RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11896
(1043 letters)
>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed.
Length = 668
Score = 789 bits (2040), Expect = 0.0
Identities = 291/638 (45%), Positives = 411/638 (64%), Gaps = 14/638 (2%)
Query: 205 SAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLW 264
H +GKTTLTE ILFYTG I + EV MD M ER+RGI+I SAAT W
Sbjct: 1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGT---TTMDFMPEERERGISITSAATTCEW 57
Query: 265 KDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIA 324
K H IN+IDTPGHVDFT EVERALRVLDGA++V+CAVGGV+ QT TV RQ ++Y VP I
Sbjct: 58 KGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRII 117
Query: 325 FINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKAIYFEGPLGD 384
F+NK+DR GAD +RV+ Q+++K+G LQ+PIG G + G++DL+ KA ++ G
Sbjct: 118 FVNKMDRAGADFFRVLAQLQEKLGAPVVPLQLPIGEGDDFTGVVDLLSMKAYRYDE--GG 175
Query: 385 NLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRRSTLTRK 444
EIPA+L AE R+EL+E +AE D+ L E +LE + +SE++IK +R++TL +
Sbjct: 176 PSEEIEIPAELLDRAEEAREELLEALAEFDDELMEKYLEGEELSEEEIKAGLRKATLAGE 235
Query: 445 FTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDGKHPFIA 504
PV G+ALKNKGVQ LLDAV+DYLP+P EV E+G+E ++ +P P +A
Sbjct: 236 IVPVFCGSALKNKGVQRLLDAVVDYLPSPLEVPPVDGEDGEEGAELAPDPDG----PLVA 291
Query: 505 LAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLA 563
L FK F G+L+ +R Y G L+KG+ +YN T KK RV RL R+H + E+V+E +A
Sbjct: 292 LVFKTMDDPFVGKLSLVRVYSGTLKKGDTLYNSGTGKKERVGRLYRMHGKQREEVDEAVA 351
Query: 564 GDIFALFGV-DCASGDTFVTDKNNSISLESIYVADPVVSMSIKAVNNKDRDNFSKAVQRF 622
GDI A+ + D A+GDT DK + I LE + +PV+S++I+ + D + S+A+ +
Sbjct: 352 GDIVAVAKLKDAATGDTL-CDKGDPILLEPMEFPEPVISLAIEPKDKGDEEKLSEALGKL 410
Query: 623 TKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVLGKPKVAFKETLVQPF 682
+EDPT D E+ +T++SGMGELHL++ +R++REY V G P+V ++ET+ +
Sbjct: 411 AEEDPTLRVERDEETGQTILSGMGELHLDVALERLKREYGVEVETGPPQVPYRETIRKKA 470
Query: 683 DFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNVPKPFLPAIIKGFKQM 742
+ HKKQSGG GQ+G V +EPLP EF+D+ VG VP+ ++PA+ KG ++
Sbjct: 471 EGHGRHKKQSGGHGQFGDVWLEVEPLPRGEG--FEFVDKVVGGAVPRQYIPAVEKGVREA 528
Query: 743 CEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILEPIMSVE 802
EKG L+G V V++ L DG H VDS+E++F +AA A ++A + +LEPIM VE
Sbjct: 529 LEKGVLAGYPVVDVKVTLTDGSYHSVDSSEMAFKIAARLAFREALPKAKPVLLEPIMKVE 588
Query: 803 ISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEM 840
+S P EF G V+ ++ R G + G E + + AE+
Sbjct: 589 VSVPEEFVGDVIGDLSSRRGRILGMESRGGGDVVRAEV 626
Score = 191 bits (488), Expect = 5e-51
Identities = 72/127 (56%), Positives = 90/127 (70%), Gaps = 4/127 (3%)
Query: 6 KIIHIKQEQVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTV 65
IH + +V MD M ER+RGI+I SAAT WK H IN+IDTPGHVDFT
Sbjct: 20 GAIH-RIGEVEDGT---TTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTG 75
Query: 66 EVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQ 125
EVERALRVLDGA++V+CAVGGV+ QT TV RQ ++Y VP I F+NK+DR GAD +RV+ Q
Sbjct: 76 EVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIFVNKMDRAGADFFRVLAQ 135
Query: 126 MRQKTSR 132
+++K
Sbjct: 136 LQEKLGA 142
Score = 162 bits (412), Expect = 2e-41
Identities = 60/144 (41%), Positives = 90/144 (62%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILEP 938
G ++ EKG L+G V V++ L DG H VDS+E++F +AA A ++A + +LEP
Sbjct: 524 GVREALEKGVLAGYPVVDVKVTLTDGSYHSVDSSEMAFKIAARLAFREALPKAKPVLLEP 583
Query: 939 IMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSSTQ 998
IM VE+S P EF G V+ ++ R G + G E + + AE+PL +MFG+A DLRS TQ
Sbjct: 584 IMKVEVSVPEEFVGDVIGDLSSRRGRILGMESRGGGDVVRAEVPLAEMFGYATDLRSLTQ 643
Query: 999 GKGEFSMDYSRYSPALPEVQDRLV 1022
G+G FSM++S Y V ++++
Sbjct: 644 GRGSFSMEFSHYEEVPGNVAEKVI 667
>gnl|CDD|234569 PRK00007, PRK00007, elongation factor G; Reviewed.
Length = 693
Score = 763 bits (1972), Expect = 0.0
Identities = 305/652 (46%), Positives = 428/652 (65%), Gaps = 18/652 (2%)
Query: 195 PIEYIRNIGISAHIDSGKTTLTERILFYTGR---ISEMHEVRGKDNVGAVMDSMELERQR 251
P+E RNIGI AHID+GKTT TERILFYTG I E+H+ G A MD ME E++R
Sbjct: 6 PLERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHD--G----AATMDWMEQEQER 59
Query: 252 GITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTV 311
GITI SAAT WKDH INIIDTPGHVDFT+EVER+LRVLDGA+ V AVGGV+ Q+ TV
Sbjct: 60 GITITSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETV 119
Query: 312 NRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLI 371
RQ +Y VP IAF+NK+DR GAD YRV+ Q++ ++G N +Q+PIG + KG++DL+
Sbjct: 120 WRQADKYKVPRIAFVNKMDRTGADFYRVVEQIKDRLGANPVPIQLPIGAEDDFKGVVDLV 179
Query: 372 QRKAI-YFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISED 430
+ KAI + E LG EEIPADLK +AE R++LIE AE DE L E +LE + ++E+
Sbjct: 180 KMKAIIWNEADLGATFEYEEIPADLKDKAEEYREKLIEAAAEADEELMEKYLEGEELTEE 239
Query: 431 DIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNY-AIENGQEDKK 489
+IK A+R++T+ + PVL G+A KNKGVQ LLDAV+DYLP+P +V I E+++
Sbjct: 240 EIKAALRKATIANEIVPVLCGSAFKNKGVQPLLDAVVDYLPSPLDVPAIKGILPDGEEEE 299
Query: 490 VVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLV 548
V S D PF ALAFK+ F G+LT+ R Y G L G + N KK R+ R++
Sbjct: 300 VERKASDDE--PFSALAFKIMTDPFVGKLTFFRVYSGVLESGSYVLNSTKGKKERIGRIL 357
Query: 549 RLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESIYVADPVVSMSIKAV 607
++H+N+ E+++EV AGDI A G+ D +GDT + D+ N I LES+ +PV+S++++
Sbjct: 358 QMHANKREEIKEVRAGDIAAAVGLKDTTTGDT-LCDEKNPIILESMEFPEPVISVAVEPK 416
Query: 608 NNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVL 667
D++ A+Q+ +EDP+F D E+ +T+++GMGELHL+I RM+RE+ +
Sbjct: 417 TKADQEKMGIALQKLAEEDPSFRVSTDEETGQTIIAGMGELHLDIIVDRMKREFKVEANV 476
Query: 668 GKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNV 727
GKP+VA++ET+ + + + KQSGG GQYG V+ EP P EF+++ VG +
Sbjct: 477 GKPQVAYRETIRKKVEVEGKFVKQSGGRGQYGHVVIEFEPNEPGKG--YEFVNKIVGGVI 534
Query: 728 PKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAY 787
PK ++PA+ KG ++ E G L+G V V++ L DG H VDS+E++F +A A K+A
Sbjct: 535 PKEYIPAVDKGIQEAMESGVLAGYPVVDVKVTLFDGSYHDVDSSEMAFKIAGSMAFKEAA 594
Query: 788 EEGVWQILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAE 839
++ +LEPIM VE+ TP E+ G V+ + R G ++G E + I AE
Sbjct: 595 KKANPVLLEPIMKVEVVTPEEYMGDVIGDLNSRRGQIEGMEDRGGAKVIRAE 646
Score = 204 bits (521), Expect = 3e-55
Identities = 71/107 (66%), Positives = 85/107 (79%)
Query: 23 AVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLC 82
A MD ME E++RGITI SAAT WKDH INIIDTPGHVDFT+EVER+LRVLDGA+ V
Sbjct: 48 ATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFD 107
Query: 83 AVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
AVGGV+ Q+ TV RQ +Y VP IAF+NK+DR GAD YRV+ Q++ +
Sbjct: 108 AVGGVEPQSETVWRQADKYKVPRIAFVNKMDRTGADFYRVVEQIKDR 154
Score = 130 bits (330), Expect = 5e-31
Identities = 56/148 (37%), Positives = 89/148 (60%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILEP 938
G ++ E G L+G V V++ L DG H VDS+E++F +A A K+A ++ +LEP
Sbjct: 545 GIQEAMESGVLAGYPVVDVKVTLFDGSYHDVDSSEMAFKIAGSMAFKEAAKKANPVLLEP 604
Query: 939 IMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSSTQ 998
IM VE+ TP E+ G V+ + R G ++G E + I AE+PL++MFG+A DLRS TQ
Sbjct: 605 IMKVEVVTPEEYMGDVIGDLNSRRGQIEGMEDRGGAKVIRAEVPLSEMFGYATDLRSMTQ 664
Query: 999 GKGEFSMDYSRYSPALPEVQDRLVNEYQ 1026
G+ +SM++ Y V + ++ + +
Sbjct: 665 GRATYSMEFDHYEEVPKNVAEEIIKKRK 692
>gnl|CDD|237185 PRK12739, PRK12739, elongation factor G; Reviewed.
Length = 691
Score = 760 bits (1966), Expect = 0.0
Identities = 305/658 (46%), Positives = 430/658 (65%), Gaps = 22/658 (3%)
Query: 194 KPIEYIRNIGISAHIDSGKTTLTERILFYTGR---ISEMHEVRGKDNVGAVMDSMELERQ 250
P+E RNIGI AHID+GKTT TERIL+YTG+ I E+H+ G A MD ME E++
Sbjct: 3 FPLEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHD--G----AATMDWMEQEQE 56
Query: 251 RGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT 310
RGITI SAAT WK H INIIDTPGHVDFT+EVER+LRVLDGA+ V AV GV+ Q+ T
Sbjct: 57 RGITITSAATTCFWKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSET 116
Query: 311 VNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDL 370
V RQ +Y VP I F+NK+DR+GAD +R + Q++ ++G NA +Q+PIG + KG+IDL
Sbjct: 117 VWRQADKYGVPRIVFVNKMDRIGADFFRSVEQIKDRLGANAVPIQLPIGAEDDFKGVIDL 176
Query: 371 IQRKAIYFEG-PLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISE 429
I+ KAI ++ LG E+IPADLK++AE R++LIE VAE DE L E +LE + I+E
Sbjct: 177 IKMKAIIWDDETLGAKYEEEDIPADLKEKAEEYREKLIEAVAEVDEELMEKYLEGEEITE 236
Query: 430 DDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKK 489
++IK AIR++T+ +F PVL G+A KNKGVQ LLDAV+DYLP+P +V N +++
Sbjct: 237 EEIKAAIRKATINMEFFPVLCGSAFKNKGVQPLLDAVVDYLPSPLDVPAIKGINPDTEEE 296
Query: 490 VVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLV 548
+ S D PF ALAFK+ F G+LT+ R Y G L G + N KK R+ RL+
Sbjct: 297 IERPASDDE--PFAALAFKIMTDPFVGRLTFFRVYSGVLESGSYVLNTTKGKKERIGRLL 354
Query: 549 RLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESIYVADPVVSMSIKAV 607
++H+N+ E+++EV AGDI A G+ D +GDT + D+ I LES+ +PV+S++++
Sbjct: 355 QMHANKREEIKEVYAGDIAAAVGLKDTTTGDT-LCDEKAPIILESMEFPEPVISLAVEPK 413
Query: 608 NNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVL 667
D+D A+Q+ +EDPTF D E+ +T++SGMGELHL+I RM+RE+ +
Sbjct: 414 TKADQDKMGLALQKLAEEDPTFRVETDEETGQTIISGMGELHLDIIVDRMKREFKVEANV 473
Query: 668 GKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNV 727
G P+VA++ET+ + + + +KKQSGG GQYG V EP EF+++ VG +
Sbjct: 474 GAPQVAYRETITKSVEAEGKYKKQSGGRGQYGDVWIEFEPNEE--GKGFEFVNKIVGGVI 531
Query: 728 PKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAY 787
PK ++PA+ KG ++ + G L+G + V+ L DG H VDS+E++F +AA A+K+A
Sbjct: 532 PKEYIPAVEKGLEEAMKNGVLAGYPMVDVKATLYDGSYHDVDSSELAFKIAASMALKEAA 591
Query: 788 EEGVWQILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYA-----EM 840
++ ILEPIM VE+ TP E+ G V+ + +R G +QG E + + A EM
Sbjct: 592 KKAGPVILEPIMKVEVVTPEEYMGDVIGDLNRRRGQIQGMEARGGAQIVKAFVPLSEM 649
Score = 192 bits (491), Expect = 3e-51
Identities = 66/108 (61%), Positives = 82/108 (75%)
Query: 22 GAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVL 81
A MD ME E++RGITI SAAT WK H INIIDTPGHVDFT+EVER+LRVLDGA+ V
Sbjct: 45 AATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVF 104
Query: 82 CAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
AV GV+ Q+ TV RQ +Y VP I F+NK+DR+GAD +R + Q++ +
Sbjct: 105 DAVSGVEPQSETVWRQADKYGVPRIVFVNKMDRIGADFFRSVEQIKDR 152
Score = 124 bits (313), Expect = 4e-29
Identities = 55/146 (37%), Positives = 90/146 (61%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILEP 938
G ++ + G L+G + V+ L DG H VDS+E++F +AA A+K+A ++ ILEP
Sbjct: 542 GLEEAMKNGVLAGYPMVDVKATLYDGSYHDVDSSELAFKIAASMALKEAAKKAGPVILEP 601
Query: 939 IMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSSTQ 998
IM VE+ TP E+ G V+ + +R G +QG E + + A +PL++MFG+A DLRS+TQ
Sbjct: 602 IMKVEVVTPEEYMGDVIGDLNRRRGQIQGMEARGGAQIVKAFVPLSEMFGYATDLRSATQ 661
Query: 999 GKGEFSMDYSRYSPALPEVQDRLVNE 1024
G+ FSM++ Y + + ++ +
Sbjct: 662 GRATFSMEFDHYEEVPKNIAEEIIKK 687
>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases)
[Translation, ribosomal structure and biogenesis].
