that yeast Hbs1 and
Dom34 proteins may function as part of a complex with a
role in gene expression.
Length = 83
Score = 57.9 bits (141), Expect = 1e-10
Identities = 27/85 (31%), Positives = 50/85 (58%), Gaps = 3/85 (3%)
Query: 852 PFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEG 911
PF +PI D + GTVV+GK+E G ++ G+ + ++ K+++ + I + + +D
Sbjct: 1 PFRLPISDKYK-DQGGTVVSGKVESGSIQKGDTLLVMPSKESV--EVKSIYVDDEEVDYA 57
Query: 912 LAGENVGILLRSVKREEVERGQVLA 936
+AGENV + L+ + E++ G VL
Sbjct: 58 VAGENVRLKLKGIDEEDISPGDVLC 82
>gnl|CDD|239763 cd04096, eEF2_snRNP_like_C, eEF2_snRNP_like_C: this family
represents a C-terminal domain of eukaryotic elongation
factor 2 (eEF-2) and a homologous domain of the
spliceosomal human 116kD U5 small nuclear
ribonucleoprotein (snRNP) protein (U5-116 kD) and, its
yeast counterpart Snu114p. Yeast Snu114p is essential
for cell viability and for splicing in vivo. U5-116 kD
binds GTP. Experiments suggest that GTP binding and
probably GTP hydrolysis is important for the function of
the U5-116 kD/Snu114p. In complex with GTP, EF-2
promotes the translocation step of translation. During
translocation the peptidyl-tRNA is moved from the A site
to the P site, the uncharged tRNA from the P site to the
E-site and, the mRNA is shifted one codon relative to
the ribosome.
Length = 80
Score = 55.2 bits (134), Expect = 1e-09
Identities = 25/65 (38%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGIIN--TIIDHENFKIINSYIPLRELFGYSTDLR 650
EPI VE+ P + LG V ++K+RG + + I +Y+P+ E FG+ TDLR
Sbjct: 1 EPIYLVEIQCPEDALGKVYSVLSKRRGHVLSEEPKEGTPLFEIKAYLPVIESFGFETDLR 60
Query: 651 SNTKG 655
S T G
Sbjct: 61 SATSG 65
>gnl|CDD|239662 cd03691, BipA_TypA_II, BipA_TypA_II: domain II of BipA (also called
TypA) having homology to domain II of the elongation
factors (EFs) EF-G and EF-Tu. BipA is a highly
conserved protein with global regulatory properties in
Escherichia coli. BipA is phosphorylated on a tyrosine
residue under some cellular conditions. Mutants show
altered regulation of some pathways. BipA functions as a
translation factor that is required specifically for the
expression of the transcriptional modulator Fis. BipA
binds to ribosomes at a site that coincides with that of
EF-G and has a GTPase activity that is sensitive to high
GDP:GTP ratios and, is stimulated by 70S ribosomes
programmed with mRNA and aminoacylated tRNAs. The growth
rate-dependent induction of BipA allows the efficient
expression of Fis, thereby modulating a range of
downstream processes, including DNA metabolism and type
III secretion.
Length = 86
Score = 55.2 bits (134), Expect = 1e-09
Identities = 25/83 (30%), Positives = 47/83 (56%), Gaps = 3/83 (3%)
Query: 301 LVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFA---NSKKDIND 357
LV + +D ++G ++ RI+ G +KVG V + K + +I ++F + ++ +
Sbjct: 4 LVTTLDYDDYVGRIAIGRIFRGTVKVGQQVAVVKRDGKIEKAKITKLFGFEGLKRVEVEE 63
Query: 358 AHFGDIVVIVGLKESSTGDTLCS 380
A GDIV I G+++ + GDT+C
Sbjct: 64 AEAGDIVAIAGIEDITIGDTICD 86
Score = 28.2 bits (64), Expect = 4.7
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 867 GTVVTGKIERGIVKNGEEIEIVGYKQTI-KTTITGIEMFKKT----LDEGLAGENVGI 919
G + G+I RG VK G+++ +V I K IT + F+ ++E AG+ V I
Sbjct: 15 GRIAIGRIFRGTVKVGQQVAVVKRDGKIEKAKITKLFGFEGLKRVEVEEAEAGDIVAI 72
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 61.0 bits (148), Expect = 2e-09
Identities = 42/135 (31%), Positives = 62/135 (45%), Gaps = 18/135 (13%)
Query: 11 IGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIFW 70
+ I+ HVD GKTT ++I T I Q++ GIT + + +
Sbjct: 247 VTILGHVDHGKTTLLDKI--------------RKTQIA----QKEAGGITQKIGAYEVEF 288
Query: 71 EVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYKV 130
E I +DTPGH F+ R V D A++II A G++PQT Q V
Sbjct: 289 EYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANV 348
Query: 131 PKMIFVNKMDRIGAN 145
P ++ +NK+D+ AN
Sbjct: 349 PIIVAINKIDKANAN 363
Score = 55.6 bits (134), Expect = 1e-07
Identities = 50/154 (32%), Positives = 68/154 (44%), Gaps = 27/154 (17%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTS----HVEYESE 712
+GHVDHGKTTL + K ++I E GIT EY+ E
Sbjct: 250 LGHVDHGKTTLLDKIRK--TQIAQKEAG--------------GITQKIGAYEVEFEYKDE 293
Query: 713 NKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVV 772
N+ +D PGH + GA D AIL+ +A DG PQT E I + VP I+V
Sbjct: 294 NQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVP-IIV 352
Query: 773 FLNKADCVQDKELLDLVEMEIRELLTEYDFDGEN 806
+NK DK + I++ L +Y+ E
Sbjct: 353 AINKI----DKANANTE--RIKQQLAKYNLIPEK 380
>gnl|CDD|238841 cd01684, Tet_like_IV, EF-G_domain IV_RPP domain is a part of
bacterial ribosomal protected proteins (RPP) family.
RPPs such as tetracycline resistance proteins Tet(M) and
Tet(O) mediate tetracycline resistance in both
gram-positive and -negative species. Tetracyclines
inhibit the accommodation of aminoacyl-tRNA into
ribosomal A site and therefore prevent the addition of
new amino acids to the growing polypeptide. RPPs Tet(M)
confer tetracycline resistance by releasing tetracycline
from the ribosome and thereby freeing the ribosome from
inhibitory effects of the drug, such that aa-tRNA can
bind to the A site and protein synthesis can continue.
Length = 115
Score = 55.0 bits (133), Expect = 5e-09
Identities = 35/122 (28%), Positives = 55/122 (45%), Gaps = 9/122 (7%)
Query: 469 VSYKESIKKIVTQEGKYIKQSGGKGQY--GHVVIRIEPISLENKENFIFKSEIIGGSIPK 526
V YKE G+ ++ V +R+EP L ++SE+ GS+P+
Sbjct: 1 VIYKERPL----GTGEGVEHIEVPPNPFWATVGLRVEP--LPRGSGLQYESEVSLGSLPR 54
Query: 527 EFIPAIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAIALKDALKK 586
F A+E+ + + G+ G+ V KV L G +HS S+ F+ L+ ALKK
Sbjct: 55 SFQNAVEETVRETLQQGL-YGWEVTDCKVTLTYGRYHSPVSTAADFRELTPRVLRQALKK 113
Query: 587 AN 588
A
Sbjct: 114 AG 115
>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of
small guanosine triphosphatases (GTPases). Ras-like
GTPase superfamily. The Ras-like superfamily of small
GTPases consists of several families with an extremely
high degree of structural and functional similarity. The
Ras superfamily is divided into at least four families
in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families.
This superfamily also includes proteins like the GTP
translation factors, Era-like GTPases, and G-alpha chain
of the heterotrimeric G proteins. Members of the Ras
superfamily regulate a wide variety of cellular
functions: the Ras family regulates gene expression, the
Rho family regulates cytoskeletal reorganization and
gene expression, the Rab and Sar1/Arf families regulate
vesicle trafficking, and the Ran family regulates
nucleocytoplasmic transport and microtubule
organization. The GTP translation factor family
regulates initiation, elongation, termination, and
release in translation, and the Era-like GTPase family
regulates cell division, sporulation, and DNA
replication. Members of the Ras superfamily are
identified by the GTP binding site, which is made up of
five characteristic sequence motifs, and the switch I
and switch II regions.