Length = 697
Score = 740 bits (1914), Expect = 0.0
Identities = 313/651 (48%), Positives = 433/651 (66%), Gaps = 16/651 (2%)
Query: 195 PIEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGIT 254
P+E IRNIGI AHID+GKTTLTERILFYTG IS++ EV A MD ME E++RGIT
Sbjct: 6 PLERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGA---ATMDWMEQEQERGIT 62
Query: 255 IQSAATYTLWKD-HNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNR 313
I SAAT WK + IN+IDTPGHVDFT+EVER+LRVLDGA++V+ AV GV+ QT TV R
Sbjct: 63 ITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWR 122
Query: 314 QMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQR 373
Q +Y VP I F+NK+DRLGAD Y V+ Q+++++G N +Q+PIG E +G+IDL++
Sbjct: 123 QADKYGVPRILFVNKMDRLGADFYLVVEQLKERLGANPVPVQLPIGAEEEFEGVIDLVEM 182
Query: 374 KAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIK 433
KA+ F G EIPADLK+ AE R++L+E +AE DE L E +LE + +E++IK
Sbjct: 183 KAVAFGD--GAKYEWIEIPADLKEIAEEAREKLLEALAEFDEELMEKYLEGEEPTEEEIK 240
Query: 434 KAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNY-AIENGQEDKKVVL 492
KA+R+ T+ K PVL G+A KNKGVQ LLDAV+DYLP+P +V + + +K V+
Sbjct: 241 KALRKGTIAGKIVPVLCGSAFKNKGVQPLLDAVVDYLPSPLDVPPIKGDLDDEIEKAVLR 300
Query: 493 NPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLH 551
S +G P AL FK+ F G+LT++R Y G L+ G + N KK RV RL+ +H
Sbjct: 301 KASDEG--PLSALVFKIMTDPFVGKLTFVRVYSGTLKSGSEVLNSTKGKKERVGRLLLMH 358
Query: 552 SNEMEDVEEVLAGDIFALFGVDCA-SGDTFVTDKNNSISLESIYVADPVVSMSIKAVNNK 610
NE E+V+EV AGDI AL G+ A +GDT + D+N + LES+ +PV+S++++
Sbjct: 359 GNEREEVDEVPAGDIVALVGLKDATTGDT-LCDENKPVILESMEFPEPVISVAVEPKTKA 417
Query: 611 DRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVLGKP 670
D++ S+A+ + +EDPTF D E+ ET++SGMGELHLEI R++RE+ V +GKP
Sbjct: 418 DQEKLSEALNKLAEEDPTFRVETDEETGETIISGMGELHLEIIVDRLKREFGVEVEVGKP 477
Query: 671 KVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNVPKP 730
+VA++ET+ + + + HKKQSGG GQYG V +EPL + EF+D+ VG VPK
Sbjct: 478 QVAYRETIRKKSEVEGKHKKQSGGPGQYGHVYIEIEPLED--GSGFEFVDKIVGGVVPKE 535
Query: 731 FLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEG 790
++PA+ KGF++ + G L+G V V++ L DG H VDS+E++F +AA A K+A +
Sbjct: 536 YIPAVEKGFREALKSGPLAGYPVVDVKVTLLDGSYHEVDSSEMAFKIAASLAFKEAMLKA 595
Query: 791 VWQILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD--DWVTIYAE 839
+LEPIM VEI+TP E+ G V+ + R G + G E + I AE
Sbjct: 596 KPVLLEPIMKVEITTPEEYMGDVIGDLNSRRGQILGMEQRPGGGLDVIKAE 646
Score = 175 bits (446), Expect = 1e-45
Identities = 67/112 (59%), Positives = 85/112 (75%), Gaps = 1/112 (0%)
Query: 22 GAVMDSMELERQRGITIQSAATYTLWKD-HNINIIDTPGHVDFTVEVERALRVLDGAILV 80
A MD ME E++RGITI SAAT WK + IN+IDTPGHVDFT+EVER+LRVLDGA++V
Sbjct: 47 AATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVV 106
Query: 81 LCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKTSR 132
+ AV GV+ QT TV RQ +Y VP I F+NK+DRLGAD Y V+ Q++++
Sbjct: 107 VDAVEGVEPQTETVWRQADKYGVPRILFVNKMDRLGADFYLVVEQLKERLGA 158
Score = 156 bits (396), Expect = 2e-39
Identities = 59/152 (38%), Positives = 91/152 (59%), Gaps = 2/152 (1%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILEP 938
GF++ + G L+G V V++ L DG H VDS+E++F +AA A K+A + +LEP
Sbjct: 543 GFREALKSGPLAGYPVVDVKVTLLDGSYHEVDSSEMAFKIAASLAFKEAMLKAKPVLLEP 602
Query: 939 IMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD--DWVTIYAEIPLNDMFGFAGDLRSS 996
IM VEI+TP E+ G V+ + R G + G E + I AE+PL +MFG+A DLRS+
Sbjct: 603 IMKVEITTPEEYMGDVIGDLNSRRGQILGMEQRPGGGLDVIKAEVPLAEMFGYATDLRSA 662
Query: 997 TQGKGEFSMDYSRYSPALPEVQDRLVNEYQEA 1028
TQG+ FSM++ Y V + ++ + ++
Sbjct: 663 TQGRASFSMEFDHYEEVPSSVAEEIIAKRRKR 694
>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 = 738 bits (1908), Expect = 0.0
Identities = 306/648 (47%), Positives = 426/648 (65%), Gaps = 11/648 (1%)
Query: 195 PIEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGIT 254
+ RNIGISAHID+GKTT TERILFYTGRI ++ EV D A MD ME E++RGIT
Sbjct: 6 DLNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEV--HDGA-ATMDWMEQEKERGIT 62
Query: 255 IQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQ 314
I SAAT WK H INIIDTPGHVDFTVEVER+LRVLDGA+ VL AVGGVQ Q+ TV RQ
Sbjct: 63 ITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQ 122
Query: 315 MKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRK 374
RY+VP IAF+NK+D+ GA+ RV+NQ++Q++G NA +Q+PIG G+IDL++ K
Sbjct: 123 ANRYEVPRIAFVNKMDKTGANFLRVVNQIKQRLGANAVPIQLPIGAEDNFIGVIDLVEMK 182
Query: 375 AIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKK 434
A +F G G +EIP+DL ++A+ R+ L+E VAE DE L E +LE + ++ ++IK
Sbjct: 183 AYFFNGDKGTKAIEKEIPSDLLEQAKELRENLVEAVAEFDEELMEKYLEGEELTIEEIKN 242
Query: 435 AIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNP 494
AIR+ L +F PVL G+A KNKGVQ LLDAV+DYLP+P +V + +K++
Sbjct: 243 AIRKGVLNCEFFPVLCGSAFKNKGVQLLLDAVVDYLPSPTDVPAIKGIDPDTEKEIERKA 302
Query: 495 SRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSN 553
S D PF ALAFK+ F GQLT++R Y G L+ G + N R +KK RV RLV++H+N
Sbjct: 303 SDDE--PFSALAFKVATDPFVGQLTFVRVYSGVLKSGSYVKNSRKNKKERVGRLVKMHAN 360
Query: 554 EMEDVEEVLAGDIFALFGVDCAS-GDTFVTDKNNSISLESIYVADPVVSMSIKAVNNKDR 612
E+++EV AGDI A G+ + GDT K + + LE + +PV+S++++ D+
Sbjct: 361 NREEIKEVRAGDICAAIGLKDTTTGDTLCDPKID-VILERMEFPEPVISLAVEPKTKADQ 419
Query: 613 DNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVLGKPKV 672
+ A+ + +EDPTF F DPE+ +T+++GMGELHL+I RM+RE+ +G P+V
Sbjct: 420 EKMGIALGKLAEEDPTFRTFTDPETGQTIIAGMGELHLDIIVDRMKREFKVEANVGAPQV 479
Query: 673 AFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNVPKPFL 732
A++ET+ + + H KQSGG GQYG V EPL P EF++E G +P+ ++
Sbjct: 480 AYRETIRSKVEVEGKHAKQSGGRGQYGHVKIRFEPLEPKG---YEFVNEIKGGVIPREYI 536
Query: 733 PAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVW 792
PA+ KG ++ E G L+G V ++ L DG H VDS+E++F LAA A K+A ++
Sbjct: 537 PAVDKGLQEAMESGPLAGYPVVDIKATLFDGSYHDVDSSEMAFKLAASLAFKEAGKKANP 596
Query: 793 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEM 840
+LEPIM VE+ P E+ G V+ ++ R GI++G E + + I AE+
Sbjct: 597 VLLEPIMKVEVEVPEEYMGDVMGDLSSRRGIIEGMEARGNVQKIKAEV 644
Score = 189 bits (481), Expect = 4e-50
Identities = 73/107 (68%), Positives = 87/107 (81%)
Query: 23 AVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLC 82
A MD ME E++RGITI SAAT WK H INIIDTPGHVDFTVEVER+LRVLDGA+ VL
Sbjct: 48 ATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLD 107
Query: 83 AVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
AVGGVQ Q+ TV RQ RY+VP IAF+NK+D+ GA+ RV+NQ++Q+
Sbjct: 108 AVGGVQPQSETVWRQANRYEVPRIAFVNKMDKTGANFLRVVNQIKQR 154
Score = 139 bits (351), Expect = 9e-34
Identities = 62/152 (40%), Positives = 92/152 (60%), Gaps = 4/152 (2%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILEP 938
G ++ E G L+G V ++ L DG H VDS+E++F LAA A K+A ++ +LEP
Sbjct: 542 GLQEAMESGPLAGYPVVDIKATLFDGSYHDVDSSEMAFKLAASLAFKEAGKKANPVLLEP 601
Query: 939 IMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSSTQ 998
IM VE+ P E+ G V+ ++ R GI++G E + + I AE+PL++MFG+A DLRS TQ
Sbjct: 602 IMKVEVEVPEEYMGDVMGDLSSRRGIIEGMEARGNVQKIKAEVPLSEMFGYATDLRSFTQ 661
Query: 999 GKGEFSMDYSRYSPALPEVQDRLVNEYQEATN 1030
G+G +SM++ Y EV + NE E
Sbjct: 662 GRGTYSMEFLHYG----EVPSSVANEIIEKRK 689
>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 651 bits (1681), Expect = 0.0
Identities = 278/651 (42%), Positives = 405/651 (62%), Gaps = 13/651 (1%)
Query: 193 HKPIEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRG 252
P+ IRNIGI AHID+GKTTLTERILFYTG+I +M EV ++ V D M E++RG
Sbjct: 2 EMPLMQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEV---EDGTTVTDWMPQEQERG 58
Query: 253 ITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVN 312
ITI+SAAT W +H IN+IDTPGH+DFT EVER+LRVLDGA++V AV GVQ QT TV
Sbjct: 59 ITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW 118
Query: 313 RQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQ 372
RQ RY +P + FINK+DR+GAD ++V+ + ++ G LQ+PIG +G++DLI
Sbjct: 119 RQADRYGIPRLIFINKMDRVGADLFKVLEDIEERFGKRPLPLQLPIGSEDGFEGVVDLIT 178
Query: 373 RKAIYF-EGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDD 431
++F EG G + IP +L +E E R++LIE +AE D+ L E++LE + +S +
Sbjct: 179 EPELHFSEGDGGSTVEEGPIPEELLEEVEEAREKLIEALAEFDDELLELYLEGEELSAEQ 238
Query: 432 IKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVV 491
++ +R T + PVL G+ALKN G++ LLDAV+DYLP+P EV K V
Sbjct: 239 LRAPLREGTRSGHLVPVLFGSALKNIGIEPLLDAVVDYLPSPLEVPPPRGSKDN-GKPVK 297
Query: 492 LNPSRDGKHPFIALAFKLEA-GKFGQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRL 550
++P + P +AL FK++ G+LTY+R Y G LR G +YN K+ +V RL RL
Sbjct: 298 VDPDPEK--PLLALVFKVQYDPYAGKLTYLRVYSGTLRAGSQLYNGTGGKREKVGRLFRL 355
Query: 551 HSNEMEDVEEVLAGDIFALFGVDCA-SGDTFVTDKNNSISLESIYVADPVVSMSIKAVNN 609
N+ E+V+ AGDI A+ G+ +GDT + D + + LE + +PVVS++++
Sbjct: 356 QGNKREEVDRAKAGDIVAVAGLKELETGDT-LHDSADPVLLELLTFPEPVVSLAVEPERR 414
Query: 610 KDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVLGK 669
D ++A+++ EDP+ D E+ +T++SGMGELHLE+ +R+ RE+ V GK
Sbjct: 415 GDEQKLAEALEKLVWEDPSLRVEEDEETGQTILSGMGELHLEVALERLRREFKLEVNTGK 474
Query: 670 PKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNVPK 729
P+VA++ET+ + + Y HKKQ GG GQ+G V +EPL A F+ + VG +P+
Sbjct: 475 PQVAYRETIRKMAEGVYRHKKQFGGKGQFGEVHLRVEPLERGAG--FIFVSKVVGGAIPE 532
Query: 730 PFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEE 789
+PA+ KG ++ G L+G V +R+ + DG H VDS+E +F AA A +A+ +
Sbjct: 533 ELIPAVEKGIREALASGPLAGYPVTDLRVTVLDGKYHPVDSSESAFKAAARKAFLEAFRK 592
Query: 790 GVWQILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDW-VTIYAE 839
+LEPIM +EI+ P E G VL +++R G ++G E + D V + AE
Sbjct: 593 ANPVLLEPIMELEITVPTEHVGDVLGDLSQRRGRIEGTEPRGDGEVLVKAE 643
Score = 168 bits (427), Expect = 3e-43
Identities = 62/110 (56%), Positives = 82/110 (74%)
Query: 23 AVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLC 82
V D M E++RGITI+SAAT W +H IN+IDTPGH+DFT EVER+LRVLDGA++V
Sbjct: 46 TVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFD 105
Query: 83 AVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKTSR 132
AV GVQ QT TV RQ RY +P + FINK+DR+GAD ++V+ + ++ +
Sbjct: 106 AVTGVQPQTETVWRQADRYGIPRLIFINKMDRVGADLFKVLEDIEERFGK 155
Score = 148 bits (376), Expect = 7e-37
Identities = 56/145 (38%), Positives = 88/145 (60%), Gaps = 1/145 (0%)
Query: 878 HGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILE 937
G ++ G L+G V +R+ + DG H VDS+E +F AA A +A+ + +LE
Sbjct: 540 KGIREALASGPLAGYPVTDLRVTVLDGKYHPVDSSESAFKAAARKAFLEAFRKANPVLLE 599
Query: 938 PIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDW-VTIYAEIPLNDMFGFAGDLRSS 996
PIM +EI+ P E G VL +++R G ++G E + D V + AE PL ++FG+A LRS
Sbjct: 600 PIMELEITVPTEHVGDVLGDLSQRRGRIEGTEPRGDGEVLVKAEAPLAELFGYATRLRSM 659
Query: 997 TQGKGEFSMDYSRYSPALPEVQDRL 1021
T+G+G F+M++S + P P VQ ++
Sbjct: 660 TKGRGSFTMEFSHFDPVPPAVQKKV 684
>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 = 508 bits (1311), Expect = e-174
Identities = 169/273 (61%), Positives = 209/273 (76%), Gaps = 3/273 (1%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAAT 260
NIGI AHID+GKTT TERIL+YTGRI ++ EV G GA MD ME ER+RGITIQSAAT
Sbjct: 1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGG---GATMDWMEQERERGITIQSAAT 57
Query: 261 YTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
WKDH INIIDTPGHVDFT+EVER+LRVLDGA+ V AV GVQ QT TV RQ RY V
Sbjct: 58 TCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVQPQTETVWRQADRYGV 117
Query: 321 PCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKAIYFEG 380
P IAF+NK+DR GAD YRV+ Q+R+K+G N LQ+PIG + +G++DLI+ KA+Y++G
Sbjct: 118 PRIAFVNKMDRTGADFYRVVEQIREKLGANPVPLQLPIGAEDDFEGVVDLIEMKALYWDG 177
Query: 381 PLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRRST 440
LG+ + +IP DL +EAE R+ELIE +AE D+ L E +LE + I+E++IK AIR+ T
Sbjct: 178 ELGEKIEETDIPEDLLEEAEEAREELIETLAEVDDELMEKYLEGEEITEEEIKAAIRKGT 237
Query: 441 LTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNP 473
+ K PVL G+A KNKGVQ LLDAV+DYLP+P
Sbjct: 238 IANKIVPVLCGSAFKNKGVQPLLDAVVDYLPSP 270
Score = 245 bits (627), Expect = 6e-74
Identities = 80/115 (69%), Positives = 89/115 (77%), Gaps = 3/115 (2%)
Query: 15 VRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVL 74
V G GA MD ME ER+RGITIQSAAT WKDH INIIDTPGHVDFT+EVER+LRVL
Sbjct: 32 VHGG---GATMDWMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVL 88
Query: 75 DGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
DGA+ V AV GVQ QT TV RQ RY VP IAF+NK+DR GAD YRV+ Q+R+K
Sbjct: 89 DGAVAVFDAVAGVQPQTETVWRQADRYGVPRIAFVNKMDRTGADFYRVVEQIREK 143
>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 = 262 bits (672), Expect = 3e-75
Identities = 233/854 (27%), Positives = 369/854 (43%), Gaps = 180/854 (21%)
Query: 197 EYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQ 256
++IRNIGI AHID GKTTL++ +L G ISE E+ G+ +D E E++RGITI
Sbjct: 17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISE--ELAGQQ---LYLDFDEQEQERGITIN 71
Query: 257 SAATYTLW----KDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVN 312
+A + ++ IN+IDTPGHVDF +V RA+R +DGAI+V+CAV GV QT TV
Sbjct: 72 AANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVL 131
Query: 313 RQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQ 372
RQ + +V + FINK+DRL IN+++ P L II +
Sbjct: 132 RQALKENVKPVLFINKVDRL-------INELKLT----------PQELQERFIKIITEVN 174
Query: 373 RKAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEM---------FLE 423
+ L + EE R + V +G G ++
Sbjct: 175 K--------LIKAMAPEEF-----------RDKWKVRVEDGSVAFGSAYYNWAISVPSMK 215
Query: 424 EKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAI-- 481
+ I DI K + A K+ Q +LD V+ +LP+P E Y I
Sbjct: 216 KTGIGFKDIYKYCKEDKQKE--------LAKKSPLHQVVLDMVIRHLPSPIEAQKYRIPV 267
Query: 482 ----ENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNV 536
+ E K +LN D K P + K+ K G++ R Y G +R G +Y V
Sbjct: 268 IWKGDLNSEVGKAMLNC--DPKGPLALMITKIVVDKHAGEVAVGRLYSGTIRPGMEVYIV 325
Query: 537 RTDKKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV-DCASGDTFVTDKNNSISLESI-Y 594
K R+ ++ E +V+E+ AG+I A+ G+ D +G+T T N ESI +
Sbjct: 326 DRKAKARIQQVGVYMGPERVEVDEIPAGNIVAVIGLKDAVAGETICTTVENITPFESIKH 385
Query: 595 VADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYA 654
+++PVV+++I+A N KD + +++ KEDPT H + E+ E L+SGMGELHLEI
Sbjct: 386 ISEPVVTVAIEAKNTKDLPKLIEVLRQVAKEDPTVHVEINEETGEHLISGMGELHLEIIV 445
Query: 655 QRMEREYNCPVVLGKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANT 714
+++ +Y V P V ++ET+ +G V E P+ +
Sbjct: 446 EKIREDYGLDVETSPPIVVYRETV----------------TGTSPVV----EGKSPNKHN 485
Query: 715 KLEFIDETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEIS 774
+ + E P ++I+ FK+ ++ ++M E
Sbjct: 486 RFYIVVE--------PLEESVIQAFKE---------GKIVDMKM----------KKKERR 518
Query: 775 FILAAHGAMKQAYEEGVWQILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWV 834
+L G M V + ++G++ +T+ GI +E K+ +
Sbjct: 519 RLLIEAG-MDSEEAARVEEY--------------YEGNLFINMTR--GIQYLDETKELIL 561
Query: 835 TIYAEMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAH-GFKQMCEKGCLSGSR 893
+ E G ++ + GV++ L D H A H G Q+
Sbjct: 562 EGFREAMRNGPIAREKCMGVKVKLMDAKLHED---------AVHRGPAQV---------- 602
Query: 894 VAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEGVWQILEPIMSVEISTPIEFQGS 953
+ VR AM QA +LEP V I+ P + G+
Sbjct: 603 IPAVRS-------------------GIFAAMMQAKP----VLLEPYQKVFINVPQDMMGA 639
Query: 954 VLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSSTQGKGEFSMDYSRYSPA 1013
+ R G + + + D VTI A+ P+ +MFGFAG +R +T G+ +S +++ +
Sbjct: 640 ATREIQNRRGQILEMKQEGDMVTIIAKAPVAEMFGFAGAIRGATSGRCLWSTEHAGFELV 699
Query: 1014 LPEVQDRLVNEYQE 1027
+Q V E ++
Sbjct: 700 PQNLQQEFVMEVRK 713
Score = 95.0 bits (236), Expect = 8e-20
Identities = 56/125 (44%), Positives = 74/125 (59%), Gaps = 18/125 (14%)
Query: 9 HIKQEQVRGKDNV--GAVMDSMEL------------ERQRGITIQSAATYTLW----KDH 50
HI + DN+ GA M S EL E++RGITI +A + ++
Sbjct: 27 HIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEY 86
Query: 51 NINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFIN 110
IN+IDTPGHVDF +V RA+R +DGAI+V+CAV GV QT TV RQ + +V + FIN
Sbjct: 87 LINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKPVLFIN 146
Query: 111 KLDRL 115
K+DRL
Sbjct: 147 KVDRL 151
>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 = 247 bits (632), Expect = 9e-75
Identities = 102/273 (37%), Positives = 157/273 (57%), Gaps = 5/273 (1%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAAT 260
NI + H SGKTTL E +L+ TG I + V ++ V D E++R ++I+++
Sbjct: 1 NIALVGHSGSGKTTLAEALLYATGAIDRLGRV---EDGNTVSDYDPEEKKRKMSIETSVA 57
Query: 261 YTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
W H IN+IDTPG+ DF E ALR +D A++V+ A GV+ T V + +
Sbjct: 58 PLEWNGHKINLIDTPGYADFVGETLSALRAVDAALIVVEAQSGVEVGTEKVWEFLDDAKL 117
Query: 321 PCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKAIYFEG 380
P I FINK+DR AD + + +R+ G +Q+PIG G E G++DL+ KA ++
Sbjct: 118 PRIIFINKMDRARADFDKTLAALREAFGRPVVPIQLPIGEGDEFTGVVDLLSEKAYRYDP 177
Query: 381 PLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRRST 440
G+ EIP +LK++ R+EL+E VAE DE L E +LEE ++E++++ +RR+
Sbjct: 178 --GEPSVEIEIPEELKEKVAEAREELLEAVAETDEELMEKYLEEGELTEEELRAGLRRAL 235
Query: 441 LTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNP 473
PV G+AL GV+ LLDA+++ P+P
Sbjct: 236 RAGLIVPVFFGSALTGIGVRRLLDALVELAPSP 268
Score = 106 bits (266), Expect = 3e-25
Identities = 40/110 (36%), Positives = 61/110 (55%)
Query: 23 AVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLC 82
V D E++R ++I+++ W H IN+IDTPG+ DF E ALR +D A++V+
Sbjct: 37 TVSDYDPEEKKRKMSIETSVAPLEWNGHKINLIDTPGYADFVGETLSALRAVDAALIVVE 96
Query: 83 AVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKTSR 132
A GV+ T V + +P I FINK+DR AD + + +R+ R
Sbjct: 97 AQSGVEVGTEKVWEFLDDAKLPRIIFINKMDRARADFDKTLAALREAFGR 146
>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 = 244 bits (626), Expect = 2e-74
Identities = 105/271 (38%), Positives = 147/271 (54%), Gaps = 36/271 (13%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAAT 260
NIGI AH+D+GKTTLTE +L+ +G I E+ V D DSMELERQRGITI SA
Sbjct: 1 NIGILAHVDAGKTTLTESLLYTSGAIRELGSV---DKGTTRTDSMELERQRGITIFSAVA 57
Query: 261 YTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
W+D +NIIDTPGH+DF EVER+L VLDGAILV+ AV GVQ+QT + R +++ ++
Sbjct: 58 SFQWEDTKVNIIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILFRLLRKLNI 117
Query: 321 PCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKAIYFEG 380
P I F+NK+DR GAD +V ++++K+ + +Q +
Sbjct: 118 PTIIFVNKIDRAGADLEKVYQEIKEKLSPDIVPMQ-----------------------KV 154
Query: 381 PLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRRST 440
L N+ D E IE VAEG++ L E +L + E ++ +
Sbjct: 155 GLYPNICDTNNIDD----------EQIETVAEGNDELLEKYLSGGPLEELELDNELSARI 204
Query: 441 LTRKFTPVLVGTALKNKGVQTLLDAVLDYLP 471
PV G+ALK G+ LL+ + + P
Sbjct: 205 QKASLFPVYHGSALKGIGIDELLEGITNLFP 235
Score = 164 bits (417), Expect = 8e-46
Identities = 62/113 (54%), Positives = 81/113 (71%)
Query: 19 DNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAI 78
D DSMELERQRGITI SA W+D +NIIDTPGH+DF EVER+L VLDGAI
Sbjct: 33 DKGTTRTDSMELERQRGITIFSAVASFQWEDTKVNIIDTPGHMDFIAEVERSLSVLDGAI 92
Query: 79 LVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKTS 131
LV+ AV GVQ+QT + R +++ ++P I F+NK+DR GAD +V ++++K S
Sbjct: 93 LVISAVEGVQAQTRILFRLLRKLNIPTIIFVNKIDRAGADLEKVYQEIKEKLS 145
>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed.
Length = 731
Score = 250 bits (641), Expect = 7e-71
Identities = 169/508 (33%), Positives = 255/508 (50%), Gaps = 82/508 (16%)
Query: 196 IEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITI 255
E IRNIGI AHID GKTTL++ +L G ISE E+ G+ +D E E+ RGITI
Sbjct: 17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISE--ELAGE---QLALDFDEEEQARGITI 71
Query: 256 QSAATYTLW-----KDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT 310
+ AA ++ K++ IN+IDTPGHVDF +V RA+R +DGAI+V+ AV GV QT T
Sbjct: 72 K-AANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTET 130
Query: 311 VNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDL 370
V RQ R V + FINK+D R+I ++ K+ ++ L K + L
Sbjct: 131 VLRQALRERVKPVLFINKVD-------RLIKEL--KLTPQ----EMQQRLLKIIKDVNKL 177
Query: 371 IQRKAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEM---------F 421
I+ A E K + ++ V +G G
Sbjct: 178 IKGMA----------------------PEEFKEKWKVD-VEDGTVAFGSALYNWAISVPM 214
Query: 422 LEEKSISEDDIKKAIR---RSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTN 478
+++ I DI + L K P+ + +LD V+ +LPNP E
Sbjct: 215 MQKTGIKFKDIIDYYEKGKQKELAEK-APL----------HEVVLDMVVKHLPNPIEAQK 263
Query: 479 YAIEN---GQEDKKV---VLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGE 531
Y I G + +V +LN +G P + + + G++ R + G LRKG+
Sbjct: 264 YRIPKIWKGDLNSEVGKAMLNCDPNG--PLVMMVTDIIVDPHAGEVATGRVFSGTLRKGQ 321
Query: 532 MIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGVDCA-SGDTFVTDKNNSISL 590
+Y V KK RV ++ E E+VEE+ AG+I A+ G+ A +G+T V +
Sbjct: 322 EVYLVGAKKKNRVQQVGIYMGPEREEVEEIPAGNIAAVTGLKDARAGET-VVSVEDMTPF 380
Query: 591 ESI-YVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELH 649
ES+ ++++PVV+++I+A N KD + +++ KEDPT + E+ E L+SGMGELH
Sbjct: 381 ESLKHISEPVVTVAIEAKNPKDLPKLIEVLRQLAKEDPTLVVKINEETGEHLLSGMGELH 440
Query: 650 LEIYAQRMEREYNCPVVLGKPKVAFKET 677
LE+ R++R+Y VV +P V ++ET
Sbjct: 441 LEVITYRIKRDYGIEVVTSEPIVVYRET 468
Score = 126 bits (320), Expect = 7e-30
Identities = 72/189 (38%), Positives = 91/189 (48%), Gaps = 54/189 (28%)
Query: 145 IEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHETSRWISNESLS-EHKPIEYIRNIG 203
E IRNIGI AHID GKTTL++ +L G ISE ++ E L+ + E R I
Sbjct: 17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEE------LAGEQLALDFDEEEQARGIT 70
Query: 204 ISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTL 263
I A +S +HE G
Sbjct: 71 IKA-----------------ANVSMVHEYEG----------------------------- 84
Query: 264 WKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCI 323
K++ IN+IDTPGHVDF +V RA+R +DGAI+V+ AV GV QT TV RQ R V +
Sbjct: 85 -KEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVKPV 143
Query: 324 AFINKLDRL 332
FINK+DRL
Sbjct: 144 LFINKVDRL 152
Score = 116 bits (292), Expect = 2e-26
Identities = 50/97 (51%), Positives = 65/97 (67%), Gaps = 6/97 (6%)
Query: 24 VMDSMELERQRGITIQSAATYTLW-----KDHNINIIDTPGHVDFTVEVERALRVLDGAI 78
+D E E+ RGITI+ AA ++ K++ IN+IDTPGHVDF +V RA+R +DGAI
Sbjct: 57 ALDFDEEEQARGITIK-AANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAI 115
Query: 79 LVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRL 115
+V+ AV GV QT TV RQ R V + FINK+DRL
Sbjct: 116 VVVDAVEGVMPQTETVLRQALRERVKPVLFINKVDRL 152
Score = 84.5 bits (210), Expect = 1e-16
Identities = 48/160 (30%), Positives = 83/160 (51%), Gaps = 20/160 (12%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAH-G------AMKQAYEEG 931
GF++ ++G L+ V GV++ L D H D A H G A++ A
Sbjct: 565 GFREAMKEGPLAAEPVRGVKVRLHDAKLHE-D--------AIHRGPAQVIPAVRNAIFAA 615
Query: 932 VWQ----ILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMF 987
+ +LEPI V+I+ P ++ G+V + R G + E + D I AE P+ +MF
Sbjct: 616 MLTAKPTLLEPIQKVDINVPQDYMGAVTREIQGRRGKILDMEQEGDMAIIEAEAPVAEMF 675
Query: 988 GFAGDLRSSTQGKGEFSMDYSRYSPALPEVQDRLVNEYQE 1027
GFAG++RS+T+G+ +S +++ + P +Q +V + +E
Sbjct: 676 GFAGEIRSATEGRALWSTEFAGFEPVPDSLQLDIVRQIRE 715
Score = 44.5 bits (106), Expect = 3e-04
Identities = 39/133 (29%), Positives = 60/133 (45%), Gaps = 20/133 (15%)
Query: 718 FIDETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFIL 777
FID T G + II+GF++ ++G L+ V GV++ L D H D
Sbjct: 545 FIDMTKGIQYLNEVMELIIEGFREAMKEGPLAAEPVRGVKVRLHDAKLHE-D-------- 595
Query: 778 AAH-G------AMKQAYEEGVWQ----ILEPIMSVEISTPIEFQGSVLNLVTKRHGILQG 826
A H G A++ A + +LEPI V+I+ P ++ G+V + R G +
Sbjct: 596 AIHRGPAQVIPAVRNAIFAAMLTAKPTLLEPIQKVDINVPQDYMGAVTREIQGRRGKILD 655
Query: 827 NEGKDDWVTIYAE 839
E + D I AE
Sbjct: 656 MEQEGDMAIIEAE 668
>gnl|CDD|226593 COG4108, PrfC, Peptide chain release factor RF-3 [Translation,
ribosomal structure and biogenesis].
Length = 528
Score = 226 bits (579), Expect = 3e-64
Identities = 140/475 (29%), Positives = 227/475 (47%), Gaps = 32/475 (6%)
Query: 200 RNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGK-DNVGAVMDSMELERQRGITIQSA 258
R I +H D+GKTTLTE++L + G I E V+G+ A D ME+E+QRGI++ S+
Sbjct: 13 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSS 72
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY 318
+ D +N++DTPGH DF+ + R L +D A++V+ A G++ QTL + +
Sbjct: 73 VMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLR 132
Query: 319 DVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKAIYF 378
D+P FINKLDR G DP +++++ +++G A + PIG+G + KG+ L + +
Sbjct: 133 DIPIFTFINKLDREGRDPLELLDEIEEELGIQCAPITWPIGMGKDFKGVYHLYNDEVELY 192
Query: 379 EGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRR 438
E D R +I L E L E EE + + +
Sbjct: 193 ESGHTDQERRADIVKGLDNPELDALLG---------EDLAEQLREELELVQGAGNEFDLE 243
Query: 439 STLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDG 498
+ L + TPV G+AL N GV LDA++D+ P+P Q D + V P+ D
Sbjct: 244 AFLAGELTPVFFGSALGNFGVDHFLDALVDWAPSPRAR--------QADTREV-EPTED- 293
Query: 499 KHPFIALAFKLEAGKFGQ----LTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNE 554
F FK++A + + +MR GK +G + +VRT K V++S + + +
Sbjct: 294 --KFSGFVFKIQANMDPKHRDRIAFMRVCSGKFERGMKVTHVRTGKDVKLSDALTFMAQD 351
Query: 555 MEDVEEVLAGDIFALF--GVDCASGDTFVTDKNNSISLESIYVADPVVSMSIKAVNNKDR 612
E VEE AGDI L G GDTF + + I P + ++ + +
Sbjct: 352 RETVEEAYAGDIIGLHNHGT-IQIGDTFTEGEK--LKFTGIPNFAPELFRRVRLKDPLKQ 408
Query: 613 DNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVL 667
K +++ +E F + + ++ +G+L E+ R++ EYN V
Sbjct: 409 KQLKKGLEQLAEEGAV-QVFKPLDGNDLILGAVGQLQFEVVQARLKNEYNVEAVF 462
Score = 94.2 bits (235), Expect = 7e-20
Identities = 43/116 (37%), Positives = 72/116 (62%), Gaps = 1/116 (0%)
Query: 15 VRGK-DNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRV 73
V+G+ A D ME+E+QRGI++ S+ + D +N++DTPGH DF+ + R L
Sbjct: 45 VKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPGHEDFSEDTYRTLTA 104
Query: 74 LDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
+D A++V+ A G++ QTL + + D+P FINKLDR G DP +++++ ++
Sbjct: 105 VDSAVMVIDAAKGIEPQTLKLFEVCRLRDIPIFTFINKLDREGRDPLELLDEIEEE 160
Score = 41.5 bits (98), Expect = 0.002
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 10/50 (20%)
Query: 149 RNIGISAHIDSGKTTLTERILFYTGRISE----------MHETSRWISNE 188
R I +H D+GKTTLTE++L + G I E H S W+ E
Sbjct: 13 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIE 62
>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 = 198 bits (507), Expect = 1e-58
Identities = 73/167 (43%), Positives = 96/167 (57%), Gaps = 8/167 (4%)
Query: 199 IRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA 258
RNIGI H+D GKTTLT+ +L+ TG IS+ V+D ++ ER+RGITI+ A
Sbjct: 3 HRNIGIIGHVDHGKTTLTDALLYVTGAISK-----ESAKGARVLDKLKEERERGITIKIA 57
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY 318
A K INIIDTPGHVDFT E+ R DGAILV+ AV GV QT K
Sbjct: 58 AVSFETKKRLINIIDTPGHVDFTKEMIRGASQADGAILVVDAVEGVMPQTREHLLLAKTL 117
Query: 319 DVPCIAFINKLDRL-GADPYRVINQMRQKVGHNAAF--LQIPIGLGS 362
VP I FINK+DR+ A+ V+ ++ +++ F +P+ GS
Sbjct: 118 GVPIIVFINKIDRVDDAELEEVVEEISRELLEKYGFGGETVPVVPGS 164
Score = 150 bits (381), Expect = 1e-41
Identities = 51/115 (44%), Positives = 67/115 (58%), Gaps = 1/115 (0%)
Query: 16 RGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLD 75
+ V+D ++ ER+RGITI+ AA K INIIDTPGHVDFT E+ R D
Sbjct: 32 KESAKGARVLDKLKEERERGITIKIAAVSFETKKRLINIIDTPGHVDFTKEMIRGASQAD 91
Query: 76 GAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRL-GADPYRVINQMRQK 129
GAILV+ AV GV QT K VP I FINK+DR+ A+ V+ ++ ++
Sbjct: 92 GAILVVDAVEGVMPQTREHLLLAKTLGVPIIVFINKIDRVDDAELEEVVEEISRE 146
Score = 37.9 bits (89), Expect = 0.011
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 446 TPVLVGTALKNKGVQTLLDAVLDYLP 471
PV+ G+AL +G+ LL+A+ YLP
Sbjct: 158 VPVVPGSALTGEGIDELLEALDLYLP 183
>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 = 197 bits (501), Expect = 7e-54
Identities = 132/474 (27%), Positives = 219/474 (46%), Gaps = 30/474 (6%)
Query: 200 RNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGK-DNVGAVMDSMELERQRGITIQSA 258
R I +H D+GKTT+TE++L Y G I V+G+ A D ME+E+QRGI+I ++
Sbjct: 12 RTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTS 71
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY 318
++D +N++DTPGH DF+ + R L +D ++V+ A GV+++T + +
Sbjct: 72 VMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLR 131
Query: 319 DVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKAIYF 378
D P F+NKLDR DP +++++ ++ N A + PIG G KG+ L++ + +
Sbjct: 132 DTPIFTFMNKLDRDIRDPLELLDEVENELKINCAPITWPIGCGKLFKGVYHLLKDETYLY 191
Query: 379 EGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRR 438
+ G ++ L A A G ++ + +E + E +
Sbjct: 192 QSGTGGTIQAVRQVKGLNNPALD--------SAVGSDLAQQ-LRDELELVEGASNEFDLA 242
Query: 439 STLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDG 498
+ + TPV GTAL N GV LD +L + P P E Q D + V P+ +
Sbjct: 243 AFHGGEMTPVFFGTALGNFGVDHFLDGLLQWAPKP--------EARQSDTRTV-EPTEE- 292
Query: 499 KHPFIALAFKLEAG----KFGQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNE 554
F FK++A ++ +MR GK KG + +VRT K V +S + + +
Sbjct: 293 --KFSGFVFKIQANMDPKHRDRVAFMRVVSGKYEKGMKLKHVRTGKDVVISDALTFMAGD 350
Query: 555 MEDVEEVLAGDIFALFGVDCAS-GDTFVTDKNNSISLESIYVADPVVSMSIKAVNNKDRD 613
E VEE AGDI L GDTF + I I P + I+ + +
Sbjct: 351 REHVEEAYAGDIIGLHNHGTIQIGDTFTQGE--KIKFTGIPNFAPELFRRIRLKDPLKQK 408
Query: 614 NFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVL 667
K + + ++E F ++ + +V +G L ++ R++ EYN
Sbjct: 409 QLLKGLVQLSEEGAV-QVFRPLDNNDLIVGAVGVLQFDVVVYRLKEEYNVEARY 461
Score = 83.0 bits (205), Expect = 2e-16
Identities = 39/115 (33%), Positives = 68/115 (59%), Gaps = 1/115 (0%)
Query: 15 VRGK-DNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRV 73
V+G+ A D ME+E+QRGI+I ++ ++D +N++DTPGH DF+ + R L
Sbjct: 44 VKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTA 103
Query: 74 LDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQ 128
+D ++V+ A GV+++T + + D P F+NKLDR DP +++++
Sbjct: 104 VDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIFTFMNKLDRDIRDPLELLDEVEN 158
>gnl|CDD|179105 PRK00741, prfC, peptide chain release factor 3; Provisional.