Length = 161
Score = 54.4 bits (131), Expect = 2e-08
Identities = 27/173 (15%), Positives = 60/173 (34%), Gaps = 31/173 (17%)
Query: 12 GIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIFWE 71
++ GK++ +L G GTT E
Sbjct: 1 VVVGRGGVGKSSLLNALL---GGEVGEVSDVPGTTR----------------DPDVYVKE 41
Query: 72 VNKFKYMINIIDTPGHVDF-----TIEVERSLRVLDGAVIIICASSG--IQPQTETVWFQ 124
++K K + ++DTPG +F LR D ++++ ++ + + +
Sbjct: 42 LDKGKVKLVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRR 101
Query: 125 SQKYKVPKMIFVNKMDRIGAN---YNNCIIDIKKKFNCIVLPIN--FNIGIEE 172
+K +P ++ NK+D + + ++ K V ++ G++E
Sbjct: 102 LRKEGIPIILVGNKIDLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDE 154
Score = 45.1 bits (107), Expect = 3e-05
Identities = 28/156 (17%), Positives = 56/156 (35%), Gaps = 27/156 (17%)
Query: 657 IGHVDHGKTTLTAALTK---VSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYESEN 713
+G GK++L AL G R D ++ + + +
Sbjct: 3 VGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVL----------- 51
Query: 714 KHYAHVDCPGHADYIKNMITGAAQM-----DGAILVCSAVDGPMP--QTREHILLARQVG 766
VD PG ++ A++ D +LV + D + R+ G
Sbjct: 52 -----VDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEG 106
Query: 767 VPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDF 802
+P I++ NK D ++++E+ +L+ +E +
Sbjct: 107 IP-IILVGNKIDLLEEREVEELLRLEELAKILGVPV 141
>gnl|CDD|239756 cd04089, eRF3_II, eRF3_II: domain II of the eukaryotic class II
release factor (eRF3). In eukaryotes, translation
termination is mediated by two interacting release
factors, eRF1 and eRF3, which act as class I and II
factors, respectively. eRF1 functions as an omnipotent
release factor, decoding all three stop codons and
triggering the release of the nascent peptide catalyzed
by the ribsome. eRF3 is a GTPase, which enhances the
termination efficiency by stimulating the eRF1 activity
in a GTP-dependent manner. Sequence comparison of class
II release factors with elongation factors shows that
eRF3 is more similar to eEF1alpha whereas prokaryote RF3
is more similar to EF-G, implying that their precise
function may differ. Only eukaryote RF3s are found in
this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a
translation termination factor which is divided into
three regions N, M and a C-terminal eEF1a-like region
essential for translation termination. Sup35NM is a
non-pathogenic prion-like protein with the property of
aggregating into polymer-like fibrils.
Length = 82
Score = 51.0 bits (123), Expect = 4e-08
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 4/84 (4%)
Query: 852 PFLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDEG 911
P +PI D + GTVV GK+E G +K G+++ ++ K ++ + I +
Sbjct: 1 PLRLPIIDKYK--DMGTVVLGKVESGTIKKGDKLLVMPNKTQVE--VLSIYNEDVEVRYA 56
Query: 912 LAGENVGILLRSVKREEVERGQVL 935
GENV + L+ ++ E++ G VL
Sbjct: 57 RPGENVRLRLKGIEEEDISPGFVL 80
>gnl|CDD|239665 cd03694, GTPBP_II, Domain II of the GP-1 family of GTPase. This
group includes proteins similar to GTPBP1 and GTPBP2.
GTPB1 is structurally, related to elongation factor 1
alpha, a key component of protein biosynthesis
machinery. Immunohistochemical analyses on mouse tissues
revealed that GTPBP1 is expressed in some neurons and
smooth muscle cells of various organs as well as
macrophages. Immunofluorescence analyses revealed that
GTPBP1 is localized exclusively in cytoplasm and shows a
diffuse granular network forming a gradient from the
nucleus to the periphery of the cells in smooth muscle
cell lines and macrophages. No significant difference
was observed in the immune response to protein antigen
between mutant mice and wild-type mice, suggesting
normal function of antigen-presenting cells of the
mutant mice. The absence of an eminent phenotype in
GTPBP1-deficient mice may be due to functional
compensation by GTPBP2, which is similar to GTPBP1 in
structure and tissue distribution.
Length = 87
Score = 50.7 bits (122), Expect = 7e-08
Identities = 19/86 (22%), Positives = 43/86 (50%), Gaps = 2/86 (2%)
Query: 853 FLMPIEDVFSISGRGTVVTGKIERGIVKNGEEIEIVGYK--QTIKTTITGIEMFKKTLDE 910
I++++S+ G GTVV G + +G+++ G+ + + + T+ I + +
Sbjct: 1 AEFQIDEIYSVPGVGTVVGGTVSKGVIRLGDTLLLGPDQDGSFRPVTVKSIHRNRSPVRV 60
Query: 911 GLAGENVGILLRSVKREEVERGQVLA 936
AG++ + L+ + R + +G VL
Sbjct: 61 VRAGQSASLALKKIDRSLLRKGMVLV 86
>gnl|CDD|239666 cd03695, CysN_NodQ_II, CysN_NodQ_II: This subfamily represents the
domain II of the large subunit of ATP sulfurylase
(ATPS): CysN or the N-terminal portion of NodQ, found
mainly in proteobacteria and homologous to the domain II
of EF-Tu. Escherichia coli ATPS consists of CysN and a
smaller subunit CysD and CysN. ATPS produces
adenosine-5'-phosphosulfate (APS) from ATP and sulfate,
coupled with GTP hydrolysis. In the subsequent reaction
APS is phosphorylated by an APS kinase (CysC), to
produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for
use in amino acid (aa) biosynthesis. The Rhizobiaceae
group (alpha-proteobacteria) appears to carry out the
same chemistry for the sufation of a nodulation factor.
In Rhizobium meliloti, a the hererodimeric complex
comprised of NodP and NodQ appears to possess both ATPS
and APS kinase activities. The N and C termini of NodQ
correspond to CysN and CysC, respectively. Other
eubacteria, Archaea, and eukaryotes use a different ATP
sulfurylase, which shows no aa sequence similarity to
CysN or NodQ. CysN and the N-terminal portion of NodQ
show similarity to GTPases involved in translation, in
particular, EF-Tu and EF-1alpha.
Length = 81
Score = 49.8 bits (120), Expect = 1e-07
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 10/88 (11%)
Query: 853 FLMPIEDV--FSISGRGTVVTGKIERGIVKNGEEIEIVGYKQTIKTTITGIEMFKKTLDE 910
F P++ V + RG G I G ++ G+E+ + + + IE F LDE
Sbjct: 1 FRFPVQYVIRPNADFRG--YAGTIASGSIRVGDEVVV--LPSGKTSRVKSIETFDGELDE 56
Query: 911 GLAGENVGILLRSVKRE-EVERGQVLAK 937
AGE+V + L + E +V RG V+
Sbjct: 57 AGAGESVTLTL---EDEIDVSRGDVIVA 81
>gnl|CDD|239681 cd03710, BipA_TypA_C, BipA_TypA_C: a C-terminal portion of BipA or
TypA having homology to the C terminal domains of the
elongation factors EF-G and EF-2. A member of the
ribosome binding GTPase superfamily, BipA is widely
distributed in bacteria and plants. BipA is a highly
conserved protein with global regulatory properties in
Escherichia coli. BipA is phosphorylated on a tyrosine
residue under some cellular conditions. Mutants show
altered regulation of some pathways. BipA functions as a
translation factor that is required specifically for the
expression of the transcriptional modulator Fis. BipA
binds to ribosomes at a site that coincides with that of
EF-G and has a GTPase activity that is sensitive to high
GDP:GTP ratios and, is stimulated by 70S ribosomes
programmed with mRNA and aminoacylated tRNAs. The growth
rate-dependent induction of BipA allows the efficient
expression of Fis, thereby modulating a range of
downstream processes, including DNA metabolism and type
III secretion.
Length = 79
Score = 47.5 bits (114), Expect = 7e-07
Identities = 23/79 (29%), Positives = 42/79 (53%), Gaps = 13/79 (16%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHEN------FKIINSYIPLRELFGYS 646
EPI ++ +++P E+ G V+ + K++G + + N FK IP R L G+
Sbjct: 1 EPIEELTIDVPEEYSGAVIEKLGKRKGEMVDMEPDGNGRTRLEFK-----IPSRGLIGFR 55
Query: 647 TDLRSNTKGT--IGHVDHG 663
++ ++T+GT + HV G
Sbjct: 56 SEFLTDTRGTGIMNHVFDG 74
>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; the
alignment generated by This model does not correctly
align the sequences from Methanococcus jannaschii and
Pyrococcus horikoshii in this region [Protein synthesis,
Translation factors].
Length = 590
Score = 52.5 bits (126), Expect = 1e-06
Identities = 39/137 (28%), Positives = 64/137 (46%), Gaps = 14/137 (10%)
Query: 11 IGIIAHVDAGKTTTTERILFYSGSSHKIGEV--HHGTTITDWMQQEQERGITITSASVSI 68
+ ++ HVD GKTT ++I + + + G + H G T E + +
Sbjct: 7 VSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGAT---------EIPMDVIEGICGD 57
Query: 69 FWEVNKFKYMIN---IIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQS 125
+ K + I IDTPGH FT +R + D A++I+ + G +PQT+
Sbjct: 58 LLKKFKIRLKIPGLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNIL 117
Query: 126 QKYKVPKMIFVNKMDRI 142
+ YK P ++ NK+DRI
Sbjct: 118 RMYKTPFVVAANKIDRI 134
Score = 46.0 bits (109), Expect = 1e-04
Identities = 42/139 (30%), Positives = 58/139 (41%), Gaps = 17/139 (12%)
Query: 649 LRSNTKGTIGHVDHGKTTLTAAL--TKVSSEIYGG---EVRA----FDTIDNAPEEKERG 699
LRS +GHVDHGKTTL + + V+ GG + A D I+ + +
Sbjct: 2 LRSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKK 61
Query: 700 ITISTSHVEYESENKHYAHVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHI 759
I + +D PGH + G A D AIL+ +G PQT+E +
Sbjct: 62 FKI-------RLKIPGLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEAL 114
Query: 760 LLARQVGVPNIVVFLNKAD 778
+ R P VV NK D
Sbjct: 115 NILRMYKTP-FVVAANKID 132
>gnl|CDD|238842 cd01693, mtEFG2_like_IV, mtEF-G2 domain IV. This subfamily is a
part the of mitochondrial transcriptional elongation
factor, mtEF-G2. Mitochondrial translation is crucial
for maintaining mitochondrial function and mutations in
this system lead to a breakdown in the respiratory
chain-oxidative phosphorylation system and to impaired
maintenance of mitochondrial DNA. In complex with GTP,
EF-G promotes the translocation step of translation.