Length = 526
Score = 187 bits (477), Expect = 1e-50
Identities = 146/505 (28%), Positives = 231/505 (45%), Gaps = 92/505 (18%)
Query: 200 RNIGISAHIDSGKTTLTERILFYTGRISEMHEVRG-KDNVGAVMDSMELERQRGITIQSA 258
R I +H D+GKTTLTE++L + G I E V+G K A D ME+E+QRGI++ S+
Sbjct: 11 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSS 70
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQM 315
++D IN++DTPGH DF+ + R L +D A++V+ A GV+ QT + V R
Sbjct: 71 VMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRL- 129
Query: 316 KRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKA 375
R D P FINKLDR G +P +++++ + +G A + PIG+G KG+ DL +
Sbjct: 130 -R-DTPIFTFINKLDRDGREPLELLDEIEEVLGIACAPITWPIGMGKRFKGVYDLYNDEV 187
Query: 376 IYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHV-----AEGDEILGEMFLEEKSISED 430
++ QE +E + E DE+LGE E+ +
Sbjct: 188 ELYQ-----------------PGEGHTIQE-VEIIKGLDNPELDELLGEDLAEQ---LRE 226
Query: 431 DI-----------KKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNPGEVTNY 479
++ +A L + TPV G+AL N GVQ LDA +++ P P
Sbjct: 227 ELELVQGASNEFDLEAF----LAGELTPVFFGSALNNFGVQEFLDAFVEWAPAPQP---- 278
Query: 480 AIENGQEDKKVVLNPSRDGKHPFIALAFKLEAG---------KFGQLTYMRCYQGKLRKG 530
Q D++ V P+ + F FK++A F +R GK KG
Sbjct: 279 ----RQTDEREVE-PTEE---KFSGFVFKIQANMDPKHRDRIAF-----VRVCSGKFEKG 325
Query: 531 EMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDI--------FALFGVDCASGDTFVT 582
+ +VRT K VR+S + + + E VEE AGDI + GDTF
Sbjct: 326 MKVRHVRTGKDVRISNALTFMAQDREHVEEAYAGDIIGLHNHGTIQI-------GDTFTQ 378
Query: 583 DKNNSISLESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLV 642
+ + I P + ++ N + K + + ++E F ++ + ++
Sbjct: 379 GEK--LKFTGIPNFAPELFRRVRLKNPLKQKQLQKGLVQLSEEGAV-QVFRPLDNNDLIL 435
Query: 643 SGMGELHLEIYAQRMEREYNCPVVL 667
+G+L E+ A R++ EYN +
Sbjct: 436 GAVGQLQFEVVAHRLKNEYNVEAIY 460
Score = 83.6 bits (208), Expect = 2e-16
Identities = 43/97 (44%), Positives = 61/97 (62%), Gaps = 6/97 (6%)
Query: 26 DSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVG 85
D ME+E+QRGI++ S+ ++D IN++DTPGH DF+ + R L +D A++V+ A
Sbjct: 55 DWMEMEKQRGISVTSSVMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAK 114
Query: 86 GVQSQT---LTVNRQMKRYDVPCIAFINKLDRLGADP 119
GV+ QT + V R R D P FINKLDR G +P
Sbjct: 115 GVEPQTRKLMEVCRL--R-DTPIFTFINKLDRDGREP 148
Score = 39.0 bits (92), Expect = 0.013
Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 10/46 (21%)
Query: 149 RNIGISAHIDSGKTTLTERILFYTGRI----------SEMHETSRW 184
R I +H D+GKTTLTE++L + G I S H TS W
Sbjct: 11 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDW 56
>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 = 177 bits (450), Expect = 1e-49
Identities = 96/277 (34%), Positives = 147/277 (53%), Gaps = 14/277 (5%)
Query: 200 RNIGISAHIDSGKTTLTERILFYTGRISEMHEVRG-KDNVGAVMDSMELERQRGITIQSA 258
R I +H D+GKTTLTE++L + G I E V+ K A D ME+E+QRGI++ S+
Sbjct: 3 RTFAIISHPDAGKTTLTEKLLLFGGAIQEAGAVKARKSRKHATSDWMEIEKQRGISVTSS 62
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY 318
+K IN++DTPGH DF+ + R L +D A++V+ A GV+ QT + +
Sbjct: 63 VMQFEYKGCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLR 122
Query: 319 DVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQRKAIYF 378
+P I FINKLDR G DP +++++ ++G + A + PIG+G + KG+ D ++ +
Sbjct: 123 GIPIITFINKLDREGRDPLELLDEIENELGIDCAPMTWPIGMGKDFKGVYDRYDKEIYLY 182
Query: 379 EGPLGDNLRIEEIPADL--KKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAI 436
E G ++ E L K E ++L E + E E++ + + K+
Sbjct: 183 ERGAGGAIKAPEETKGLDDPKLDELLGEDLAEQLREELELV-------EGAGPEFDKELF 235
Query: 437 RRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYLPNP 473
L TPV G+AL N GVQ LLDA + P P
Sbjct: 236 LAGEL----TPVFFGSALNNFGVQELLDAFVKLAPAP 268
Score = 93.4 bits (233), Expect = 6e-21
Identities = 44/116 (37%), Positives = 69/116 (59%), Gaps = 1/116 (0%)
Query: 15 VRG-KDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRV 73
V+ K A D ME+E+QRGI++ S+ +K IN++DTPGH DF+ + R L
Sbjct: 35 VKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYKGCVINLLDTPGHEDFSEDTYRTLTA 94
Query: 74 LDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
+D A++V+ A GV+ QT + + +P I FINKLDR G DP +++++ +
Sbjct: 95 VDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREGRDPLELLDEIENE 150
>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 = 168 bits (428), Expect = 7e-49
Identities = 53/117 (45%), Positives = 83/117 (70%), Gaps = 2/117 (1%)
Query: 674 FKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNVPKPFLP 733
++ET+ +P +F+Y HKKQSGG+GQYG V+ +EPLP + EF+++ VG +PK ++P
Sbjct: 1 YRETITKPAEFEYRHKKQSGGAGQYGHVVLEIEPLPR--GSGFEFVNKIVGGAIPKEYIP 58
Query: 734 AIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEG 790
A+ KGF++ EKG L+G V V++ L DG H VDS+E++F +AA A K+A+++
Sbjct: 59 AVEKGFREALEKGPLAGYPVVDVKVTLYDGSYHDVDSSEMAFKIAARMAFKEAFKKA 115
Score = 74.8 bits (185), Expect = 5e-16
Identities = 25/60 (41%), Positives = 39/60 (65%), Gaps = 1/60 (1%)
Query: 873 FILAAH-GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEG 931
+I A GF++ EKG L+G V V++ L DG H VDS+E++F +AA A K+A+++
Sbjct: 56 YIPAVEKGFREALEKGPLAGYPVVDVKVTLYDGSYHDVDSSEMAFKIAARMAFKEAFKKA 115
Score = 62.1 bits (152), Expect = 1e-11
Identities = 22/51 (43%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 839 EMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAA-HGFKQMCEKGC 888
E EKG L+G V V++ L DG H VDS+E++F +AA FK+ +K
Sbjct: 66 EALEKGPLAGYPVVDVKVTLYDGSYHDVDSSEMAFKIAARMAFKEAFKKAK 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 = 165 bits (421), Expect = 5e-47
Identities = 59/172 (34%), Positives = 86/172 (50%), Gaps = 10/172 (5%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAAT 260
N+G+ H+D GKTTLT +L+ TG I +D+++ ER+RGITI++
Sbjct: 1 NVGVIGHVDHGKTTLTGSLLYQTGAIDRRGTR-----KETFLDTLKEERERGITIKTGVV 55
Query: 261 YTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
W IN IDTPGH DF+ E R L DGA+LV+ A GV+ QT +
Sbjct: 56 EFEWPKRRINFIDTPGHEDFSKETVRGLAQADGALLVVDANEGVEPQTREHLNIALAGGL 115
Query: 321 PCIAFINKLDRLG-ADPYRVINQMRQKVGH----NAAFLQIPIGLGSETKGI 367
P I +NK+DR+G D V+ ++++ + +PI S G
Sbjct: 116 PIIVAVNKIDRVGEEDFDEVLREIKELLKLIGFTFLKGKDVPIIPISALTGE 167
Score = 124 bits (313), Expect = 2e-32
Identities = 42/123 (34%), Positives = 64/123 (52%), Gaps = 1/123 (0%)
Query: 6 KIIHIKQEQVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTV 65
+++ R +D+++ ER+RGITI++ W IN IDTPGH DF+
Sbjct: 18 SLLYQTGAIDRRGTRKETFLDTLKEERERGITIKTGVVEFEWPKRRINFIDTPGHEDFSK 77
Query: 66 EVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLG-ADPYRVIN 124
E R L DGA+LV+ A GV+ QT +P I +NK+DR+G D V+
Sbjct: 78 ETVRGLAQADGALLVVDANEGVEPQTREHLNIALAGGLPIIVAVNKIDRVGEEDFDEVLR 137
Query: 125 QMR 127
+++
Sbjct: 138 EIK 140
Score = 33.4 bits (77), Expect = 0.37
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 444 KFTPVLVGTALKNKGVQTLLDAVLDYLPNP 473
K P++ +AL +G++ LLDA++++LP P
Sbjct: 154 KDVPIIPISALTGEGIEELLDAIVEHLPPP 183
>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 = 162 bits (411), Expect = 5e-47
Identities = 62/81 (76%), Positives = 70/81 (86%)
Query: 502 FIALAFKLEAGKFGQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEV 561
F+ LAFKLE G+FGQLTYMR YQGKL+KG+ IYNVRT KKVRV RLVR+HSNEME+VEE
Sbjct: 1 FVGLAFKLEEGRFGQLTYMRIYQGKLKKGDTIYNVRTGKKVRVPRLVRMHSNEMEEVEEA 60
Query: 562 LAGDIFALFGVDCASGDTFVT 582
AGDI A+FG+DCASGDTF
Sbjct: 61 GAGDICAIFGIDCASGDTFTD 81
>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 = 144 bits (366), Expect = 2e-39
Identities = 66/145 (45%), Positives = 88/145 (60%), Gaps = 5/145 (3%)
Query: 199 IRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA 258
IRNI I AH+D GKTTL + +L +G E EV + VMDS +LER+RGITI +
Sbjct: 2 IRNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVGER-----VMDSNDLERERGITILAK 56
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY 318
T +KD INIIDTPGH DF EVER L ++DG +L++ A G QT V ++
Sbjct: 57 NTAITYKDTKINIIDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALEA 116
Query: 319 DVPCIAFINKLDRLGADPYRVINQM 343
+ I INK+DR A P V++++
Sbjct: 117 GLKPIVVINKIDRPDARPEEVVDEV 141
Score = 116 bits (292), Expect = 2e-29
Identities = 48/103 (46%), Positives = 65/103 (63%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
VMDS +LER+RGITI + T +KD INIIDTPGH DF EVER L ++DG +L++ A
Sbjct: 39 VMDSNDLERERGITILAKNTAITYKDTKINIIDTPGHADFGGEVERVLSMVDGVLLLVDA 98
Query: 84 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQM 126
G QT V ++ + I INK+DR A P V++++
Sbjct: 99 SEGPMPQTRFVLKKALEAGLKPIVVINKIDRPDARPEEVVDEV 141
>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 = 145 bits (367), Expect = 3e-39
Identities = 67/142 (47%), Positives = 89/142 (62%), Gaps = 14/142 (9%)
Query: 200 RNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAA 259
RNI I AH+D GKTTL++ +L G ISE ++ GK +D+ E E++RGITI+S+A
Sbjct: 1 RNICIIAHVDHGKTTLSDSLLASAGIISE--KLAGKARY---LDTREDEQERGITIKSSA 55
Query: 260 -----TYTLW----KDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT 310
Y D+ IN+ID+PGHVDF+ EV ALR+ DGA++V+ AV GV QT T
Sbjct: 56 ISLYFEYEEEKMDGNDYLINLIDSPGHVDFSSEVTAALRLTDGALVVVDAVEGVCVQTET 115
Query: 311 VNRQMKRYDVPCIAFINKLDRL 332
V RQ V + INK+DRL
Sbjct: 116 VLRQALEERVKPVLVINKIDRL 137
Score = 116 bits (294), Expect = 2e-29
Identities = 53/136 (38%), Positives = 76/136 (55%), Gaps = 11/136 (8%)
Query: 24 VMDSMELERQRGITIQSAA-----TYTLW----KDHNINIIDTPGHVDFTVEVERALRVL 74
+D+ E E++RGITI+S+A Y D+ IN+ID+PGHVDF+ EV ALR+
Sbjct: 37 YLDTREDEQERGITIKSSAISLYFEYEEEKMDGNDYLINLIDSPGHVDFSSEVTAALRLT 96
Query: 75 DGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKTSRWI 134
DGA++V+ AV GV QT TV RQ V + INK+DRL + + Q+ R +
Sbjct: 97 DGALVVVDAVEGVCVQTETVLRQALEERVKPVLVINKIDRLILELKLSPEEAYQRLLRIV 156
Query: 135 S--NESLSEHKPIEYI 148
N + + P E+
Sbjct: 157 EDVNAIIETYAPEEFK 172
>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 = 135 bits (341), Expect = 1e-37
Identities = 43/78 (55%), Positives = 59/78 (75%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSS 996
EPIM VE++ P EFQG+V+ L+ KR G + + +D T+ AE+PLNDMFG++ +LRS
Sbjct: 1 EPIMKVEVTAPTEFQGNVIGLLNKRKGTIVDTDTGEDEFTLEAEVPLNDMFGYSTELRSM 60
Query: 997 TQGKGEFSMDYSRYSPAL 1014
TQGKGEFSM++SRY+P
Sbjct: 61 TQGKGEFSMEFSRYAPVP 78
Score = 66.6 bits (163), Expect = 1e-13
Identities = 20/44 (45%), Positives = 29/44 (65%)
Query: 796 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAE 839
EPIM VE++ P EFQG+V+ L+ KR G + + +D T+ AE
Sbjct: 1 EPIMKVEVTAPTEFQGNVIGLLNKRKGTIVDTDTGEDEFTLEAE 44
>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 = 138 bits (351), Expect = 1e-37
Identities = 64/149 (42%), Positives = 92/149 (61%), Gaps = 11/149 (7%)
Query: 200 RNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAA 259
RN I AHID GK+TL +R+L TG +SE ++ V+DSM+LER+RGITI++ A
Sbjct: 1 RNFSIIAHIDHGKSTLADRLLELTGTVSE------REMKEQVLDSMDLERERGITIKAQA 54
Query: 260 -----TYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQ 314
+++ +N+IDTPGHVDF+ EV R+L +GA+LV+ A GV++QTL
Sbjct: 55 VRLFYKAKDGEEYLLNLIDTPGHVDFSYEVSRSLAACEGALLVVDATQGVEAQTLANFYL 114
Query: 315 MKRYDVPCIAFINKLDRLGADPYRVINQM 343
++ I INK+D ADP RV ++
Sbjct: 115 ALENNLEIIPVINKIDLPAADPDRVKQEI 143
Score = 107 bits (269), Expect = 1e-26
Identities = 48/117 (41%), Positives = 72/117 (61%), Gaps = 5/117 (4%)
Query: 15 VRGKDNVGAVMDSMELERQRGITIQSAA-----TYTLWKDHNINIIDTPGHVDFTVEVER 69
V ++ V+DSM+LER+RGITI++ A +++ +N+IDTPGHVDF+ EV R
Sbjct: 27 VSEREMKEQVLDSMDLERERGITIKAQAVRLFYKAKDGEEYLLNLIDTPGHVDFSYEVSR 86
Query: 70 ALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQM 126
+L +GA+LV+ A GV++QTL ++ I INK+D ADP RV ++
Sbjct: 87 SLAACEGALLVVDATQGVEAQTLANFYLALENNLEIIPVINKIDLPAADPDRVKQEI 143
>gnl|CDD|235462 PRK05433, PRK05433, GTP-binding protein LepA; Provisional.