During translocation the peptidyl-tRNA is moved from the
A site to the P site of the small subunit of ribosome
and the mRNA is shifted one codon relative to the
ribosome.
Length = 120
Score = 48.2 bits (115), Expect = 1e-06
Identities = 25/121 (20%), Positives = 49/121 (40%), Gaps = 4/121 (3%)
Query: 469 VSYKESIKKIVTQEGKYIKQSGGKGQYGHVVIRIEPISLENKENFIF-KSEIIGGSIPKE 527
++Y+E+I + K G K V + + P + + + + K
Sbjct: 1 IAYRETILEPARATDTLEKVIGDKKHSVTVTMEVRPNQASSSPVELIELANSAIEVLLKR 60
Query: 528 FIPAIEKGIMNQINYGVVLGYPVIKIKVFLVNGSFHSVDSSEYAFKNAAAI-ALKDALKK 586
A+E G+ + + G +LG+PV + + L + + S +A A ++ ALK
Sbjct: 61 IQEAVENGVHSALLQGPLLGFPVQDVAITLHSLTIGPGTSP--TMISACASQCVQKALKS 118
Query: 587 A 587
A
Sbjct: 119 A 119
>gnl|CDD|238771 cd01513, Translation_factor_III, Domain III of Elongation factor (EF)
Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and
EF-G participate in the elongation phase during protein
biosynthesis on the ribosome. Their functional cycles
depend on GTP binding and its hydrolysis. The EF-Tu
complexed with GTP and aminoacyl-tRNA delivers tRNA to
the ribosome, whereas EF-G stimulates translocation, a
process in which tRNA and mRNA movements occur in the
ribosome. Experimental data showed that: (1) intrinsic
GTPase activity of EF-G is influenced by excision of its
domain III; (2) that EF-G lacking domain III has a
1,000-fold decreased GTPase activity on the ribosome and,
a slightly decreased affinity for GTP; and (3) EF-G
lacking domain III does not stimulate translocation,
despite the physical presence of domain IV which is also
very important for translocation. These findings indicate
an essential contribution of domain III to activation of
GTP hydrolysis. Domains III and V of EF-G have the same
fold (although they are not completely superimposable),
the double split beta-alpha-beta fold. This fold is
observed in a large number of ribonucleotide binding
proteins and is also referred to as the ribonucleoprotein
(RNP) or RNA recognition (RRM) motif. This domain III is
found in several elongation factors, as well as in
peptide chain release factors and in GT-1 family of
GTPase (GTPBP1).
Length = 102
Score = 47.0 bits (112), Expect = 2e-06
Identities = 24/97 (24%), Positives = 37/97 (38%), Gaps = 22/97 (22%)
Query: 942 KSYNIFECEVYILSKEEGGRHTPFFNGYKPQFYFRTTDVTGICKLP-----------ENV 990
++ + F E+Y+L E P GYKP T V G +
Sbjct: 1 QAVDKFVAEIYVLDHPE-----PLSPGYKPVLNVGTAHVPGRIAKLLSKVDGKTEEKKPP 55
Query: 991 EMVLPGDNIKLNVTLLSSIAIEI------GLRFAIRE 1021
E + G+ + V L +A+E G RFA+R+
Sbjct: 56 EFLKSGERGIVEVELQKPVALETFSENQEGGRFALRD 92
>gnl|CDD|239682 cd03711, Tet_C, Tet_C: C-terminus of ribosomal protection proteins
Tet(M) and Tet(O). This domain has homology to the C
terminal domains of the elongation factors EF-G and
EF-2. Tet(M) and Tet(O) catalyze the release of
tetracycline (Tc) from the ribosome in a GTP-dependent
manner thereby mediating Tc resistance. Tcs are
broad-spectrum antibiotics. Typical Tcs bind to the
ribosome and inhibit the elongation phase of protein
synthesis, by inhibiting the occupation of site A by
aminoacyl-tRNA.
Length = 78
Score = 46.1 bits (110), Expect = 2e-06
Identities = 15/63 (23%), Positives = 27/63 (42%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSYIPLRELFGYSTDLRSN 652
EP ++ E+ +P + LG + D+ K + + IP+ Y ++L S
Sbjct: 1 EPYLRFELEVPQDALGRAMSDLAKMGATFEDPQIKGDEVTLEGTIPVATSQDYQSELPSY 60
Query: 653 TKG 655
T G
Sbjct: 61 THG 63
>gnl|CDD|235195 PRK04004, PRK04004, translation initiation factor IF-2; Validated.
Length = 586
Score = 50.2 bits (121), Expect = 4e-06
Identities = 39/146 (26%), Positives = 60/146 (41%), Gaps = 42/146 (28%)
Query: 16 HVDAGKTTTTERILFYSGSSHKIGEV-----HHGTTITDWMQQEQERGITITSASVSIFW 70
HVD GKTT ++I G++ E H G T I + +
Sbjct: 14 HVDHGKTTLLDKI---RGTAVAAKEAGGITQHIGATEVPID--------VIEKIAGPL-- 60
Query: 71 EVNKFKYMINI-----IDTPGHVDFTIEVERSLR-----VLDGAVIIICASSGIQPQTET 120
+ I IDTPGH FT +LR + D A++++ + G QPQT
Sbjct: 61 -KKPLPIKLKIPGLLFIDTPGHEAFT-----NLRKRGGALADIAILVVDINEGFQPQTI- 113
Query: 121 VWFQS----QKYKVPKMIFVNKMDRI 142
++ ++ K P ++ NK+DRI
Sbjct: 114 ---EAINILKRRKTPFVVAANKIDRI 136
Score = 40.5 bits (96), Expect = 0.005
Identities = 44/140 (31%), Positives = 54/140 (38%), Gaps = 37/140 (26%)
Query: 658 GHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERG-IT-------ISTSHVEY 709
GHVDHGKTTL L K I G V KE G IT + +E
Sbjct: 13 GHVDHGKTTL---LDK----IRGTAV----------AAKEAGGITQHIGATEVPIDVIEK 55
Query: 710 ESE--NKHYA---------HVDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREH 758
+ K +D PGH + G A D AILV +G PQT E
Sbjct: 56 IAGPLKKPLPIKLKIPGLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEA 115
Query: 759 ILLARQVGVPNIVVFLNKAD 778
I + ++ P +V NK D
Sbjct: 116 INILKRRKTPFVVA-ANKID 134
>gnl|CDD|239661 cd03690, Tet_II, Tet_II: This subfamily represents domain II of
ribosomal protection proteins Tet(M) and Tet(O). This
domain has homology to domain II of the elongation
factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the
release of tetracycline (Tc) from the ribosome in a
GTP-dependent manner thereby mediating Tc resistance.
Tcs are broad-spectrum antibiotics. Typical Tcs bind to
the ribosome and inhibit the elongation phase of protein
synthesis, by inhibiting the occupation of site A by
aminoacyl-tRNA.
Length = 85
Score = 44.1 bits (105), Expect = 1e-05
Identities = 27/88 (30%), Positives = 42/88 (47%), Gaps = 9/88 (10%)
Query: 295 SNKFVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVY---NSTKKVKEKIFRILRMFANS 351
++ VFKI D L+++R+YSG +++ D V K+ E LR+F N
Sbjct: 1 ESELSGTVFKIERDDKGERLAYLRLYSGTLRLRDSVRVNREEKIKITE-----LRVFNNG 55
Query: 352 K-KDINDAHFGDIVVIVGLKESSTGDTL 378
+ + GDI ++ GLK GD L
Sbjct: 56 EVVTADTVTAGDIAILTGLKGLRVGDVL 83
>gnl|CDD|206739 cd09912, DLP_2, Dynamin-like protein including dynamins,
mitofusins, and guanylate-binding proteins. The dynamin
family of large mechanochemical GTPases includes the
classical dynamins and dynamin-like proteins (DLPs) that
are found throughout the Eukarya. This family also
includes bacterial DLPs. These proteins catalyze
membrane fission during clathrin-mediated endocytosis.
Dynamin consists of five domains; an N-terminal G domain
that binds and hydrolyzes GTP, a middle domain (MD)
involved in self-assembly and oligomerization, a
pleckstrin homology (PH) domain responsible for
interactions with the plasma membrane, GED, which is
also involved in self-assembly, and a proline arginine
rich domain (PRD) that interacts with SH3 domains on
accessory proteins. To date, three vertebrate dynamin
genes have been identified; dynamin 1, which is brain
specific, mediates uptake of synaptic vesicles in
presynaptic terminals; dynamin-2 is expressed
ubiquitously and similarly participates in membrane
fission; mutations in the MD, PH and GED domains of
dynamin 2 have been linked to human diseases such as
Charcot-Marie-Tooth peripheral neuropathy and rare forms
of centronuclear myopathy. Dynamin 3 participates in
megakaryocyte progenitor amplification, and is also
involved in cytoplasmic enlargement and the formation of
the demarcation membrane system. This family also
includes mitofusins (MFN1 and MFN2 in mammals) that are
involved in mitochondrial fusion. Dynamin oligomerizes
into helical structures around the neck of budding
vesicles in a GTP hydrolysis-dependent manner.