Length = 600
Score = 142 bits (360), Expect = 5e-35
Identities = 67/162 (41%), Positives = 96/162 (59%), Gaps = 15/162 (9%)
Query: 194 KPIEYIRNIGISAHIDSGKTTLTERILFYTGRIS--EMHEVRGKDNVGAVMDSMELERQR 251
++ IRN I AHID GK+TL +R++ TG +S EM V+DSM+LER+R
Sbjct: 2 MDMKNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKA--------QVLDSMDLERER 53
Query: 252 GITIQSAA---TYTLW--KDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 306
GITI++ A Y + + +N+IDTPGHVDF+ EV R+L +GA+LV+ A GV++
Sbjct: 54 GITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEA 113
Query: 307 QTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVG 348
QTL D+ I +NK+D ADP RV ++ +G
Sbjct: 114 QTLANVYLALENDLEIIPVLNKIDLPAADPERVKQEIEDVIG 155
Score = 103 bits (260), Expect = 1e-22
Identities = 48/108 (44%), Positives = 69/108 (63%), Gaps = 5/108 (4%)
Query: 24 VMDSMELERQRGITIQSAA---TYTLW--KDHNINIIDTPGHVDFTVEVERALRVLDGAI 78
V+DSM+LER+RGITI++ A Y + + +N+IDTPGHVDF+ EV R+L +GA+
Sbjct: 43 VLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEVSRSLAACEGAL 102
Query: 79 LVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQM 126
LV+ A GV++QTL D+ I +NK+D ADP RV ++
Sbjct: 103 LVVDASQGVEAQTLANVYLALENDLEIIPVLNKIDLPAADPERVKQEI 150
Score = 52.0 bits (126), Expect = 1e-06
Identities = 30/118 (25%), Positives = 52/118 (44%), Gaps = 28/118 (23%)
Query: 898 RMVLKDGDNHMVDS-------NEISFILAAHGAMKQAYEEGVWQILEPIMSVEISTPIEF 950
+ L DG+ VD+ +I +I EPI+ I P E+
Sbjct: 376 EVTLTDGEVIEVDNPSKLPDPGKIE------------------EIEEPIVKATIIVPQEY 417
Query: 951 QGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLND-MFGFAGDLRSSTQGKGEFSMDY 1007
G+V+ L ++ G+ + E + V + E+PL + +F F L+S ++G S+DY
Sbjct: 418 VGAVMELCQEKRGVQKDMEYLGNRVELTYELPLAEIVFDFFDRLKSVSRGYA--SLDY 473
Score = 52.0 bits (126), Expect = 1e-06
Identities = 48/176 (27%), Positives = 88/176 (50%), Gaps = 16/176 (9%)
Query: 515 GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDI-FALFGV- 572
G + +R G L+KG+ I + T K+ V V + + +M V+E+ AG++ + + G+
Sbjct: 208 GVVVLVRVVDGTLKKGDKIKMMSTGKEYEVDE-VGVFTPKMVPVDELSAGEVGYIIAGIK 266
Query: 573 ---DCASGDTFVTDKNNSIS--LESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDP 627
D GDT +T N L P+V + V++ D ++ A+++ D
Sbjct: 267 DVRDARVGDT-ITLAKNPAEEPLPGFKEVKPMVFAGLYPVDSDDYEDLRDALEKLQLNDA 325
Query: 628 TFHFFYDPESKETLVSG-----MGELHLEIYAQRMEREYNCPVVLGKPKVAFKETL 678
+ Y+PE+ + L G +G LH+EI +R+ERE++ ++ P V ++ TL
Sbjct: 326 SL--TYEPETSQALGFGFRCGFLGLLHMEIIQERLEREFDLDLITTAPSVVYEVTL 379
Score = 36.6 bits (86), Expect = 0.077
Identities = 20/91 (21%), Positives = 36/91 (39%), Gaps = 25/91 (27%)
Query: 757 RMVLKDGDNHMVDS-------NEISFILAAHGAMKQAYEEGVWQILEPIMSVEISTPIEF 809
+ L DG+ VD+ +I +I EPI+ I P E+
Sbjct: 376 EVTLTDGEVIEVDNPSKLPDPGKIE------------------EIEEPIVKATIIVPQEY 417
Query: 810 QGSVLNLVTKRHGILQGNEGKDDWVTIYAEM 840
G+V+ L ++ G+ + E + V + E+
Sbjct: 418 VGAVMELCQEKRGVQKDMEYLGNRVELTYEL 448
>gnl|CDD|223557 COG0481, LepA, Membrane GTPase LepA [Cell envelope biogenesis,
outer membrane].
Length = 603
Score = 140 bits (355), Expect = 1e-34
Identities = 67/162 (41%), Positives = 96/162 (59%), Gaps = 15/162 (9%)
Query: 194 KPIEYIRNIGISAHIDSGKTTLTERILFYTGRIS--EMHEVRGKDNVGAVMDSMELERQR 251
P + IRN I AHID GK+TL +R+L TG +S EM V+DSM++ER+R
Sbjct: 4 TPQKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRA--------QVLDSMDIERER 55
Query: 252 GITIQSAATYTLWKDHN-----INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 306
GITI++ A +K + +N+IDTPGHVDF+ EV R+L +GA+LV+ A GV++
Sbjct: 56 GITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEA 115
Query: 307 QTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVG 348
QTL ++ I +NK+D ADP RV ++ +G
Sbjct: 116 QTLANVYLALENNLEIIPVLNKIDLPAADPERVKQEIEDIIG 157
Score = 100 bits (252), Expect = 1e-21
Identities = 46/108 (42%), Positives = 69/108 (63%), Gaps = 5/108 (4%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHN-----INIIDTPGHVDFTVEVERALRVLDGAI 78
V+DSM++ER+RGITI++ A +K + +N+IDTPGHVDF+ EV R+L +GA+
Sbjct: 45 VLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGAL 104
Query: 79 LVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQM 126
LV+ A GV++QTL ++ I +NK+D ADP RV ++
Sbjct: 105 LVVDASQGVEAQTLANVYLALENNLEIIPVLNKIDLPAADPERVKQEI 152
Score = 62.2 bits (152), Expect = 8e-10
Identities = 57/230 (24%), Positives = 106/230 (46%), Gaps = 36/230 (15%)
Query: 458 GVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQ 516
G++ +L+A+++ +P P G D P AL F + G
Sbjct: 173 GIEDVLEAIVEKIPPP---------KGDPDA------------PLKALIFDSWYDNYLGV 211
Query: 517 LTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDI-FALFGV--- 572
+ +R + G L+KG+ I + T K+ V V + + +M V+E+ AG++ + + G+
Sbjct: 212 VVLVRIFDGTLKKGDKIRMMSTGKEYEVDE-VGIFTPKMVKVDELKAGEVGYIIAGIKDV 270
Query: 573 -DCASGDTFVTDKNNSIS-LESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFH 630
D GDT N + L P+V + V++ D ++ A+++ D +
Sbjct: 271 RDARVGDTITLASNPATEPLPGFKEVKPMVFAGLYPVDSDDYEDLRDALEKLQLNDASL- 329
Query: 631 FFYDPESKETLVSG-----MGELHLEIYAQRMEREYNCPVVLGKPKVAFK 675
Y+PE+ + L G +G LH+EI +R+ERE++ ++ P V +K
Sbjct: 330 -TYEPETSQALGFGFRCGFLGLLHMEIIQERLEREFDLDLITTAPSVVYK 378
Score = 46.0 bits (110), Expect = 1e-04
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 6/84 (7%)
Query: 934 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDD-WVTIYAEIPLND-MFGFAG 991
+I EP + I TP E+ G+V+ L ++ GI E D V + E+PL + +F F
Sbjct: 403 EIEEPYVKATIITPQEYLGNVMELCQEKRGIQIDMEYLDQNRVMLTYELPLAEIVFDFFD 462
Query: 992 DLRSSTQGKGEFSMDY--SRYSPA 1013
L+S + KG S DY Y +
Sbjct: 463 KLKSIS--KGYASFDYEFIGYRES 484
Score = 31.8 bits (73), Expect = 2.2
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 793 QILEPIMSVEISTPIEFQGSVLNLVTKRHGI 823
+I EP + I TP E+ G+V+ L ++ GI
Sbjct: 403 EIEEPYVKATIITPQEYLGNVMELCQEKRGI 433
>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress
response [Signal transduction mechanisms].
Length = 603
Score = 139 bits (353), Expect = 3e-34
Identities = 63/147 (42%), Positives = 87/147 (59%), Gaps = 5/147 (3%)
Query: 196 IEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITI 255
+E IRNI I AH+D GKTTL + +L +G E EV + VMDS +LE++RGITI
Sbjct: 2 MEDIRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAER-----VMDSNDLEKERGITI 56
Query: 256 QSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQM 315
+ T + INI+DTPGH DF EVER L ++DG +L++ A G QT V ++
Sbjct: 57 LAKNTAVNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKA 116
Query: 316 KRYDVPCIAFINKLDRLGADPYRVINQ 342
+ I INK+DR A P V+++
Sbjct: 117 LALGLKPIVVINKIDRPDARPDEVVDE 143
Score = 111 bits (281), Expect = 2e-25
Identities = 44/102 (43%), Positives = 62/102 (60%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
VMDS +LE++RGITI + T + INI+DTPGH DF EVER L ++DG +L++ A
Sbjct: 42 VMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDA 101
Query: 84 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQ 125
G QT V ++ + I INK+DR A P V+++
Sbjct: 102 SEGPMPQTRFVLKKALALGLKPIVVINKIDRPDARPDEVVDE 143
Score = 68.0 bits (167), Expect = 2e-11
Identities = 57/220 (25%), Positives = 99/220 (45%), Gaps = 37/220 (16%)
Query: 489 KVVLNPSRDGKHPFIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKV---RV 544
V P D P +L+ + G++ R ++G ++ + + +++D R+
Sbjct: 192 DHVPAPKGDLDEPLQMQVTQLDYNSYVGRIGIGRIFRGTVKPNQQVALIKSDGTTENGRI 251
Query: 545 SRLVRLHSNEMEDVEEVLAGDIFALFGVDCAS-GDTFVTDKNNSISLESIYVADPVVSMS 603
++L+ E ++EE AGDI A+ G++ + GDT + D +N +L ++ V +P +SM+
Sbjct: 252 TKLLGFLGLERIEIEEAEAGDIVAIAGLEDINIGDT-ICDPDNPEALPALSVDEPTLSMT 310
Query: 604 IKAVNNK-------DRDNFSKAVQRFTKE---------DPTFHFFYDPESKET-LVSGMG 646
+VN+ + R KE + T ES + VSG G
Sbjct: 311 F-SVNDSPFAGKEGKFVTSRQIRDRLNKELETNVALRVEET-------ESPDAFEVSGRG 362
Query: 647 ELHLEIYAQRMERE-YNCPVVLGKPKVAFKE---TLVQPF 682
ELHL I + M RE + V +P+V KE +PF
Sbjct: 363 ELHLSILIENMRREGFELQV--SRPEVIIKEIDGVKCEPF 400
Score = 43.0 bits (102), Expect = 9e-04
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 3/89 (3%)
Query: 934 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQ--GNEGKDDWVTIYAEIPLNDMFGFAG 991
EP V I P E QG+V+ + +R G ++ +GK V + IP + GF
Sbjct: 395 VKCEPFEEVTIDVPEEHQGAVIEKLGERKGEMKDMAPDGK-GRVRLEFVIPARGLIGFRT 453
Query: 992 DLRSSTQGKGEFSMDYSRYSPALPEVQDR 1020
+ + T+G G + + Y P E+ R
Sbjct: 454 EFLTMTRGTGIMNHSFDHYRPVKGEIGGR 482
>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 = 126 bits (319), Expect = 5e-34
Identities = 53/121 (43%), Positives = 77/121 (63%), Gaps = 3/121 (2%)
Query: 671 KVAFKETLVQPF-DFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNVPK 729
+VA++ET+ +P + + HKKQSGG GQY RVI +EPL + EF D VG +PK
Sbjct: 1 QVAYRETITKPVKEAEGKHKKQSGGDGQYARVILEVEPLERGSG--FEFDDTIVGGVIPK 58
Query: 730 PFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEE 789
++PA+ KGF++ E+G L+G V V++ L DG H VDS+E++F AA A K+A +
Sbjct: 59 EYIPAVEKGFREALEEGPLAGYPVVDVKVTLLDGSYHEVDSSEMAFKPAARRAFKEALLK 118
Query: 790 G 790
Sbjct: 119 A 119
Score = 56.8 bits (138), Expect = 1e-09
Identities = 22/53 (41%), Positives = 33/53 (62%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEG 931
GF++ E+G L+G V V++ L DG H VDS+E++F AA A K+A +
Sbjct: 67 GFREALEEGPLAGYPVVDVKVTLLDGSYHEVDSSEMAFKPAARRAFKEALLKA 119
Score = 46.8 bits (112), Expect = 4e-06
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 839 EMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAH-GFKQMCEKG 887
E E+G L+G V V++ L DG H VDS+E++F AA FK+ K
Sbjct: 70 EALEEGPLAGYPVVDVKVTLLDGSYHEVDSSEMAFKPAARRAFKEALLKA 119
>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 = 138 bits (350), Expect = 6e-34
Identities = 61/144 (42%), Positives = 83/144 (57%), Gaps = 5/144 (3%)
Query: 199 IRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA 258
IRNI I AH+D GKTTL + +L +G V + VMDS +LER+RGITI +
Sbjct: 1 IRNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAER-----VMDSNDLERERGITILAK 55
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY 318
T + INI+DTPGH DF EVER L ++DG +L++ A G QT V ++
Sbjct: 56 NTAIRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALEL 115
Query: 319 DVPCIAFINKLDRLGADPYRVINQ 342
+ I INK+DR A P V+++
Sbjct: 116 GLKPIVVINKIDRPSARPDEVVDE 139
Score = 112 bits (281), Expect = 2e-25
Identities = 45/102 (44%), Positives = 62/102 (60%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
VMDS +LER+RGITI + T + INI+DTPGH DF EVER L ++DG +L++ A
Sbjct: 38 VMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDA 97
Query: 84 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQ 125
G QT V ++ + I INK+DR A P V+++
Sbjct: 98 SEGPMPQTRFVLKKALELGLKPIVVINKIDRPSARPDEVVDE 139
Score = 75.0 bits (185), Expect = 9e-14
Identities = 61/238 (25%), Positives = 110/238 (46%), Gaps = 55/238 (23%)
Query: 462 LLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQLTYM 520
L DA++ ++P P G D+ P L L+ ++ G++
Sbjct: 182 LFDAIVRHVPAP---------KGDLDE------------PLQMLVTNLDYDEYLGRIAIG 220
Query: 521 RCYQGKLRKGEMIYNVRTD---KKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGVDCAS- 576
R ++G ++KG+ + ++ D + R+S+L+ E +++E AGDI A+ G++ +
Sbjct: 221 RVHRGTVKKGQQVALMKRDGTIENGRISKLLGFEGLERVEIDEAGAGDIVAVAGLEDINI 280
Query: 577 GDTFVTDKNNSISLESIYVADPVVSMSIKAVNN--------------KDRDNFSKAVQR- 621
G+T + D +L +I V +P +SM+ +VN+ RD + ++
Sbjct: 281 GET-IADPEVPEALPTITVDEPTLSMTF-SVNDSPLAGKEGKKVTSRHIRDRLMRELETN 338
Query: 622 -FTKEDPTFHFFYDPESKET-LVSGMGELHLEIYAQRMERE-YNCPVVLGKPKVAFKE 676
+ + T ES + VSG GELHL I + M RE + V G+P+V +KE
Sbjct: 339 VALRVEDT-------ESADKFEVSGRGELHLSILIETMRREGFELQV--GRPQVIYKE 387
Score = 42.7 bits (101), Expect = 0.001
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 1/88 (1%)
Query: 934 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGK-DDWVTIYAEIPLNDMFGFAGD 992
+ LEPI + I P E G+V+ + KR G + E + + +IP + GF +
Sbjct: 391 KKLEPIEELTIDVPEEHVGAVIEKLGKRKGEMVDMEPSGNGRTRLEFKIPSRGLIGFRTE 450
Query: 993 LRSSTQGKGEFSMDYSRYSPALPEVQDR 1020
+ T+G G + + Y P E++ R
Sbjct: 451 FLTDTRGTGIMNHVFDEYEPWKGEIETR 478
Score = 30.0 bits (68), Expect = 8.4
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 793 QILEPIMSVEISTPIEFQGSVLNLVTKRHG 822
+ LEPI + I P E G+V+ + KR G
Sbjct: 391 KKLEPIEELTIDVPEEHVGAVIEKLGKRKG 420
>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 = 137 bits (346), Expect = 2e-33
Identities = 71/161 (44%), Positives = 100/161 (62%), Gaps = 15/161 (9%)
Query: 199 IRNIGISAHIDSGKTTLTERILFYTGRIS--EMHEVRGKDNVGAVMDSMELERQRGITIQ 256
IRN I AHID GK+TL +R+L YTG IS EM E V+DSM+LER+RGITI+
Sbjct: 3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMRE--------QVLDSMDLERERGITIK 54
Query: 257 SAATYTLWKDHN-----INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTV 311
+ A +K + +N+IDTPGHVDF+ EV R+L +GA+L++ A G+++QTL
Sbjct: 55 AQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLAN 114
Query: 312 NRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAA 352
D+ I INK+D ADP RV ++ + +G +A+
Sbjct: 115 VYLALENDLEIIPVINKIDLPSADPERVKKEIEEVIGLDAS 155
Score = 99.7 bits (249), Expect = 2e-21
Identities = 47/107 (43%), Positives = 68/107 (63%), Gaps = 5/107 (4%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHN-----INIIDTPGHVDFTVEVERALRVLDGAI 78