Length = 180
Score = 46.0 bits (110), Expect = 2e-05
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 13/114 (11%)
Query: 719 VDCPG-------HADYIKNMITGAAQMDGAILVCSAVDGPMPQT-REHILLARQVGVPNI 770
VD PG H + ++ + + D I V SA D P+ ++ RE + + I
Sbjct: 51 VDTPGLNSTIEHHTEITESFL---PRADAVIFVLSA-DQPLTESEREFLKEILKWSGKKI 106
Query: 771 VVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDDN 824
LNK D + ++EL +++E RE L + G +I SA ALE +
Sbjct: 107 FFVLNKIDLLSEEELEEVLE-YSREELGVLELGGGEPRIFPVSAKEALEARLQG 159
>gnl|CDD|239765 cd04098, eEF2_C_snRNP, eEF2_C_snRNP: This family includes a
C-terminal portion of the spliceosomal human 116kD U5
small nuclear ribonucleoprotein (snRNP) protein (U5-116
kD) and, its yeast counterpart Snu114p. This domain is
homologous to the C-terminal domain of the eukaryotic
translational elongation factor EF-2. Yeast Snu114p is
essential for cell viability and for splicing in vivo.
U5-116 kD binds GTP. Experiments suggest that GTP
binding and probably GTP hydrolysis is important for the
function of the U5-116 kD/Snu114p. In complex with
GTP, EF-2 promotes the translocation step of
translation. During translocation the peptidyl-tRNA is
moved from the A site to the P site, the uncharged tRNA
from the P site to the E-site and, the mRNA is shifted
one codon relative to the ribosome.
Length = 80
Score = 43.0 bits (102), Expect = 3e-05
Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 5/75 (6%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGII--NTIIDHENFKIINSYIPLRELFGYSTDLR 650
EPI +VE+ P++ + V ++++RG + +T I + ++IP+ E FG+ TDLR
Sbjct: 1 EPIYEVEITCPADAVSAVYEVLSRRRGHVIYDTPIPGTPLYEVKAFIPVIESFGFETDLR 60
Query: 651 SNTKGT---IGHVDH 662
+T+G DH
Sbjct: 61 VHTQGQAFCQSVFDH 75
>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction
only].
Length = 187
Score = 45.5 bits (108), Expect = 3e-05
Identities = 30/132 (22%), Positives = 52/132 (39%), Gaps = 14/132 (10%)
Query: 11 IGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQE-RGITITSASVSIF 69
I +I V AGKTT + S K IT+ +G T+ ++
Sbjct: 13 IVVIGPVGAGKTTFVRAL------SDKP------LVITEADASSVSGKGKRPTTVAMDFG 60
Query: 70 WEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQT-ETVWFQSQKY 128
+++ TPG F E R GA++++ +S I E + F + +
Sbjct: 61 SIELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRN 120
Query: 129 KVPKMIFVNKMD 140
+P ++ +NK D
Sbjct: 121 PIPVVVAINKQD 132
Score = 31.3 bits (71), Expect = 1.9
Identities = 30/127 (23%), Positives = 46/127 (36%), Gaps = 15/127 (11%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSHVEYES---EN 713
IG V GKTT AL+ I T +A +G +T +++ S +
Sbjct: 16 IGPVGAGKTTFVRALSDKPLVI---------TEADASSVSGKGKRPTTVAMDFGSIELDE 66
Query: 714 KHYAH-VDCPGHADYIKNMITGAAQ-MDGAILVCSAVDGPMPQTREHILLARQVGVPNIV 771
H PG + K M ++ GAI++ + E I +V
Sbjct: 67 DTGVHLFGTPGQ-ERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVV 125
Query: 772 VFLNKAD 778
V +NK D
Sbjct: 126 VAINKQD 132
>gnl|CDD|206728 cd04165, GTPBP1_like, GTP binding protein 1 (GTPBP1)-like family
includes GTPBP2. Mammalian GTP binding protein 1
(GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1
are GTPases whose specific functions remain unknown. In
mouse, GTPBP1 is expressed in macrophages, in smooth
muscle cells of various tissues and in some neurons of
the cerebral cortex; GTPBP2 tissue distribution appears
to overlap that of GTPBP1. In human leukemia and
macrophage cell lines, expression of both GTPBP1 and
GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The
chromosomal location of both genes has been identified
in humans, with GTPBP1 located in chromosome 22q12-13.1
and GTPBP2 located in chromosome 6p21-12. Human
glioblastoma multiforme (GBM), a highly-malignant
astrocytic glioma and the most common cancer in the
central nervous system, has been linked to chromosomal
deletions and a translocation on chromosome 6. The GBM
translocation results in a fusion of GTPBP2 and PTPRZ1,
a protein involved in oligodendrocyte differentiation,
recovery, and survival. This fusion product may
contribute to the onset of GBM.
Length = 224
Score = 44.2 bits (105), Expect = 1e-04
Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 28/142 (19%)
Query: 657 IGHVDHGKTTLTAALTKVSSEIYGGEVRAFDTIDNAPEEKERGITISTSH--VEYESE-- 712
+G+VD GK+TL LT+ E+ G +A + E E G T S S+ + ++S+
Sbjct: 5 VGNVDAGKSTLLGVLTQ--GELDNGRGKARLNLFRHKHEVESGRTSSVSNDILGFDSDGE 62
Query: 713 --NKHYAH------------------VDCPGHADYIKNMITG--AAQMDGAILVCSAVDG 750
N H +D GH Y+K + G D A+LV A G
Sbjct: 63 VVNYPDNHLGELDVEICEKSSKVVTFIDLAGHERYLKTTVFGMTGYAPDYAMLVVGANAG 122
Query: 751 PMPQTREHILLARQVGVPNIVV 772
+ T+EH+ LA + VP VV
Sbjct: 123 IIGMTKEHLGLALALKVPVFVV 144
>gnl|CDD|239671 cd03700, eEF2_snRNP_like_II, EF2_snRNP_like_II: this subfamily
represents domain II of elongation factor (EF) EF-2
found eukaryotes and archaea and, the C-terminal portion
of the spliceosomal human 116kD U5 small nuclear
ribonucleoprotein (snRNP) protein (U5-116 kD) and, its
yeast counterpart Snu114p. During the process of peptide
synthesis and tRNA site changes, the ribosome is moved
along the mRNA a distance equal to one codon with the
addition of each amino acid. This translocation step is
catalyzed by EF-2_GTP, which is hydrolyzed to provide
the required energy. Thus, this action releases the
uncharged tRNA from the P site and transfers the newly
formed peptidyl-tRNA from the A site to the P site.
Yeast Snu114p is essential for cell viability and for
splicing in vivo. U5-116 kD binds GTP. Experiments
suggest that GTP binding and probably GTP hydrolysis is
important for the function of the U5-116 kD/Snu114p.
Length = 93
Score = 41.4 bits (98), Expect = 1e-04
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 298 FVSLVFKIFHDPFLGSL-SFIRIYSGFIKVGDLVY---------NSTKKVKEKIFRILRM 347
V V K+ P G +F R++SG I+ G V + K+ I R+ M
Sbjct: 1 LVMYVTKMVPTPDKGGFIAFGRVFSGTIRKGQKVRVLGPNYSPEDEEDLSKKTIQRLYLM 60
Query: 348 FANSKKDINDAHFGDIVVIVGLKESSTGDTLCS 380
++ +++ G+IV+IVGL + +G T
Sbjct: 61 MGRYREPVDEVPAGNIVLIVGLDQLKSGTTATI 93
>gnl|CDD|237833 PRK14845, PRK14845, translation initiation factor IF-2;
Provisional.
Length = 1049
Score = 44.1 bits (104), Expect = 4e-04
Identities = 23/62 (37%), Positives = 35/62 (56%)
Query: 81 IIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETVWFQSQKYKVPKMIFVNKMD 140
IDTPGH FT +R + D AV+++ + G +PQT ++YK P ++ NK+D
Sbjct: 530 FIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKID 589
Query: 141 RI 142
I
Sbjct: 590 LI 591
Score = 33.7 bits (77), Expect = 0.60
Identities = 23/60 (38%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 719 VDCPGHADYIKNMITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFLNKAD 778
+D PGH + G + D A+LV +G PQT E I + RQ P VV NK D
Sbjct: 531 IDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTP-FVVAANKID 589
>gnl|CDD|239680 cd03709, lepA_C, lepA_C: This family represents the C-terminal
region of LepA, a GTP-binding protein localized in the
cytoplasmic membrane. LepA is ubiquitous in Bacteria
and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but
is missing from Archaea. LepA exhibits significant
homology to elongation factors (EFs) Tu and G. The
function(s) of the proteins in this family are unknown.
The N-terminal domain of LepA is homologous to a domain
of similar size found in initiation factor 2 (IF2), and
in EF-Tu and EF-G (factors required for translation in
Escherichia coli). Two types of phylogenetic tree,
rooted by other GTP-binding proteins, suggest that
eukaryotic homologs (including S. cerevisiae GUF1)
originated within the bacterial LepA family. LepA has
never been observed in archaea, and eukaryl LepA is
organellar. LepA is therefore a true bacterial GTPase,
found only in the bacterial lineage.