V+DSM+LER+RGITI++ A +K + +N+IDTPGHVDF+ EV R+L +GA+
Sbjct: 39 VLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAACEGAL 98
Query: 79 LVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQ 125
L++ A G+++QTL D+ I INK+D ADP RV +
Sbjct: 99 LLVDAAQGIEAQTLANVYLALENDLEIIPVINKIDLPSADPERVKKE 145
Score = 66.2 bits (162), Expect = 5e-11
Identities = 53/230 (23%), Positives = 103/230 (44%), Gaps = 36/230 (15%)
Query: 458 GVQTLLDAVLDYLPNPGEVTNYAIENGQEDKKVVLNPSRDGKHPFIALAFKLEAGKF-GQ 516
G++ +L+A++ +P P D P AL F + G
Sbjct: 167 GIEEILEAIVKRVPPP---------------------KGDPDAPLKALIFDSHYDNYRGV 205
Query: 517 LTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDI-FALFGV--- 572
+ +R ++G ++ G+ I + T K+ V V + + ++ +E+ AG++ + + G+
Sbjct: 206 VALVRVFEGTIKPGDKIRFMSTGKEYEVDE-VGVFTPKLTKTDELSAGEVGYIIAGIKDV 264
Query: 573 -DCASGDTFVTDKNNSIS-LESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFH 630
D GDT KN + L P+V + ++ +D ++ A+++ D +
Sbjct: 265 SDVRVGDTITHVKNPAKEPLPGFKEVKPMVFAGLYPIDTEDYEDLRDALEKLKLNDASL- 323
Query: 631 FFYDPESKETLVSG-----MGELHLEIYAQRMEREYNCPVVLGKPKVAFK 675
Y+PES L G +G LH+EI +R+ERE+N ++ P V ++
Sbjct: 324 -TYEPESSPALGFGFRCGFLGLLHMEIIQERLEREFNLDLITTAPSVIYR 372
Score = 44.2 bits (105), Expect = 3e-04
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 934 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD-DWVTIYAEIPLND-MFGFAG 991
+ EP + I TP E+ G ++ L ++ G+ E D + V + E+PL + ++ F
Sbjct: 397 HVEEPYVKATIITPTEYLGPIMTLCQEKRGVQTNMEYLDPNRVELIYEMPLAEIVYDFFD 456
Query: 992 DLRSSTQGKGEFSMDY 1007
L+S + +G S DY
Sbjct: 457 KLKSIS--RGYASFDY 470
Score = 30.4 bits (69), Expect = 6.0
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 793 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNE 828
+ EP + I TP E+ G ++ L ++ G+ E
Sbjct: 397 HVEEPYVKATIITPTEYLGPIMTLCQEKRGVQTNME 432
>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 = 122 bits (308), Expect = 1e-32
Identities = 55/122 (45%), Positives = 75/122 (61%), Gaps = 4/122 (3%)
Query: 670 PKVAFKETLVQPFD-FDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEFIDETVGTNVP 728
P+VA++ET+ + Y KKQSGG GQY +VI +EPLP N EF+DET G P
Sbjct: 1 PQVAYRETIGKDVKERAYKLKKQSGGDGQYAKVILRIEPLPGGGN---EFVDETKGGQYP 57
Query: 729 KPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYE 788
F PA+ KGF++ ++G L+G V V++ L DG H VDS+E +FI AA A K+A
Sbjct: 58 NEFKPAVEKGFQEAMKEGPLAGEPVRDVKVTLTDGSYHEVDSSEAAFIPAARRAFKEALL 117
Query: 789 EG 790
+
Sbjct: 118 KA 119
Score = 49.5 bits (119), Expect = 4e-07
Identities = 22/53 (41%), Positives = 33/53 (62%)
Query: 879 GFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYEEG 931
GF++ ++G L+G V V++ L DG H VDS+E +FI AA A K+A +
Sbjct: 67 GFQEAMKEGPLAGEPVRDVKVTLTDGSYHEVDSSEAAFIPAARRAFKEALLKA 119
Score = 39.9 bits (94), Expect = 9e-04
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 839 EMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAH-GFKQMCEKG 887
E ++G L+G V V++ L DG H VDS+E +FI AA FK+ K
Sbjct: 70 EAMKEGPLAGEPVRDVKVTLTDGSYHEVDSSEAAFIPAARRAFKEALLKA 119
>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 = 116 bits (294), Expect = 3e-31
Identities = 35/77 (45%), Positives = 51/77 (66%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSS 996
EPIM VE++ P E+ G V+ ++ R G + G E + W I AE+PL +MFG++ DLRS
Sbjct: 1 EPIMKVEVTVPEEYMGDVIGDLSSRRGQILGTESRGGWKVIKAEVPLAEMFGYSTDLRSL 60
Query: 997 TQGKGEFSMDYSRYSPA 1013
TQG+G F+M++S Y
Sbjct: 61 TQGRGSFTMEFSHYEEV 77
Score = 59.5 bits (145), Expect = 4e-11
Identities = 18/44 (40%), Positives = 26/44 (59%)
Query: 796 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAE 839
EPIM VE++ P E+ G V+ ++ R G + G E + W I AE
Sbjct: 1 EPIMKVEVTVPEEYMGDVIGDLSSRRGQILGTESRGGWKVIKAE 44
>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 = 116 bits (292), Expect = 7e-31
Identities = 37/83 (44%), Positives = 51/83 (61%), Gaps = 2/83 (2%)
Query: 502 FIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEE 560
F+AL FK F G+L+++R Y G L+ G +YN KK RV RL+R+H + E+VEE
Sbjct: 1 FVALVFKTIHDPFVGKLSFVRVYSGTLKAGSTLYNSTKGKKERVGRLLRMHGKKQEEVEE 60
Query: 561 VLAGDIFALFGVDC-ASGDTFVT 582
AGDI A+ G+ A+GDT
Sbjct: 61 AGAGDIGAVAGLKDTATGDTLCD 83
>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 = 109 bits (274), Expect = 6e-27
Identities = 50/138 (36%), Positives = 78/138 (56%), Gaps = 7/138 (5%)
Query: 200 RNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQS-- 257
RN+ I+ H+ GKT+L + ++ T + + V+ D+ + E++RGI+I+S
Sbjct: 1 RNVCIAGHLHHGKTSLLDMLIEQTHKRT--PSVKLGWKPLRYTDTRKDEQERGISIKSNP 58
Query: 258 ---AATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQ 314
+ K + INIIDTPGHV+F EV ALR+ DG +LV+ V G+ S T + R
Sbjct: 59 ISLVLEDSKGKSYLINIIDTPGHVNFMDEVAAALRLCDGVVLVVDVVEGLTSVTERLIRH 118
Query: 315 MKRYDVPCIAFINKLDRL 332
+ +P + INK+DRL
Sbjct: 119 AIQEGLPMVLVINKIDRL 136
Score = 86.2 bits (214), Expect = 7e-19
Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 5/116 (4%)
Query: 5 VKIIHIKQEQVRGKDNVGAVMDSMELERQRGITIQS-----AATYTLWKDHNINIIDTPG 59
++ H + V+ D+ + E++RGI+I+S + K + INIIDTPG
Sbjct: 21 IEQTHKRTPSVKLGWKPLRYTDTRKDEQERGISIKSNPISLVLEDSKGKSYLINIIDTPG 80
Query: 60 HVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRL 115
HV+F EV ALR+ DG +LV+ V G+ S T + R + +P + INK+DRL
Sbjct: 81 HVNFMDEVAAALRLCDGVVLVVDVVEGLTSVTERLIRHAIQEGLPMVLVINKIDRL 136
>gnl|CDD|104396 PRK10218, PRK10218, GTP-binding protein; Provisional.
Length = 607
Score = 116 bits (292), Expect = 9e-27
Identities = 65/148 (43%), Positives = 91/148 (61%), Gaps = 5/148 (3%)
Query: 196 IEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITI 255
IE +RNI I AH+D GKTTL +++L +G E + + VMDS +LE++RGITI
Sbjct: 2 IEKLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQER-----VMDSNDLEKERGITI 56
Query: 256 QSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQM 315
+ T W D+ INI+DTPGH DF EVER + ++D +LV+ A G QT V ++
Sbjct: 57 LAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKA 116
Query: 316 KRYDVPCIAFINKLDRLGADPYRVINQM 343
Y + I INK+DR GA P V++Q+
Sbjct: 117 FAYGLKPIVVINKVDRPGARPDWVVDQV 144
Score = 90.5 bits (224), Expect = 1e-18
Identities = 48/103 (46%), Positives = 66/103 (64%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
VMDS +LE++RGITI + T W D+ INI+DTPGH DF EVER + ++D +LV+ A
Sbjct: 42 VMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDA 101
Query: 84 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQM 126
G QT V ++ Y + I INK+DR GA P V++Q+
Sbjct: 102 FDGPMPQTRFVTKKAFAYGLKPIVVINKVDRPGARPDWVVDQV 144
Score = 43.5 bits (102), Expect = 6e-04
Identities = 41/168 (24%), Positives = 78/168 (46%), Gaps = 13/168 (7%)
Query: 521 RCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSN---EMEDVEEVLAGDIFALFGVDCASG 577
R +GK++ + + + ++ K R +++ ++ + E + + AGDI A+ G+ +
Sbjct: 225 RIKRGKVKPNQQVTIIDSEGKTRNAKVGKVLGHLGLERIETDLAEAGDIVAITGLGELNI 284
Query: 578 DTFVTDKNNSISLESIYVADPVVSM----SIKAVNNKDRDNFS--KAVQRFTKE---DPT 628
V D N +L ++ V +P VSM + K+ + + + R KE +
Sbjct: 285 SDTVCDTQNVEALPALSVDEPTVSMFFCVNTSPFCGKEGKFVTSRQILDRLNKELVHNVA 344
Query: 629 FHFFYDPESKETLVSGMGELHLEIYAQRMEREYNCPVVLGKPKVAFKE 676
++ VSG GELHL + + M RE + + +PKV F+E
Sbjct: 345 LRVEETEDADAFRVSGRGELHLSVLIENMRRE-GFELAVSRPKVIFRE 391
Score = 31.6 bits (71), Expect = 2.9
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 2/86 (2%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQG-NEGKDDWVTIYAEIPLNDMFGFAGDLRS 995
EP +V + + QGSV+ + +R G L+ N V + IP + GF + +
Sbjct: 398 EPYENVTLDVEEQHQGSVMQALGERKGDLKNMNPDGKGRVRLDYVIPSRGLIGFRSEFMT 457
Query: 996 STQGKGEFSMDYSRYSPALP-EVQDR 1020
T G G +S Y P EV R
Sbjct: 458 MTSGTGLLYSTFSHYDDVRPGEVGQR 483
>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 = 102 bits (256), Expect = 6e-26
Identities = 40/89 (44%), Positives = 57/89 (64%), Gaps = 1/89 (1%)
Query: 934 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD-DWVTIYAEIPLNDMFGFAGD 992
+LEPIM VEI+ P E+ G V+ + +R G + E V I AE+PL ++FGF+ +
Sbjct: 1 VLLEPIMKVEITVPEEYLGDVIGDLNQRRGEILDMEPDGGGRVVIEAEVPLAELFGFSTE 60
Query: 993 LRSSTQGKGEFSMDYSRYSPALPEVQDRL 1021
LRS TQG+G FSM++S Y P ++ DRL
Sbjct: 61 LRSLTQGRGSFSMEFSGYEPVPGDILDRL 89
Score = 51.0 bits (123), Expect = 5e-08
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 793 QILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD-DWVTIYAEM 840
+LEPIM VEI+ P E+ G V+ + +R G + E V I AE+
Sbjct: 1 VLLEPIMKVEITVPEEYLGDVIGDLNQRRGEILDMEPDGGGRVVIEAEV 49
>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 = 101 bits (254), Expect = 8e-26
Identities = 34/85 (40%), Positives = 55/85 (64%)
Query: 935 ILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLR 994
+LEPIM VE++ P E+ G V+ + R G ++G E + I A++PL++MFG+A DLR
Sbjct: 1 LLEPIMKVEVTVPEEYMGDVIGDLNSRRGKIEGMEQRGGAQVIKAKVPLSEMFGYATDLR 60
Query: 995 SSTQGKGEFSMDYSRYSPALPEVQD 1019
S+TQG+ +SM++S Y + +
Sbjct: 61 SATQGRATWSMEFSHYEEVPKSIAE 85
Score = 49.0 bits (118), Expect = 3e-07
Identities = 17/46 (36%), Positives = 27/46 (58%)
Query: 794 ILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAE 839
+LEPIM VE++ P E+ G V+ + R G ++G E + I A+
Sbjct: 1 LLEPIMKVEVTVPEEYMGDVIGDLNSRRGKIEGMEQRGGAQVIKAK 46
>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 = 99.9 bits (250), Expect = 2e-25
Identities = 40/78 (51%), Positives = 53/78 (67%), Gaps = 1/78 (1%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD-DWVTIYAEIPLNDMFGFAGDLRS 995
EPIM VEI+ P E+ G+V+ ++KR G + G E + V I AE+PL +MFGFA DLRS
Sbjct: 1 EPIMKVEITVPEEYLGAVIGDLSKRRGEILGMEPRGTGRVVIKAELPLAEMFGFATDLRS 60
Query: 996 STQGKGEFSMDYSRYSPA 1013
TQG+ FSM++S Y P
Sbjct: 61 LTQGRASFSMEFSHYEPV 78
Score = 52.1 bits (126), Expect = 2e-08
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 796 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD-DWVTIYAEM 840
EPIM VEI+ P E+ G+V+ ++KR G + G E + V I AE+
Sbjct: 1 EPIMKVEITVPEEYLGAVIGDLSKRRGEILGMEPRGTGRVVIKAEL 46
>gnl|CDD|240409 PTZ00416, PTZ00416, elongation factor 2; Provisional.
Length = 836
Score = 112 bits (281), Expect = 5e-25
Identities = 59/146 (40%), Positives = 84/146 (57%), Gaps = 15/146 (10%)
Query: 197 EYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQ 256
+ IRN+ + AH+D GK+TLT+ ++ G IS + G D+ E++RGITI+
Sbjct: 17 DQIRNMSVIAHVDHGKSTLTDSLVCKAGIISS--KNAGD---ARFTDTRADEQERGITIK 71
Query: 257 SAAT-----YTLWKDHN-----INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 306
S + L + IN+ID+PGHVDF+ EV ALRV DGA++V+ V GV
Sbjct: 72 STGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCV 131
Query: 307 QTLTVNRQMKRYDVPCIAFINKLDRL 332
QT TV RQ + + + FINK+DR
Sbjct: 132 QTETVLRQALQERIRPVLFINKVDRA 157
Score = 86.3 bits (214), Expect = 4e-17
Identities = 44/101 (43%), Positives = 60/101 (59%), Gaps = 10/101 (9%)
Query: 25 MDSMELERQRGITIQSAAT-----YTLWKDHN-----INIIDTPGHVDFTVEVERALRVL 74
D+ E++RGITI+S + L + IN+ID+PGHVDF+ EV ALRV
Sbjct: 57 TDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVT 116
Query: 75 DGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRL 115
DGA++V+ V GV QT TV RQ + + + FINK+DR
Sbjct: 117 DGALVVVDCVEGVCVQTETVLRQALQERIRPVLFINKVDRA 157
Score = 82.4 bits (204), Expect = 6e-16
Identities = 99/450 (22%), Positives = 178/450 (39%), Gaps = 100/450 (22%)
Query: 461 TLLDAVLDYLPNPGEVTNYAIEN----GQEDKKVVLNPSRDGKHPFIALAFKL----EAG 512
TLL+ ++D+LP+P E Y +EN +D+ + D P + K+ + G
Sbjct: 327 TLLEMIVDHLPSPKEAQKYRVENLYEGPMDDEAANAIRNCDPNGPLMMYISKMVPTSDKG 386
Query: 513 KFGQLTYMRCYQGKLRKGEMIYNVRTDKKVR------------------VSRLVRLHSNE 554
+F + R + G V T +KVR + R V +
Sbjct: 387 RF--YAFGRVFSGT---------VATGQKVRIQGPNYVPGKKEDLFEKNIQRTVLMMGRY 435
Query: 555 MEDVEEVLAGDIFALFGVDCA---SGDTFVTDKNNSISLESI-YVADPVVSMSIKAVNNK 610
+E +E+V G+ L GVD SG +T + ++ + Y PVV ++++ N K
Sbjct: 436 VEQIEDVPCGNTVGLVGVDQYLVKSGT--ITTSETAHNIRDMKYSVSPVVRVAVEPKNPK 493
Query: 611 DRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMGELHLEIYAQRMEREY-NCPVVLGK 669
D + ++R K DP + ES E +V+G GELH+EI + +E +Y N +++
Sbjct: 494 DLPKLVEGLKRLAKSDPLVVCTTE-ESGEHIVAGCGELHVEICLKDLEDDYANIDIIVSD 552
Query: 670 PKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLP-------------PSANTKL 716
P V+++ET+ + L K + ++ R+ EPL P + K
Sbjct: 553 PVVSYRETVTEESSQTCLSKSPN----KHNRLYMKAEPLTEELAEAIEEGKVGPEDDPKE 608
Query: 717 E------------------------------FIDETVGTNVPKPFLPAIIKGFKQMCEKG 746
+D T G + + F+ ++G
Sbjct: 609 RANFLADKYEWDKNDARKIWCFGPENKGPNVLVDVTKGVQYMNEIKDSCVSAFQWATKEG 668
Query: 747 CLSGSRVAGVRMVLKDGDNHMVD-----SNEISFILAAHGAMKQAYEEGVWQILEPIMSV 801
L + G+R + D H D + +I I A ++LEP+ V
Sbjct: 669 VLCDENMRGIRFNILDVTLH-ADAIHRGAGQI--IPTARRVFYACELTASPRLLEPMFLV 725
Query: 802 EISTPIEFQGSVLNLVTKRHGILQGNEGKD 831
+I+ P + G + +++ +R G++ G E +
Sbjct: 726 DITAPEDAMGGIYSVLNRRRGVVIGEEQRP 755
Score = 59.3 bits (144), Expect = 9e-09
Identities = 21/68 (30%), Positives = 40/68 (58%), Gaps = 2/68 (2%)
Query: 935 ILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDW--VTIYAEIPLNDMFGFAGD 992
+LEP+ V+I+ P + G + +++ +R G++ G E + I A +P+ + FGF
Sbjct: 718 LLEPMFLVDITAPEDAMGGIYSVLNRRRGVVIGEEQRPGTPLSNIKAYLPVAESFGFTAA 777
Query: 993 LRSSTQGK 1000
LR++T G+
Sbjct: 778 LRAATSGQ 785
>gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit;
Provisional.
Length = 843
Score = 101 bits (253), Expect = 1e-21
Identities = 56/151 (37%), Positives = 83/151 (54%), Gaps = 25/151 (16%)
Query: 199 IRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAV--MDSMELERQRGITIQ 256
IRN+ + AH+D GK+TLT+ ++ G I++ + G V D+ E +RGITI+
Sbjct: 19 IRNMSVIAHVDHGKSTLTDSLVAAAGIIAQ-------EVAGDVRMTDTRADEAERGITIK 71
Query: 257 SAA-------------TYTLWKDHN---INIIDTPGHVDFTVEVERALRVLDGAILVLCA 300
S + +D N IN+ID+PGHVDF+ EV ALR+ DGA++V+
Sbjct: 72 STGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDC 131
Query: 301 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDR 331
+ GV QT TV RQ + + +NK+DR
Sbjct: 132 IEGVCVQTETVLRQALGERIRPVLTVNKMDR 162
Score = 77.1 bits (190), Expect = 3e-14
Identities = 43/114 (37%), Positives = 61/114 (53%), Gaps = 18/114 (15%)
Query: 19 DNVGAV--MDSMELERQRGITIQSAA-------------TYTLWKDHN---INIIDTPGH 60
+ G V D+ E +RGITI+S + +D N IN+ID+PGH
Sbjct: 49 EVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGH 108
Query: 61 VDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDR 114
VDF+ EV ALR+ DGA++V+ + GV QT TV RQ + + +NK+DR
Sbjct: 109 VDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPVLTVNKMDR 162
Score = 64.4 bits (157), Expect = 3e-10
Identities = 102/467 (21%), Positives = 178/467 (38%), Gaps = 118/467 (25%)
Query: 449 LVGTALKNKGVQTLL---DAVLD----YLPNPGEVTNYAIENGQE----DKKVVLNPSRD 497
L+G AL + +QT L DA+L+ +LP+P + Y +EN E DK + D
Sbjct: 312 LMGKALMKRVMQTWLPASDALLEMIIFHLPSPAKAQRYRVENLYEGPLDDKYATAIRNCD 371
Query: 498 GKHPFIALAFKL----EAGKFGQLTYMRCYQGKLRKGEMIYNVRTDKKVR---------- 543
P + K+ + G+F + R + G V T KVR
Sbjct: 372 PNGPLMLYVSKMIPASDKGRF--FAFGRVFSGT---------VATGMKVRIMGPNYVPGE 420
Query: 544 --------VSRLVRLHSNEMEDVEEVLAGDIFALFGVDCASGDTFVTDKNNSISLESIYV 595
V R V + E VE+V G+ A+ G+D F+T KN +++ E
Sbjct: 421 KKDLYVKSVQRTVIWMGKKQESVEDVPCGNTVAMVGLD-----QFIT-KNATLTNEKEVD 474
Query: 596 ADPVVSMSI-------KAVNNKDRDNFSKAVQ---RFTKEDPTFHFFYDPESKETLVSGM 645
A P+ +M AV K+ + K V+ R K DP + ES E +++G
Sbjct: 475 AHPIKAMKFSVSPVVRVAVQCKNASDLPKLVEGLKRLAKSDPMVQCTIE-ESGEHIIAGA 533
Query: 646 GELHLEIYAQRMEREY--NCPVVLGKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIG 703
GELHLEI + ++ ++ + + P V+F+ET+++ S ++ R+
Sbjct: 534 GELHLEICLKDLQDDFMGGAEIKVSDPVVSFRETVLEKSC----RTVMSKSPNKHNRLYM 589
Query: 704 TLEPLP-------------PSANTKLE------------------------------FID 720
PL P + K+ +D
Sbjct: 590 EARPLEEGLAEAIDDGRIGPRDDPKIRSKILAEEFGWDKDLAKKIWCFGPETTGPNMVVD 649
Query: 721 ETVGTNVPKPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEI-----SF 775
G +++ GF+ ++G L+ + G+ + D H ++ I
Sbjct: 650 MCKGVQYLNEIKDSVVAGFQWATKEGALAEENMRGICFEVCDVVLH---ADAIHRGGGQI 706
Query: 776 ILAAHGAMKQAYEEGVWQILEPIMSVEISTPIEFQGSVLNLVTKRHG 822
I A + + ++LEP+ VEI P + G + +++ ++ G
Sbjct: 707 IPTARRVIYASQLTAKPRLLEPVYLVEIQAPEQALGGIYSVLNQKRG 753
Score = 44.7 bits (106), Expect = 2e-04
Identities = 38/154 (24%), Positives = 70/154 (45%), Gaps = 18/154 (11%)
Query: 861 GDNHMVDS-------NEISFILAAHGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNE 913
G N +VD NEI + A GF+ ++G L+ + G+ + D H ++
Sbjct: 643 GPNMVVDMCKGVQYLNEIKDSVVA-GFQWATKEGALAEENMRGICFEVCDVVLH---ADA 698
Query: 914 I-----SFILAAHGAMKQAYEEGVWQILEPIMSVEISTPIEFQGSVLNLVTKRHGILQGN 968
I I A + + ++LEP+ VEI P + G + +++ ++ G +
Sbjct: 699 IHRGGGQIIPTARRVIYASQLTAKPRLLEPVYLVEIQAPEQALGGIYSVLNQKRGHVFEE 758
Query: 969 EGK--DDWVTIYAEIPLNDMFGFAGDLRSSTQGK 1000
+ I A +P+ + FGF+G LR++T G+
Sbjct: 759 MQRPGTPLYNIKAYLPVIESFGFSGTLRAATSGQ 792
>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 = 83.2 bits (206), Expect = 2e-18
Identities = 36/144 (25%), Positives = 51/144 (35%), Gaps = 26/144 (18%)
Query: 199 IRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA 258
I I + GK+TL R+L I+E + + G T +
Sbjct: 1 EIKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTT------RNYVTTVIEEDGKTYK-- 52
Query: 259 ATYTLWKDHNINIIDTPGHVDF-------TVEVERALRVLDGAILVLCAVGGVQSQTLTV 311
N++DT G D+ VE +LRV D ILVL ++ QT +
Sbjct: 53 ----------FNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEI 102
Query: 312 NRQMKRYDVPCIAFINKLDRLGAD 335
VP I NK+D A
Sbjct: 103 IHH-AESGVPIILVGNKIDLRDAK 125
Score = 57.4 bits (139), Expect = 2e-09
Identities = 26/102 (25%), Positives = 37/102 (36%), Gaps = 20/102 (19%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDF-------TVEVERALRVLDG 76
+ + G T + N++DT G D+ VE +LRV D
Sbjct: 37 RNYVTTVIEEDGKTYK------------FNLLDTAGQEDYDAIRRLYYRAVESSLRVFDI 84
Query: 77 AILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGAD 118
ILVL ++ QT + VP I NK+D A
Sbjct: 85 VILVLDVEEILEKQTKEIIHH-AESGVPIILVGNKIDLRDAK 125
>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 = 72.3 bits (178), Expect = 1e-15
Identities = 31/83 (37%), Positives = 51/83 (61%), Gaps = 2/83 (2%)
Query: 502 FIALAFKLEAGKF-GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEE 560
ALAFK+ G LT++R Y G L++G +YN T KK R+SRL++ +++ +++
Sbjct: 1 LCALAFKVVHDPQRGPLTFVRVYSGTLKRGSALYNTNTGKKERISRLLQPFADQYQEIPS 60
Query: 561 VLAGDIFALFGV-DCASGDTFVT 582
+ AG+I + G+ +GDT VT
Sbjct: 61 LSAGNIGVITGLKQTRTGDTLVT 83
>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 = 70.2 bits (173), Expect = 8e-14
Identities = 52/142 (36%), Positives = 63/142 (44%), Gaps = 26/142 (18%)
Query: 207 HIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKD 266
H+D GKTTL ++I R + NV A E GIT A
Sbjct: 8 HVDHGKTTLLDKI-----RKT---------NVAA----GEA---GGITQHIGAYQVPIDV 46
Query: 267 HN--INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIA 324
I IDTPGH FT R V D AILV+ A GV QT+ K +VP I
Sbjct: 47 KIPGITFIDTPGHEAFTNMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAANVPIIV 106
Query: 325 FINKLDRL---GADPYRVINQM 343
INK+D+ ADP RV N++
Sbjct: 107 AINKIDKPYGTEADPERVKNEL 128
Score = 63.3 bits (155), Expect = 2e-11
Identities = 39/98 (39%), Positives = 46/98 (46%), Gaps = 5/98 (5%)
Query: 34 RGITIQSAATYTLWKDHN--INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT 91
GIT A I IDTPGH FT R V D AILV+ A GV QT
Sbjct: 31 GGITQHIGAYQVPIDVKIPGITFIDTPGHEAFTNMRARGASVTDIAILVVAADDGVMPQT 90
Query: 92 LTVNRQMKRYDVPCIAFINKLDRL---GADPYRVINQM 126
+ K +VP I INK+D+ ADP RV N++
Sbjct: 91 IEAINHAKAANVPIIVAINKIDKPYGTEADPERVKNEL 128
>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 = 72.1 bits (177), Expect = 8e-13
Identities = 49/162 (30%), Positives = 69/162 (42%), Gaps = 29/162 (17%)
Query: 186 SNESLSEHKPIEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSM 245
S + L E P+ + I H+D GKT+L + I K V
Sbjct: 79 SGDLLVERPPV-----VTIMGHVDHGKTSLLDSIR--------------KTKVAQ----- 114
Query: 246 ELERQRGITIQSAATYTLWKDHN--INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGG 303
GIT Q Y + + I +DTPGH FT R +V D +LV+ A G
Sbjct: 115 --GEAGGIT-QHIGAYHVENEDGKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDG 171
Query: 304 VQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQ 345
V QT+ K +VP I INK+D+ A+P RV ++ +
Sbjct: 172 VMPQTIEAISHAKAANVPIIVAINKIDKPEANPDRVKQELSE 213
Score = 68.6 bits (168), Expect = 8e-12
Identities = 35/96 (36%), Positives = 49/96 (51%), Gaps = 3/96 (3%)
Query: 35 GITIQSAATYTLWKDHN--INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTL 92
GIT Q Y + + I +DTPGH FT R +V D +LV+ A GV QT+
Sbjct: 119 GIT-QHIGAYHVENEDGKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTI 177
Query: 93 TVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQ 128
K +VP I INK+D+ A+P RV ++ +
Sbjct: 178 EAISHAKAANVPIIVAINKIDKPEANPDRVKQELSE 213
>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 428
Score = 70.4 bits (173), Expect = 1e-12
Identities = 38/120 (31%), Positives = 57/120 (47%), Gaps = 10/120 (8%)
Query: 207 HIDSGKTTLTERILFYTGRISE--------MHEVRGKDN--VGAVMDSMELERQRGITIQ 256
H+D+GK+TL R+L+ G I + + GK++ V+D + ER+RG+TI
Sbjct: 15 HVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTID 74
Query: 257 SAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMK 316
A + +N IID PGH DF + D A+LV+ A G V Q +
Sbjct: 75 VAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTR 134
Score = 52.7 bits (127), Expect = 6e-07
Identities = 26/76 (34%), Positives = 36/76 (47%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
V+D + ER+RG+TI A + +N IID PGH DF + D A+LV+ A
Sbjct: 59 VLDKTKEERERGVTIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDA 118
Query: 84 VGGVQSQTLTVNRQMK 99
G V Q +
Sbjct: 119 RDGEFEAGFGVGGQTR 134
>gnl|CDD|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed.
Length = 425
Score = 70.0 bits (172), Expect = 3e-12
Identities = 52/169 (30%), Positives = 79/169 (46%), Gaps = 30/169 (17%)
Query: 201 NIGISAHIDSGKTTLTERILFYTG--------RISEMHEVRGK--DNVGAVMDSMELERQ 250
N+ + H+D GK+TL R+L+ TG + E + +GK VMD ++ ER+
Sbjct: 8 NLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERE 67
Query: 251 RGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA--VGGVQSQ- 307
RG+TI A + I+D PGH DF + D A+LV+ A GGV Q
Sbjct: 68 RGVTIDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQT 127
Query: 308 --------TLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVG 348
TL +N Q+ I INK+D + D R +++++V
Sbjct: 128 REHVFLARTLGIN-QL-------IVAINKMDAVNYDEKR-YEEVKEEVS 167
Score = 50.3 bits (121), Expect = 3e-06
Identities = 35/101 (34%), Positives = 47/101 (46%), Gaps = 19/101 (18%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
VMD ++ ER+RG+TI A + I+D PGH DF + D A+LV+ A
Sbjct: 58 VMDRLKEERERGVTIDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAA 117
Query: 84 --VGGVQSQ---------TLTVNRQMKRYDVPCIAFINKLD 113
GGV Q TL +N Q+ I INK+D
Sbjct: 118 DDAGGVMPQTREHVFLARTLGIN-QL-------IVAINKMD 150
>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 = 64.4 bits (158), Expect = 2e-11
Identities = 28/90 (31%), Positives = 48/90 (53%), Gaps = 10/90 (11%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISE--MHEVR------GKDN--VGAVMDSMELERQ 250
N+ + H+D+GK+TLT +L+ G + + + + GK++ V+D ++ ER+
Sbjct: 1 NLVVIGHVDAGKSTLTGHLLYKLGGVDKRTIEKYEKEAKEMGKESFKYAWVLDKLKEERE 60
Query: 251 RGITIQSAATYTLWKDHNINIIDTPGHVDF 280
RG+TI + + IID PGH DF
Sbjct: 61 RGVTIDVGLAKFETEKYRFTIIDAPGHRDF 90
Score = 45.6 bits (109), Expect = 4e-05
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDF 63
V+D ++ ER+RG+TI + + IID PGH DF
Sbjct: 51 VLDKLKEERERGVTIDVGLAKFETEKYRFTIIDAPGHRDF 90
Score = 35.5 bits (83), Expect = 0.073
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 150 NIGISAHIDSGKTTLTERILFYTGRISE 177
N+ + H+D+GK+TLT +L+ G + +
Sbjct: 1 NLVVIGHVDAGKSTLTGHLLYKLGGVDK 28
>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 = 60.7 bits (148), Expect = 4e-11
Identities = 31/122 (25%), Positives = 53/122 (43%), Gaps = 12/122 (9%)
Query: 674 FKETLVQP----FDFDYLHKKQSGGSGQYGRVIGTLEPLP-PSANTKLEFIDETVGTNVP 728
++ET+ + +F+ ++ GG Q+G V +EPL S +D +P
Sbjct: 1 YRETIRKSVEATGEFE----RELGGKPQFGEVTLRVEPLERGSGV---RVVDPVDEELLP 53
Query: 729 KPFLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAHGAMKQAYE 788
A+ +G + C G L+G + VR+ + D H S E F AA A + A +
Sbjct: 54 AELKEAVEEGIRDACASGPLTGYPLTDVRVTVLDVPYHEGVSTEAGFRAAAGRAFESAAQ 113
Query: 789 EG 790
+
Sbjct: 114 KA 115
Score = 39.1 bits (92), Expect = 0.002
Identities = 22/84 (26%), Positives = 34/84 (40%), Gaps = 5/84 (5%)
Query: 849 SRVAGVRMVLKDGDNHMVDSNEISFILAA-HGFKQMCEKGCLSGSRVAGVRMVLKDGDNH 907
R +GVR+V + + A G + C G L+G + VR+ + D H
Sbjct: 36 ERGSGVRVVDPVDEELLP----AELKEAVEEGIRDACASGPLTGYPLTDVRVTVLDVPYH 91
Query: 908 MVDSNEISFILAAHGAMKQAYEEG 931
S E F AA A + A ++
Sbjct: 92 EGVSTEAGFRAAAGRAFESAAQKA 115
Score = 31.1 bits (71), Expect = 0.83
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 841 CEKGCLSGSRVAGVRMVLKDGDNHMVDSNEISFILAAH-GFKQMCEKG 887
C G L+G + VR+ + D H S E F AA F+ +K
Sbjct: 68 CASGPLTGYPLTDVRVTVLDVPYHEGVSTEAGFRAAAGRAFESAAQKA 115
>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 = 58.4 bits (142), Expect = 7e-11
Identities = 23/70 (32%), Positives = 30/70 (42%), Gaps = 3/70 (4%)
Query: 515 GQLTYMRCYQGKLRKGEMIYNV--RTDKKVRVSRLVRLHSNEMEDVEEVLAGDIFALFGV 572
G + R G L+KG+ + T KK RV+ L H + E V AG I A G+
Sbjct: 1 GTVATGRVESGTLKKGDKVVIGPNGTGKKGRVTSLEMFHGDLREAVAGANAGIILAGIGL 60
Query: 573 DCAS-GDTFV 581
GDT
Sbjct: 61 KDIKRGDTLT 70
>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 = 62.2 bits (152), Expect = 7e-11
Identities = 48/135 (35%), Positives = 66/135 (48%), Gaps = 14/135 (10%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA-A 259
N+G H+D GKTTLT I T +++ + K +D E+ RGITI +A
Sbjct: 4 NVGTIGHVDHGKTTLTAAI---TKVLAKKGGAKAKK--YDEIDKAPEEKARGITINTAHV 58
Query: 260 TYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQMK 316
Y H + +D PGH D+ + +DGAILV+ A G QT L + RQ+
Sbjct: 59 EYETANRHYAH-VDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQV- 116
Query: 317 RYDVPCIA-FINKLD 330
VP I F+NK D
Sbjct: 117 --GVPYIVVFLNKAD 129
Score = 46.4 bits (111), Expect = 2e-05
Identities = 34/88 (38%), Positives = 45/88 (51%), Gaps = 9/88 (10%)
Query: 31 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 89
E+ RGITI +A Y H ++ D PGH D+ + +DGAILV+ A G
Sbjct: 46 EKARGITINTAHVEYETANRHYAHV-DCPGHADYIKNMITGAAQMDGAILVVSATDGPMP 104
Query: 90 QT---LTVNRQMKRYDVPCIA-FINKLD 113
QT L + RQ+ VP I F+NK D
Sbjct: 105 QTREHLLLARQV---GVPYIVVFLNKAD 129
Score = 30.6 bits (70), Expect = 2.6
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 150 NIGISAHIDSGKTTLTERI 168
N+G H+D GKTTLT I
Sbjct: 4 NVGTIGHVDHGKTTLTAAI 22
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 65.6 bits (160), Expect = 1e-10
Identities = 55/197 (27%), Positives = 82/197 (41%), Gaps = 39/197 (19%)
Query: 172 TGRISEMHETSRWISNESLSEHKPIEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHE 231
+ S + TS E+ PI + I H+D GKTTL + +
Sbjct: 224 NEKTSNLDNTS--AFTENSINRPPI-----VTILGHVDHGKTTL-------------LDK 263
Query: 232 VRGKDNVGAVMDSMELERQRGITIQSAATYTLW--KDHNINII--DTPGHVDFTVEVERA 287
+R + GIT + A + KD N I+ DTPGH F+ R