Length = 80
Score = 38.6 bits (91), Expect = 0.001
Identities = 18/65 (27%), Positives = 38/65 (58%), Gaps = 2/65 (3%)
Query: 593 EPIMKVEVNLPSEFLGIVVGDINKKRGIINTIIDHENFKIINSY-IPLREL-FGYSTDLR 650
EP +K + PSE+LG ++ ++RG+ + + +++ +Y +PL E+ + + L+
Sbjct: 1 EPFVKATIITPSEYLGAIMELCQERRGVQKDMEYLDANRVMLTYELPLAEIVYDFFDKLK 60
Query: 651 SNTKG 655
S +KG
Sbjct: 61 SISKG 65
>gnl|CDD|206682 cd01895, EngA2, EngA2 GTPase contains the second domain of EngA.
This EngA2 subfamily CD represents the second GTPase
domain of EngA and its orthologs, which are composed of
two adjacent GTPase domains. Since the sequences of the
two domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family. Although the exact function of
these proteins has not been elucidated, studies have
revealed that the E. coli EngA homolog, Der, and
Neisseria gonorrhoeae EngA are essential for cell
viability. A recent report suggests that E. coli Der
functions in ribosome assembly and stability.
Length = 174
Score = 40.1 bits (95), Expect = 0.002
Identities = 30/125 (24%), Positives = 54/125 (43%), Gaps = 21/125 (16%)
Query: 55 QERGIT-----ITSASVSIFWEVNKFKYMINIIDTPG-----HVDFTIE---VERSLRVL 101
+ER I T S+ + +E + KY +IDT G V IE V R+L+ +
Sbjct: 25 EERVIVSDIAGTTRDSIDVPFEYDGQKYT--LIDTAGIRKKGKVTEGIEKYSVLRTLKAI 82
Query: 102 DGA---VIIICASSGIQPQTETVWFQSQKYKVPKMIFVNKMDRIGAN---YNNCIIDIKK 155
+ A ++++ AS GI Q + + +I VNK D + + ++++
Sbjct: 83 ERADVVLLVLDASEGITEQDLRIAGLILEEGKALIIVVNKWDLVEKDEKTMKEFEKELRR 142
Query: 156 KFNCI 160
K +
Sbjct: 143 KLPFL 147
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase. The
Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), Era, and EngA/YfgK) that generally show sequence
conservation in the region between the Walker A and B
motifs (G1 and G3 box motifs), to the exclusion of other
GTPases. TrmE is ubiquitous in bacteria and is a
widespread mitochondrial protein in eukaryotes, but is
absent from archaea. The yeast member of TrmE family,
MSS1, is involved in mitochondrial translation;
bacterial members are often present in
translation-related operons. FeoB represents an unusual
adaptation of GTPases for high-affinity iron (II)
transport. YihA (EngB) family of GTPases is typified by
the E. coli YihA, which is an essential protein involved
in cell division control. Era is characterized by a
distinct derivative of the KH domain (the pseudo-KH
domain) which is located C-terminal to the GTPase
domain. EngA and its orthologs are composed of two
GTPase domains and, since the sequences of the two
domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family.
Length = 161
Score = 37.6 bits (88), Expect = 0.010
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 6/70 (8%)
Query: 735 AAQMDGAILVCSAVDGPMPQTRE--HILLARQVGVPNIVVFLNKADCVQDKELLDLVEME 792
A + D +LV VD + E + L R+ G P ++V NK D V + E +L+
Sbjct: 74 ADRADLVLLV---VDSDLTPVEEEAKLGLLRERGKPVLLVL-NKIDLVPESEEEELLRER 129
Query: 793 IRELLTEYDF 802
ELL +
Sbjct: 130 KLELLPDLPV 139
Score = 31.4 bits (72), Expect = 1.1
Identities = 30/154 (19%), Positives = 54/154 (35%), Gaps = 32/154 (20%)
Query: 12 GIIAHVDAGKTTTTERILFYSGSSHKIGEVH--HGTTITDWMQQEQERGITITSASVSIF 69
I + GK++ L + +G V GTT D V
Sbjct: 1 AIFGRPNVGKSS-----LLNALLGQNVGIVSPIPGTT-RDP---------------VRKE 39
Query: 70 WEVNKFKYMINIIDTPGHVDFTIE-----VERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
WE+ + +IDTPG +D VE + +V D A +++ E
Sbjct: 40 WELLP-LGPVVLIDTPG-LDEEGGLGRERVEEARQVADRADLVLLVVDSDLTPVEEEAKL 97
Query: 125 SQ--KYKVPKMIFVNKMDRIGANYNNCIIDIKKK 156
+ P ++ +NK+D + + ++ +K
Sbjct: 98 GLLRERGKPVLLVLNKIDLVPESEEEELLRERKL 131
>gnl|CDD|239670 cd03699, lepA_II, lepA_II: This subfamily represents the domain II
of LepA, a GTP-binding protein localized in the
cytoplasmic membrane. The N-terminal domain of LepA
shares regions of homology to translation factors. In
terms of interaction with the ribosome, EF-G, EF-Tu and
IF2 have all been demonstrated to interact at
overlapping sites on the ribosome. Chemical protection
studies demonstrate that they all include the
universally conserved alpha-sarcin loop as part of their
binding site. These data indicate that LepA may bind to
this location on the ribosome as well. LepA has never
been observed in archaea, and eukaryl LepA is
organellar. LepA is therefore a true bacterial GTPase,
found only in the bacterial lineage.
Length = 86
Score = 35.5 bits (83), Expect = 0.014
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 17/79 (21%)
Query: 301 LVFKIFHDPFLGSLSFIRIYSGFIKVGDLVY----NSTKKVKE-KIFRILRM-------- 347
L+F ++DP+ G ++ +R++ G +K GD + +V+E IFR
Sbjct: 4 LIFDSWYDPYRGVIALVRVFDGTLKKGDKIRFMSTGKEYEVEEVGIFRPEMTPTDELSAG 63
Query: 348 ----FANSKKDINDAHFGD 362
K + DA GD
Sbjct: 64 QVGYIIAGIKTVKDARVGD 82
>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase
HydF. This model describes the family of the [Fe]
hydrogenase maturation protein HypF as characterized in
Chlamydomonas reinhardtii and found, in an operon with
radical SAM proteins HydE and HydG, in numerous
bacteria. It has GTPase activity, can bind an 4Fe-4S
cluster, and is essential for hydrogenase activity
[Protein fate, Protein modification and repair].
Length = 391
Score = 37.9 bits (89), Expect = 0.025
Identities = 26/113 (23%), Positives = 53/113 (46%), Gaps = 9/113 (7%)
Query: 81 IIDTPGHVDFTIE-----VERSLRVL---DGAVIIICASSGIQPQTETVWFQSQKYKVPK 132
+IDT G +D E VE++ VL D A++++ A G + + ++ K+P
Sbjct: 59 LIDTAG-LDDEGELGELRVEKTREVLDKTDLALLVVDAGVGPGEYELELIEELKERKIPY 117
Query: 133 MIFVNKMDRIGANYNNCIIDIKKKFNCIVLPINFNIGIEENYEGIVDIINKKS 185
++ +NK+D + ++ K I + GI+E E I++++ +
Sbjct: 118 IVVINKIDLGEESAELEKLEKKFGLPPIFVSALTGEGIDELKEAIIELLPEDF 170
>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta
subunit (SR-beta), together with SR-alpha, forms the
heterodimeric signal recognition particle (SRP). Signal
recognition particle receptor, beta subunit (SR-beta).
SR-beta and SR-alpha form the heterodimeric signal
recognition particle (SRP or SR) receptor that binds SRP
to regulate protein translocation across the ER
membrane. Nascent polypeptide chains are synthesized
with an N-terminal hydrophobic signal sequence that
binds SRP54, a component of the SRP. SRP directs
targeting of the ribosome-nascent chain complex (RNC) to
the ER membrane via interaction with the SR, which is
localized to the ER membrane. The RNC is then
transferred to the protein-conducting channel, or
translocon, which facilitates polypeptide translation
across the ER membrane or integration into the ER
membrane. SR-beta is found only in eukaryotes; it is
believed to control the release of the signal sequence
from SRP54 upon binding of the ribosome to the
translocon. High expression of SR-beta has been observed
in human colon cancer, suggesting it may play a role in
the development of this type of cancer.
Length = 202
Score = 35.4 bits (82), Expect = 0.076
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 11/92 (11%)
Query: 60 TITS--ASVSIFWEVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQ 117
T+TS +V+ F+ + + ++D PGH ++ L+ A++ + S+ Q
Sbjct: 28 TVTSIEPNVASFYSNSSKGKKLTLVDVPGHEKLRDKLLEYLKASLKAIVFVVDSATFQKN 87
Query: 118 -TETVWF--------QSQKYKVPKMIFVNKMD 140
+ F + K K+P +I NK D
Sbjct: 88 IRDVAEFLYDILTDLEKIKNKIPILIACNKQD 119
>gnl|CDD|234274 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
[Protein synthesis, Other].
Length = 429
Score = 35.9 bits (84), Expect = 0.096
Identities = 30/124 (24%), Positives = 54/124 (43%), Gaps = 20/124 (16%)
Query: 55 QERGIT-----ITSASVSIFWEVNKFKYMINIIDTPG-----HVDFTIE---VERSLRVL 101
+ER I T S+ I +E N KY +IDT G V +E V R+L+ +
Sbjct: 195 EERVIVSDIAGTTRDSIDIPFERNGKKYT--LIDTAGIRRKGKVTEGVEKYSVLRTLKAI 252
Query: 102 DGA---VIIICASSGIQPQTETVWFQSQKYKVPKMIFVNKMDRI--GANYNNCIIDIKKK 156
+ A ++++ A+ GI Q + + + +I VNK D + ++++K
Sbjct: 253 ERADVVLLVLDATEGITEQDLRIAGLALEAGKALVIVVNKWDLVKDEKTREEFKKELRRK 312
Query: 157 FNCI 160
+
Sbjct: 313 LPFL 316
>gnl|CDD|239659 cd03688, eIF2_gamma_II, eIF2_gamma_II: this subfamily represents
the domain II of the gamma subunit of eukaryotic
translation initiation factor 2 (eIF2-gamma) found in
Eukaryota and Archaea. eIF2 is a G protein that delivers
the methionyl initiator tRNA to the small ribosomal
subunit and releases it upon GTP hydrolysis after the
recognition of the initiation codon. eIF2 is composed
three subunits, alpha, beta and gamma. Subunit gamma
shows strongest conservation, and it confers both tRNA
binding and GTP/GDP binding.
Length = 113
Score = 33.6 bits (78), Expect = 0.11
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 13/87 (14%)
Query: 866 RGTVVTGKIERGIVKNGEEIEIV-GYKQT---------IKTTITGIEMFKKTLDEGLAGE 915
+G V G + +G++K G+EIEI G I T I ++ L E + G
Sbjct: 27 KGGVAGGSLLQGVLKVGDEIEIRPGIVVKDEGKIKCRPIFTKIVSLKAENNDLQEAVPGG 86
Query: 916 NVGI---LLRSVKREEVERGQVLAKIG 939
+G+ L ++ + + GQV+ + G
Sbjct: 87 LIGVGTKLDPTLTKADRLVGQVVGEPG 113
>gnl|CDD|216296 pfam01094, ANF_receptor, Receptor family ligand binding region.
This family includes extracellular ligand binding
domains of a wide range of receptors. This family also
includes the bacterial amino acid binding proteins of
known structure.
Length = 343
Score = 35.5 bits (82), Expect = 0.13
Identities = 31/191 (16%), Positives = 60/191 (31%), Gaps = 31/191 (16%)
Query: 177 IVDIINKKSFFWKENSIIIKNIDKDQ--LSAFDYYNELMLETLSNNDEFFLEKYINNNYS 234
I DI+ F WK ++I + D + L A E L N + I ++
Sbjct: 110 IADILKH--FGWKRVAVIYDDDDYGEGGLEAL----EDALREAGLNVVAVASEVIASDDD 163
Query: 235 INDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLPSPYDVDFKNNDYNINLN 294
+ ++ + K ++I ++CGSS + +L + L
Sbjct: 164 FTALLKELKDIKSKARVI-VVCGSS---DDLRQILRQA----------------RELGLM 203
Query: 295 SNKFVSLVFKIFHDPFLGSLS-FIRIYSGFIKVGDLVYNSTKKVKEKIFRILRMFANSKK 353
S +V ++ ++ D G + G + ++ L+ AN
Sbjct: 204 SGGYVWILTDLWSDSLDIDNDKAREAAKGVL--GFTLKPPDSPGFQEFVERLKKLANRCT 261
Query: 354 DINDAHFGDIV 364
D
Sbjct: 262 PALDTEPNGYA 272
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 35.6 bits (83), Expect = 0.16
Identities = 25/158 (15%), Positives = 58/158 (36%), Gaps = 1/158 (0%)
Query: 154 KKKFNCIVLPINFNIGIEENYEGIVDIINKKSFFWKENSIIIKNIDKDQLSAFDYYNELM 213
KK + I +P + E+ E +++KKS W+ + + + F +
Sbjct: 8 KKLLDQINIPDDLQSEALESAEIEKVVVDKKSKKWEFHLKFPNILPIEDFKLFKEKLKQS 67
Query: 214 LETLSNNDEFFLEKYINNNYSINDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSIC 273
+++ F + N ++ + + +++ K K + S LK + +E N +
Sbjct: 68 FSHIADIKVTFSIEVENITFTEELLLDYWNEIIEKAKKNSPLFKSLLKKQKVEVEGNKLI 127
Query: 274 EYLPSPYDVDFKNNDYNINLNSNKFVSLVFKIFHDPFL 311
+ + + D + L ++ F I F
Sbjct: 128 IKVNNEIERDHLKKKHLPKLI-KQYEKFGFGILKIDFE 164
>gnl|CDD|206665 cd01876, YihA_EngB, YihA (EngB) GTPase family. The YihA (EngB)
subfamily of GTPases is typified by the E. coli YihA, an
essential protein involved in cell division control.
YihA and its orthologs are small proteins that typically
contain less than 200 amino acid residues and consists
of the GTPase domain only (some of the eukaryotic
homologs contain an N-terminal extension of about 120
residues that might be involved in organellar
targeting). Homologs of yihA are found in most
Gram-positive and Gram-negative pathogenic bacteria,
with the exception of Mycobacterium tuberculosis. The
broad-spectrum nature of YihA and its essentiality for
cell viability in bacteria make it an attractive
antibacterial target.
Length = 170
Score = 33.6 bits (78), Expect = 0.24
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 229 INNNYSINDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYL 276
+ + +K +L L N + P++ SS K GI+ L I E+L
Sbjct: 123 LKKSELAKVLKKIKEELNLFNILPPVILFSSKKGTGIDELRALIAEWL 170
Score = 30.6 bits (70), Expect = 2.5
Identities = 23/98 (23%), Positives = 39/98 (39%), Gaps = 14/98 (14%)
Query: 719 VDCPG---------HADYIKNMI----TGAAQMDGAILVCSAVDGPMPQTREHILLARQV 765
VD PG + +I + G +L+ A GP P E + ++
Sbjct: 50 VDLPGYGYAKVSKEVREKWGKLIEEYLENRENLKGVVLLIDARHGPTPIDLEMLEFLEEL 109
Query: 766 GVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFD 803
G+P ++V L KAD ++ EL +++ EL
Sbjct: 110 GIPFLIV-LTKADKLKKSELAKVLKKIKEELNLFNILP 146
>gnl|CDD|233884 TIGR02478, 6PF1K_euk, 6-phosphofructokinase, eukaryotic type.
Members of this family are eukaryotic (with one
exception) ATP-dependent 6-phosphofructokinases (EC
2.7.1.11) in which two tandem copies of the
phosphofructokinase are found. Members are found, often
including several isozymes, in animals and fungi and in
the bacterium Propionibacterium acnes KPA171202 (a human
skin commensal).
Length = 746
Score = 34.6 bits (80), Expect = 0.28
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 901 IEMFKKTLDEGLAGENVGILLRSVKREEVERGQVLAKIGSIKSYNIFECEVYILSK-EEG 959
IE K+T EG AG ++LR+ K +V +A+I S + F+ +L ++G
Sbjct: 598 IEHLKETFAEGRAG---KLILRNEKASKVYTTDFIARIISEEGKGRFDARTAVLGHMQQG 654
Query: 960 GRHTPF 965
G +PF
Sbjct: 655 GSPSPF 660
>gnl|CDD|223296 COG0218, COG0218, Predicted GTPase [General function prediction
only].
Length = 200
Score = 33.4 bits (77), Expect = 0.35
Identities = 29/118 (24%), Positives = 47/118 (39%), Gaps = 18/118 (15%)
Query: 719 VDCPG---------HADYIKNMI----TGAAQMDGAILVCSAVDGPMPQTREHILLARQV 765
VD PG + K +I A + G +L+ A P RE I ++
Sbjct: 75 VDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLEL 134
Query: 766 GVPNIVVFLNKADCVQDKELLDLVEMEIRELLTEYDFDGENTKIVIGSALLALEGKDD 823
G+P IVV KAD ++ E + + E L + + V+ + L +G D+
Sbjct: 135 GIPVIVVL-TKADKLKKSERNKQLNK-VAEEL---KKPPPDDQWVVLFSSLKKKGIDE 187
>gnl|CDD|151418 pfam10971, DUF2773, Protein of unknown function (DUF2773). This
family of proteins with unknown function appears to be
restricted to Enterobacteriaceae.
Length = 81
Score = 31.1 bits (70), Expect = 0.48
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 387 LENIETPIPVISISIEP----IFKNDQEKLLNILQKFCKEDPSLLLSINN 432
L N TP +++ EP + N+ + ++ + KEDPSLLL +
Sbjct: 2 LNNAHTPPALLTTLTEPEWRSLAMNNPQLAADVKTAWLKEDPSLLLFVEQ 51
>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a
circularly permuted subfamily of the Ras GTPases. YjeQ
(YloQ in Bacillus subtilis) is a ribosomal small
subunit-dependent GTPase; hence also known as RsgA. YjeQ
is a late-stage ribosomal biogenesis factor involved in
the 30S subunit maturation, and it represents a protein
family whose members are broadly conserved in bacteria
and have been shown to be essential to the growth of E.
coli and B. subtilis. Proteins of the YjeQ family
contain all sequence motifs typical of the vast class of
P-loop-containing GTPases, but show a circular
permutation, with a G4-G1-G3 pattern of motifs as
opposed to the regular G1-G3-G4 pattern seen in most
GTPases. All YjeQ family proteins display a unique
domain architecture, which includes an N-terminal
OB-fold RNA-binding domain, the central permuted GTPase
domain, and a zinc knuckle-like C-terminal cysteine
domain.
Length = 211
Score = 32.4 bits (75), Expect = 0.75
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 739 DGAILVCSAVDGPMPQTR---EHILLARQVGVPNIVVFLNKADCVQDKELLDLVE 790
D ++V S + P R +++ A G+ V+ LNKAD V D+EL +L+E
Sbjct: 4 DQVLIVFSLKE-PFFNLRLLDRYLVAAEASGIE-PVIVLNKADLVDDEELEELLE 56
>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction
only].
Length = 444
Score = 32.9 bits (76), Expect = 1.0
Identities = 42/192 (21%), Positives = 79/192 (41%), Gaps = 41/192 (21%)
Query: 11 IGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIFW 70
I II + GK++ IL GE I G T S+ I +
Sbjct: 181 IAIIGRPNVGKSSLINAIL---------GEER---VIVS-----DIAGTTR--DSIDIEF 221
Query: 71 EVNKFKYMINIIDTPG-----HVDFTIE---VERSLRVLDGA---VIIICASSGIQPQTE 119
E + KY+ +IDT G + ++E V R+L+ ++ A +++I A+ GI Q
Sbjct: 222 ERDGRKYV--LIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDL 279
Query: 120 TVWFQSQKYKVPKMIFVNKMDRIGANYNNCII---DIKKKFNCI----VLPIN--FNIGI 170
+ ++ +I VNK D + + +++K + ++ I+ G+
Sbjct: 280 RIAGLIEEAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGL 339
Query: 171 EENYEGIVDIIN 182
++ +E I +I
Sbjct: 340 DKLFEAIKEIYE 351
>gnl|CDD|214397 CHL00207, rpoB, RNA polymerase beta subunit; Provisional.
Length = 1077
Score = 32.8 bits (75), Expect = 1.3
Identities = 40/239 (16%), Positives = 74/239 (30%), Gaps = 45/239 (18%)
Query: 132 KMIFVNKMDRIGANYNNCIIDIKKK--FNCIVLPIN---FNIGIEENYEGIVDIINKKSF 186
+ + V+++ R Y I ++ ++P +++N
Sbjct: 114 ERVIVSQIIRSPGIYFKKEIKKNSNKIYSATLIPNRGSWIKFELDKN------------- 160
Query: 187 FWKENSIIIKNIDKDQLSAFDYYNEL-MLETLSNNDEFFLEKY-INNNYSINDIKNSIRK 244
KE I I K L F L + S + K + N N
Sbjct: 161 --KEIWIRIDKNRKKPLIIFLKALGLTDQDIYSRLTKSEFLKKLKPILLNSNSYTNEEIL 218
Query: 245 LVLKNKIIPIMCGSSLKNKGIEFLLNSICE---YLPSPYDVDFKNNDYNINLNS------ 295
L + + PI + F + + Y NN N+N+
Sbjct: 219 LEIYKNLSPIEPATVNDANQNLF--SRFFDPKNYDLGKVGRYKINNKLNLNIPERVRNLT 276
Query: 296 --------NKFVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFRILR 346
+K ++L + + L R+ S VG+L+ N + +++ RILR
Sbjct: 277 YEDILSIIDKLINLKINKGNFDDIDHLKNRRVRS----VGELLQNQFRIGLKRLERILR 331
>gnl|CDD|215629 PLN03200, PLN03200, cellulose synthase-interactive protein;
Provisional.
Length = 2102
Score = 32.4 bits (74), Expect = 1.8
Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 9/57 (15%)
Query: 409 QEKLLNILQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKENNIKTKIS 465
Q+K + IL + C++ P +L + N + I S + DRI+ ++++ KI
Sbjct: 848 QDKAIEILSRLCRDQPVVLGDLIANASKCISS---------LADRIINSSSLEVKIG 895
>gnl|CDD|237248 PRK12890, PRK12890, allantoate amidohydrolase; Reviewed.
Length = 414
Score = 31.8 bits (73), Expect = 2.1
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 10/54 (18%)
Query: 79 INIIDTPGHVDFTIEV--------ERSLRVLDGAVIIICASSGIQPQTETVWFQ 124
IN++ PG V FT+++ E + L + I A+ G++ + E +
Sbjct: 277 INVV--PGRVVFTLDLRSPDDAVLEAAEAALLAELEAIAAARGVRIELERLSRS 328
>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 31.6 bits (73), Expect = 2.1
Identities = 39/125 (31%), Positives = 56/125 (44%), Gaps = 27/125 (21%)
Query: 739 DGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFLNKADCVQDKELLDLVEMEIRELLT 798
D + V A + P + ++V P I+V LNK D V+DKE E+ LL
Sbjct: 86 DLVLFVVDADEKIGPGDEFILEKLKKVKTPVILV-LNKIDLVKDKE-------ELLPLLE 137
Query: 799 EYDFDGENTKIVIGSALLALEGKDDNQLGTTSIKKLLDVLDSSIPT------PNRITDKP 852
E + +IV SAL K DN + +LLDV+ +P ++ITD+P
Sbjct: 138 ELSELMDFAEIVPISAL-----KGDN------VDELLDVIAKYLPEGPPYYPEDQITDRP 186
Query: 853 --FLM 855
FL
Sbjct: 187 ERFLA 191
Score = 31.2 bits (72), Expect = 2.6
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 4/32 (12%)
Query: 250 KIIPIMCGSSLKNKGIEFLLNSICEYLP-SPY 280
+I+PI S+LK ++ LL+ I +YLP P
Sbjct: 147 EIVPI---SALKGDNVDELLDVIAKYLPEGPP 175
>gnl|CDD|132238 TIGR03194, 4hydrxCoA_A, 4-hydroxybenzoyl-CoA reductase, alpha
subunit. This model represents the largest chain,
alpha, of the enzyme 4-hydroxybenzoyl-CoA reductase. In
species capable of degrading various aromatic compounds
by way of benzoyl-CoA, this enzyme can convert
4-hydroxybenzoyl-CoA to benzoyl-CoA.
Length = 746
Score = 31.7 bits (72), Expect = 2.5
Identities = 23/88 (26%), Positives = 35/88 (39%), Gaps = 11/88 (12%)
Query: 724 HADYIKNMITGAAQMDGAILVCSAVDGPMP------QTREHILL---ARQVGVPNIVVFL 774
HA + + A + G I V + D P+P E+ L R G P V +
Sbjct: 37 HARILAIDTSEAEALPGVIAVVTGADCPVPYGVLPIAENEYPLARDKVRYRGDP--VAAV 94
Query: 775 NKADCVQDKELLDLVEMEIRELLTEYDF 802
D V ++ L L+++E EL D
Sbjct: 95 AAVDEVTAEKALALIKVEYEELPAYMDP 122
>gnl|CDD|240068 cd04717, BAH_polybromo, BAH, or Bromo Adjacent Homology domain, as
present in polybromo and yeast RSC1/2. The human
polybromo protein (BAF180) is a component of the SWI/SNF
chromatin-remodeling complex PBAF. It is thought that
polybromo participates in transcriptional regulation.
Saccharomyces cerevisiae RSC1 and RSC2 are part of the
15-subunit nucleosome remodeling RSC complex. BAH
domains are found in a variety of proteins playing roles
in transcriptional silencing and the remodeling of
chromatin. It is assumed that in most or all of these
instances the BAH domain mediates protein-protein
interactions.
Length = 121
Score = 29.9 bits (68), Expect = 2.5
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 322 GFIKVGDLVY--NSTKKVKEKIFRILRMFANSK 352
+VGD VY N K IFRI R++ +
Sbjct: 2 LQYRVGDCVYVANPEDPSKPIIFRIERLWKDED 34
>gnl|CDD|239757 cd04090, eEF2_II_snRNP, Loc2 eEF2_C_snRNP, cd01514/C terminal
domain:eEF2_C_snRNP: This family includes C-terminal
portion of the spliceosomal human 116kD U5 small nuclear
ribonucleoprotein (snRNP) protein (U5-116 kD) and, its
yeast counterpart Snu114p. This domain is homologous to
domain II of the eukaryotic translational elongation
factor EF-2. Yeast Snu114p is essential for cell
viability and for splicing in vivo. U5-116 kD binds GTP.
Experiments suggest that GTP binding and probably GTP
hydrolysis is important for the function of the U5-116
kD/Snu114p. In complex with GTP, EF-2 promotes the
translocation step of translation. During translocation
the peptidyl-tRNA is moved from the A site to the P
site, the uncharged tRNA from the P site to the E-site
and, the mRNA is shifted one codon relative to the
ribosome.
Length = 94
Score = 29.1 bits (66), Expect = 2.8
Identities = 27/90 (30%), Positives = 40/90 (44%), Gaps = 11/90 (12%)
Query: 302 VFKIFHDPFLGSL-SFIRIYSGFIKVGDLVY----NSTKK-----VKEKIFRILRMFANS 351
V K++ GS +F RIYSG IK G V N + I R+ +
Sbjct: 5 VTKLYSTSDGGSFWAFGRIYSGTIKKGQKVKVLGENYSLDDEEDMTICTIGRLWILGGRY 64
Query: 352 KKDINDAHFGDIVVIVGLKES-STGDTLCS 380
K ++N+A G+ V+I G+ S T+ S
Sbjct: 65 KIEVNEAPAGNWVLIKGIDSSIVKTATITS 94
>gnl|CDD|226702 COG4251, COG4251, Bacteriophytochrome (light-regulated signal
transduction histidine kinase) [Signal transduction
mechanisms].
Length = 750
Score = 31.3 bits (71), Expect = 3.4
Identities = 18/75 (24%), Positives = 26/75 (34%), Gaps = 6/75 (8%)
Query: 732 ITGAAQMDGAILVCSAVDGPMPQTREHILLARQVGVPNIVVFLNKADCVQDKELLDLVEM 791
I GA Q GA+LV D + Q E+ A +G + V E +
Sbjct: 22 IPGAIQPHGALLVLDEADLMVLQASENC--ANILGREPEDLLGRTLGAVLTSEQVPP--- 76
Query: 792 EIRELLTEYDFDGEN 806
++ LT N
Sbjct: 77 -LQSALTVGGLTTLN 90
>gnl|CDD|225087 COG2176, PolC, DNA polymerase III, alpha subunit (gram-positive
type) [DNA replication, recombination, and repair].
Length = 1444
Score = 31.1 bits (71), Expect = 3.6
Identities = 39/245 (15%), Positives = 75/245 (30%), Gaps = 24/245 (9%)
Query: 284 FKNNDYNINLNSNKFVSLVFKIFHDPFLGSLSFIRIYSGFIKVGDLVYNSTKKVKEKIFR 343
+ LNS +L K F+ + I++ + N+ + E++
Sbjct: 19 PDDLLVKNILNSAIIENLYVK--KKSKNWEFHFLFAETLPIEIYKELENALSEEFEQLVA 76
Query: 344 ILRMFANSKK-DINDAH----FGDIVVIVGLKESSTGDTLCSLSENIQLENIETPIPVIS 398
+ + DI + F I+ + +K L L ++ NI V++
Sbjct: 77 KVEFDIEVRNVDITEQEIQTYFKKIIEQLSVKSPIFKSLLNKLKLKVKGNNI-LIEQVLN 135
Query: 399 ISIEPIFKNDQEKLLNILQKFCKEDPSLLLSINNNTGETILSGMGELHLEIIVDRILKEN 458
FKN +L LQ F + +N+ + E E
Sbjct: 136 NPEFDHFKNKSPELQKKLQSFGFPQLLIEFEVNDISEE-----QEFEKFEEA-------- 182
Query: 459 NIKTKISKPQVSYKESIKKIVTQEGKYIKQSG--GKGQYGHVVIRIEPISLENKENFIFK 516
I ++ K E+ KK+ + K K + + E L +
Sbjct: 183 -INEEVEKAAQEALEAEKKLKAESPKVEKPKPLFDGQKGRKIKSTEEIKPLIKINEEETR 241
Query: 517 SEIIG 521
++ G
Sbjct: 242 VKVEG 246
>gnl|CDD|215537 PLN02993, PLN02993, lupeol synthase.
Length = 763
Score = 31.0 bits (70), Expect = 3.8
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 696 KERGITISTSHVEYESENKHYAHVDC 721
+E+ + ++ H+ YE EN HY + C
Sbjct: 346 REKALQVAMKHIHYEDENSHYITIGC 371
>gnl|CDD|214371 CHL00122, secA, preprotein translocase subunit SecA; Validated.
Length = 870
Score = 30.7 bits (70), Expect = 5.5
Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 7/99 (7%)
Query: 400 SIEPIFKNDQEKLLNILQKFCKEDP------SLLLSINNNTGETILSGMGELH-LEIIVD 452
+ E K + LL + K ++L S+ N+ LS L L +
Sbjct: 495 NPEFKLKKELYDLLLSYKSNEKISTISQNFLNILNSLKNDLKFLSLSDFENLKILNEASE 554
Query: 453 RILKENNIKTKISKPQVSYKESIKKIVTQEGKYIKQSGG 491
+ +N+ + + E KK+ +E K +K+ GG
Sbjct: 555 ISIPKNSYQLSLRFLYNELLEKYKKLQEKEKKIVKKLGG 593
>gnl|CDD|233358 TIGR01327, PGDH, D-3-phosphoglycerate dehydrogenase. This model
represents a long form of D-3-phosphoglycerate
dehydrogenase, the serA gene of one pathway of serine
biosynthesis. Shorter forms, scoring between trusted and
noise cutoff, include SerA from E. coli [Amino acid
biosynthesis, Serine family].
Length = 525
Score = 30.4 bits (69), Expect = 5.7
Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 669 AALTKVSSEIYGGEVRAFDTIDNAP-EEKERGITISTSHVEYESENKHYAHV 719
AAL + S + EV + NAP KERGIT+ S E + K+Y V
Sbjct: 367 AALKGLLSPVLDDEV----NMVNAPAVAKERGITVEESKSESSPDYKNYLSV 414
>gnl|CDD|233856 TIGR02411, leuko_A4_hydro, leukotriene A-4
hydrolase/aminopeptidase. Members of this family
represent a distinctive subset within the zinc
metallopeptidase family M1 (pfam01433). The majority of
the members of pfam01433 are aminopeptidases, but the
sequences in this family for which the function is known
are leukotriene A-4 hydrolase. A dual epoxide hydrolase
and aminopeptidase activity at the same active site is
indicated. The physiological substrate for
aminopeptidase activity is not known.
Length = 602
Score = 30.1 bits (68), Expect = 6.6
Identities = 19/74 (25%), Positives = 30/74 (40%), Gaps = 17/74 (22%)
Query: 191 NSIIIKNIDKDQLSAFDYYNELMLETLSNN--DEFFLEKYINN---NYSINDIKNS-IR- 243
N+ IK+ QL F LETL+ D E +I Y+ KN+ +R
Sbjct: 480 NAKDIKDFSSHQLVLF-------LETLTERGGDWALPEGHIKRLGDIYNFAASKNAEVRF 532
Query: 244 ---KLVLKNKIIPI 254
+L ++ K+
Sbjct: 533 RWFRLAIQAKLEDE 546
>gnl|CDD|224081 COG1159, Era, GTPase [General function prediction only].
Length = 298
Score = 29.9 bits (68), Expect = 7.2
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 229 INNNYSINDIKNSIRKLVLKNKIIPIMCGSSLKNKGIEFLLNSICEYLP-SP--YDVDF 284
+ + + ++KL+ +I+PI S+LK ++ LL I EYLP P Y D
Sbjct: 127 VKPKTVLLKLIAFLKKLLPFKEIVPI---SALKGDNVDTLLEIIKEYLPEGPWYYPEDQ 182
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 29.8 bits (68), Expect = 7.7
Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 16/71 (22%)
Query: 735 AAQMDGAILVCSAVDGPMPQTREHIL-----LARQVGVPNIVVFLNKADCVQDKELLDLV 789
AA +D A+LV +A + P +L LA G+ I+V NK D + D E
Sbjct: 78 AANVDQAVLVFAAKE---PDFSTDLLDRFLVLAEANGIKPIIVL-NKIDLLDDLE----- 128
Query: 790 EMEIRELLTEY 800
E RELL Y
Sbjct: 129 --EARELLALY 137
>gnl|CDD|224580 COG1666, COG1666, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 165
Score = 28.9 bits (65), Expect = 9.0
Identities = 25/96 (26%), Positives = 43/96 (44%), Gaps = 9/96 (9%)
Query: 784 ELLDLVEMEIRELLTEYDFDGENTKIVI-GSALLALEGKDDNQLGTTSIKKLLDVLDSSI 842
E+ + VE +EL + +DF G I + + + L + D QL +L D+L S +
Sbjct: 17 EVRNAVENANKELASRFDFKGVKASIELKENETIKLTSESDFQLE-----QLKDILRSKL 71
Query: 843 PTPNRITDKPFLMPIEDVFSISGRGTVVTGKIERGI 878
I+ K + I SG+ K+++GI
Sbjct: 72 IKRG-ISGK--ALDIPKEEVASGKTVRQEAKLKQGI 104
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 29.2 bits (65), Expect = 9.3
Identities = 36/228 (15%), Positives = 70/228 (30%), Gaps = 41/228 (17%)
Query: 11 IGIIAHVDAGKTTTTERILFYSGSSHKIGEVHHGTTITDWMQQEQERGITITSASVSIFW 70
I ++ GKTT R+ + D + I + +I
Sbjct: 8 IVVLGDGGVGKTTLLNRL------------------VGDEFPEGYPPTIGNLDPAKTI-- 47
Query: 71 EVNKFKYMINIIDTPGHVDFTIEVERSLRVLDGAVIIICASSGIQPQTETV---WFQSQK 127
E + + + DT G ++ R I+I S ++ ++ + W + +
Sbjct: 48 EPYRRNIKLQLWDTAGQEEY--RSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELR 105
Query: 128 YKVP--KMIFV--NKMDRIGA--------NYNNCIIDIKKKFNCIVLPINFNIGIEENYE 175
P I + NK+D N N + + VLP N + E
Sbjct: 106 ELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSA 165
Query: 176 GIVDIINKKSFFWKENSIIIKNIDKDQLSAFDYYNELMLETLSNNDEF 223
+ N F +++ + ++ L+ L+N E
Sbjct: 166 KSLTGPNVNELF----KELLRKLLEEIEKLVLKNELRQLDRLNNPIEQ 209
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.138 0.392
Gapped
Lambda K H
0.267 0.0810 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 53,074,876
Number of extensions: 5537939
Number of successful extensions: 6208
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5770
Number of HSP's successfully gapped: 350
Length of query: 1021
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 914
Effective length of database: 6,191,724
Effective search space: 5659235736
Effective search space used: 5659235736
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: 64 (28.3 bits)