Sbjct: 264 IRKTQIAQ--------KEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRG 315
Query: 288 LRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKV 347
V D AIL++ A GV+ QT+ ++ +VP I INK+D+ A+ R+ Q+
Sbjct: 316 ANVTDIAILIIAADDGVKPQTIEAINYIQAANVPIIVAINKIDKANANTERIKQQL---- 371
Query: 348 GHNAAFLQIPIGLGSET 364
A + IP G +T
Sbjct: 372 ---AKYNLIPEKWGGDT 385
Score = 57.1 bits (138), Expect = 3e-08
Identities = 35/98 (35%), Positives = 52/98 (53%), Gaps = 4/98 (4%)
Query: 35 GITIQSAATYTLW--KDHNINII--DTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQ 90
GIT + A + KD N I+ DTPGH F+ R V D AIL++ A GV+ Q
Sbjct: 276 GITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQ 335
Query: 91 TLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQ 128
T+ ++ +VP I INK+D+ A+ R+ Q+ +
Sbjct: 336 TIEAINYIQAANVPIIVAINKIDKANANTERIKQQLAK 373
>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 509
Score = 64.5 bits (158), Expect = 2e-10
Identities = 49/143 (34%), Positives = 63/143 (44%), Gaps = 24/143 (16%)
Query: 207 HIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLW-- 264
H+D GKTTL ++I R K NV A GIT A
Sbjct: 13 HVDHGKTTLLDKI-------------R-KTNVAA-------GEAGGITQHIGAYQVPLDV 51
Query: 265 -KDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCI 323
K I IDTPGH FT R V D AILV+ A GV QT+ K VP +
Sbjct: 52 IKIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVPIV 111
Query: 324 AFINKLDRLGADPYRVINQMRQK 346
INK+D+ A+P +V ++++
Sbjct: 112 VAINKIDKPEANPDKVKQELQEY 134
Score = 61.8 bits (151), Expect = 9e-10
Identities = 36/98 (36%), Positives = 47/98 (47%), Gaps = 3/98 (3%)
Query: 35 GITIQSAATYTLW---KDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT 91
GIT A K I IDTPGH FT R V D AILV+ A GV QT
Sbjct: 37 GITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQT 96
Query: 92 LTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
+ K VP + INK+D+ A+P +V ++++
Sbjct: 97 IEAINHAKAAGVPIVVAINKIDKPEANPDKVKQELQEY 134
>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 = 63.7 bits (155), Expect = 2e-10
Identities = 52/182 (28%), Positives = 79/182 (43%), Gaps = 44/182 (24%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMH--------EVRGKDNV--GAVMDSMELERQ 250
N+ H+D GK+T +L+ G I E + +GK + VMD ++ ER+
Sbjct: 9 NVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERE 68
Query: 251 RGITIQSAATYTLWK----DHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGG--- 303
RG+TI A WK + + I+D PGH DF + D A+LV+ G
Sbjct: 69 RGVTIDVA----HWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFE 124
Query: 304 VQSQ---------TLTVNRQMKRYDVPCIAFINKLDRLGADPYR------VINQMRQKVG 348
VQ Q TL +N+ I INK+D + D ++ + +KVG
Sbjct: 125 VQPQTREHAFLARTLGINQ--------LIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVG 176
Query: 349 HN 350
+N
Sbjct: 177 YN 178
Score = 49.9 bits (119), Expect = 6e-06
Identities = 40/139 (28%), Positives = 60/139 (43%), Gaps = 29/139 (20%)
Query: 12 QEQVRGKDNVGAVMDSMELERQRGITIQSAATYTLWK----DHNINIIDTPGHVDFTVEV 67
QE+ + VMD ++ ER+RG+TI A WK + + I+D PGH DF +
Sbjct: 47 QEKGKASFEFAWVMDRLKEERERGVTIDVA----HWKFETDKYEVTIVDCPGHRDFIKNM 102
Query: 68 ERALRVLDGAILVLCAVGG---VQSQ---------TLTVNRQMKRYDVPCIAFINKLDRL 115
D A+LV+ G VQ Q TL +N+ I INK+D +
Sbjct: 103 ITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQ--------LIVAINKMDSV 154
Query: 116 GADPYRVINQMRQKTSRWI 134
D ++++ S I
Sbjct: 155 NYDEEE-FEAIKKEVSNLI 172
>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 = 57.2 bits (139), Expect = 3e-10
Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKD--DWVTIYAEIPLNDMFGFAGDLR 994
EPI VEI P + G V ++++KR G + E K+ I A +P+ + FGF DLR
Sbjct: 1 EPIYLVEIQCPEDALGKVYSVLSKRRGHVLSEEPKEGTPLFEIKAYLPVIESFGFETDLR 60
Query: 995 SSTQGKGEFSMDYSRYSP 1012
S+T G+ + +S +
Sbjct: 61 SATSGQAFPQLVFSHWEI 78
Score = 33.7 bits (78), Expect = 0.048
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 796 EPIMSVEISTPIEFQGSVLNLVTKRHGI 823
EPI VEI P + G V ++++KR G
Sbjct: 1 EPIYLVEIQCPEDALGKVYSVLSKRRGH 28
>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors
[Translation, ribosomal structure and biogenesis].
Length = 394
Score = 62.3 bits (152), Expect = 5e-10
Identities = 47/135 (34%), Positives = 65/135 (48%), Gaps = 14/135 (10%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA-A 259
N+G H+D GKTTLT I T +++ K +D+ E+ RGITI +A
Sbjct: 14 NVGTIGHVDHGKTTLTAAI---TTVLAKKGGAEAKAY--DQIDNAPEEKARGITINTAHV 68
Query: 260 TYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQMK 316
Y H +D PGH D+ + +DGAILV+ A G QT + + RQ
Sbjct: 69 EYETANRH-YAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQ-- 125
Query: 317 RYDVPCI-AFINKLD 330
VP I F+NK+D
Sbjct: 126 -VGVPYIVVFLNKVD 139
Score = 46.5 bits (111), Expect = 4e-05
Identities = 33/88 (37%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 31 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 89
E+ RGITI +A Y H +D PGH D+ + +DGAILV+ A G
Sbjct: 56 EKARGITINTAHVEYETANRH-YAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMP 114
Query: 90 QT---LTVNRQMKRYDVPCI-AFINKLD 113
QT + + RQ VP I F+NK+D
Sbjct: 115 QTREHILLARQ---VGVPYIVVFLNKVD 139
Score = 30.3 bits (69), Expect = 5.2
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 150 NIGISAHIDSGKTTLTERI 168
N+G H+D GKTTLT I
Sbjct: 14 NVGTIGHVDHGKTTLTAAI 32
>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation
factor [Translation, ribosomal structure and
biogenesis].
Length = 447
Score = 62.8 bits (153), Expect = 5e-10
Identities = 49/173 (28%), Positives = 72/173 (41%), Gaps = 24/173 (13%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAAT 260
IG + HID GKTTL + + G V D + E++RGITI
Sbjct: 2 IIGTAGHIDHGKTTLLKAL------------------TGGVTDRLPEEKKRGITIDLGFY 43
Query: 261 YTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
Y +D + ID PGH DF + L +D A+LV+ A G+ +QT + +
Sbjct: 44 YRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGI 103
Query: 321 PCIAF-INKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETK--GIIDL 370
+ K DR D R I Q +++ + + I S GI +L
Sbjct: 104 KNGIIVLTKADR--VDEAR-IEQKIKQILADLSLANAKIFKTSAKTGRGIEEL 153
Score = 48.9 bits (117), Expect = 9e-06
Identities = 36/123 (29%), Positives = 56/123 (45%), Gaps = 5/123 (4%)
Query: 7 IIHIKQEQVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVE 66
I H K ++ G V D + E++RGITI Y +D + ID PGH DF
Sbjct: 9 IDHGKTTLLKALT--GGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISN 66
Query: 67 VERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAF-INKLDRLGADPYRVINQ 125
+ L +D A+LV+ A G+ +QT + + + K DR D R+ +
Sbjct: 67 LLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGIKNGIIVLTKADR--VDEARIEQK 124
Query: 126 MRQ 128
++Q
Sbjct: 125 IKQ 127
>gnl|CDD|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed.
Length = 394
Score = 61.1 bits (149), Expect = 1e-09
Identities = 50/135 (37%), Positives = 71/135 (52%), Gaps = 14/135 (10%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA-A 259
NIG H+D GKTTLT I T ++E + KD +D+ E++RGITI +A
Sbjct: 14 NIGTIGHVDHGKTTLTAAI---TKVLAERGLNQAKDY--DSIDAAPEEKERGITINTAHV 68
Query: 260 TYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQMK 316
Y K H + +D PGH D+ + +DGAILV+ A G QT + + RQ+
Sbjct: 69 EYETEKRHYAH-VDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQV- 126
Query: 317 RYDVPCI-AFINKLD 330
VP + F+NK+D
Sbjct: 127 --GVPYLVVFLNKVD 139
Score = 44.2 bits (105), Expect = 3e-04
Identities = 33/88 (37%), Positives = 48/88 (54%), Gaps = 9/88 (10%)
Query: 31 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 89
E++RGITI +A Y K H ++ D PGH D+ + +DGAILV+ A G
Sbjct: 56 EKERGITINTAHVEYETEKRHYAHV-DCPGHADYVKNMITGAAQMDGAILVVAATDGPMP 114
Query: 90 QT---LTVNRQMKRYDVPCI-AFINKLD 113
QT + + RQ+ VP + F+NK+D
Sbjct: 115 QTREHILLARQV---GVPYLVVFLNKVD 139
Score = 31.8 bits (73), Expect = 1.9
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 150 NIGISAHIDSGKTTLTERI 168
NIG H+D GKTTLT I
Sbjct: 14 NIGTIGHVDHGKTTLTAAI 32
>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional.
Length = 447
Score = 61.0 bits (148), Expect = 2e-09
Identities = 51/156 (32%), Positives = 72/156 (46%), Gaps = 15/156 (9%)
Query: 179 HETSRWISNESLSEHKPIEYIRNIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNV 238
+ W S + + KP N+G H+D GKTTLT I T ++E GK
Sbjct: 44 SPSPWWRSMATFTRTKPH---VNVGTIGHVDHGKTTLTAAI---TKVLAE----EGKAKA 93
Query: 239 GAV--MDSMELERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAI 295
A +D E+ RGITI +A Y K H + +D PGH D+ + +DG I
Sbjct: 94 VAFDEIDKAPEEKARGITIATAHVEYETAKRHYAH-VDCPGHADYVKNMITGAAQMDGGI 152
Query: 296 LVLCAVGGVQSQTLTVNRQMKRYDVPCIA-FINKLD 330
LV+ A G QT ++ VP + F+NK+D
Sbjct: 153 LVVSAPDGPMPQTKEHILLARQVGVPSLVVFLNKVD 188
Score = 44.0 bits (104), Expect = 4e-04
Identities = 30/85 (35%), Positives = 43/85 (50%), Gaps = 3/85 (3%)
Query: 31 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 89
E+ RGITI +A Y K H ++ D PGH D+ + +DG ILV+ A G
Sbjct: 105 EKARGITIATAHVEYETAKRHYAHV-DCPGHADYVKNMITGAAQMDGGILVVSAPDGPMP 163
Query: 90 QTLTVNRQMKRYDVPCIA-FINKLD 113
QT ++ VP + F+NK+D
Sbjct: 164 QTKEHILLARQVGVPSLVVFLNKVD 188
Score = 31.7 bits (72), Expect = 2.3
Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 8/55 (14%)
Query: 114 RLGADPYRVINQMRQKTSRWISNESLSEHKPIEYIRNIGISAHIDSGKTTLTERI 168
+ A R + W S + + KP N+G H+D GKTTLT I
Sbjct: 35 SISAADDRQSP-----SPWWRSMATFTRTKPH---VNVGTIGHVDHGKTTLTAAI 81
>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 = 58.4 bits (142), Expect = 2e-09
Identities = 35/113 (30%), Positives = 53/113 (46%), Gaps = 11/113 (9%)
Query: 207 HIDSGKTTLTERILFYTGRISE--MHEVRGKDNVGA---------VMDSMELERQRGITI 255
+D GK+TL R+L+ + I E + + + G ++D ++ ER++GITI
Sbjct: 7 SVDDGKSTLIGRLLYDSKSIFEDQLAALERSKSSGTQGEKLDLALLVDGLQAEREQGITI 66
Query: 256 QSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT 308
A Y I DTPGH +T + D AIL++ A GV QT
Sbjct: 67 DVAYRYFSTPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT 119
Score = 47.2 bits (113), Expect = 1e-05
Identities = 25/68 (36%), Positives = 35/68 (51%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
++D ++ ER++GITI A Y I DTPGH +T + D AIL++ A
Sbjct: 52 LVDGLQAEREQGITIDVAYRYFSTPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDA 111
Query: 84 VGGVQSQT 91
GV QT
Sbjct: 112 RKGVLEQT 119
>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 = 60.2 bits (146), Expect = 3e-09
Identities = 49/137 (35%), Positives = 67/137 (48%), Gaps = 18/137 (13%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMH--EVRGKDNVGAVMDSMELERQRGITIQSA 258
NIG H+D GKTTLT I T +++ R D + D+ E+ RGITI +A
Sbjct: 14 NIGTIGHVDHGKTTLTAAI---TTVLAKEGGAAARAYDQI----DNAPEEKARGITINTA 66
Query: 259 -ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQ 314
Y H + +D PGH D+ + +DGAILV+ A G QT + + RQ
Sbjct: 67 HVEYETENRHYAH-VDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQ 125
Query: 315 MKRYDVPCI-AFINKLD 330
+ VP I F+NK D
Sbjct: 126 V---GVPYIVVFLNKCD 139
Score = 45.2 bits (107), Expect = 1e-04
Identities = 34/94 (36%), Positives = 48/94 (51%), Gaps = 9/94 (9%)
Query: 25 MDSMELERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
+D+ E+ RGITI +A Y H ++ D PGH D+ + +DGAILV+ A
Sbjct: 50 IDNAPEEKARGITINTAHVEYETENRHYAHV-DCPGHADYVKNMITGAAQMDGAILVVSA 108
Query: 84 VGGVQSQT---LTVNRQMKRYDVPCI-AFINKLD 113
G QT + + RQ+ VP I F+NK D
Sbjct: 109 TDGPMPQTREHILLARQV---GVPYIVVFLNKCD 139
Score = 29.7 bits (67), Expect = 7.9
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 150 NIGISAHIDSGKTTLTERI 168
NIG H+D GKTTLT I
Sbjct: 14 NIGTIGHVDHGKTTLTAAI 32
>gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed.
Length = 396
Score = 59.1 bits (144), Expect = 6e-09
Identities = 47/137 (34%), Positives = 68/137 (49%), Gaps = 18/137 (13%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMH--EVRGKDNVGAVMDSMELERQRGITIQSA 258
N+G H+D GKTTLT I T +++ E + D + D+ E+ RGITI ++
Sbjct: 14 NVGTIGHVDHGKTTLTAAI---TKVLAKKGGGEAKAYDQI----DNAPEEKARGITINTS 66
Query: 259 -ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQ 314
Y H + +D PGH D+ + +DGAILV+ A G QT + + RQ
Sbjct: 67 HVEYETANRHYAH-VDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQ 125
Query: 315 MKRYDVPCI-AFINKLD 330
+ VP I F+NK D
Sbjct: 126 V---GVPYIVVFLNKCD 139
Score = 42.1 bits (100), Expect = 0.001
Identities = 32/88 (36%), Positives = 45/88 (51%), Gaps = 9/88 (10%)
Query: 31 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 89
E+ RGITI ++ Y H ++ D PGH D+ + +DGAILV+ A G
Sbjct: 56 EKARGITINTSHVEYETANRHYAHV-DCPGHADYVKNMITGAAQMDGAILVVSAADGPMP 114
Query: 90 QT---LTVNRQMKRYDVPCI-AFINKLD 113
QT + + RQ+ VP I F+NK D
Sbjct: 115 QTREHILLARQV---GVPYIVVFLNKCD 139
Score = 31.3 bits (72), Expect = 2.8
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 150 NIGISAHIDSGKTTLTERI 168
N+G H+D GKTTLT I
Sbjct: 14 NVGTIGHVDHGKTTLTAAI 32
>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 = 53.4 bits (129), Expect = 6e-09
Identities = 19/77 (24%), Positives = 34/77 (44%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTIYAEIPLNDMFGFAGDLRSS 996
EP + E+ P + G ++ + K + + K D VT+ IP+ + +L S
Sbjct: 1 EPYLRFELEVPQDALGRAMSDLAKMGATFEDPQIKGDEVTLEGTIPVATSQDYQSELPSY 60
Query: 997 TQGKGEFSMDYSRYSPA 1013
T G+G ++ Y P
Sbjct: 61 THGEGVLETEFKGYRPC 77
Score = 29.9 bits (68), Expect = 1.3
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 796 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNEGKDDWVTI 836
EP + E+ P + G ++ + K + + K D VT+
Sbjct: 1 EPYLRFELEVPQDALGRAMSDLAKMGATFEDPQIKGDEVTL 41
>gnl|CDD|177010 CHL00071, tufA, elongation factor Tu.
Length = 409
Score = 58.4 bits (142), Expect = 9e-09
Identities = 48/137 (35%), Positives = 68/137 (49%), Gaps = 14/137 (10%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSA-A 259
NIG H+D GKTTLT I T ++ + K +DS E+ RGITI +A
Sbjct: 14 NIGTIGHVDHGKTTLTAAI---TMTLAAKGGAKAKKY--DEIDSAPEEKARGITINTAHV 68
Query: 260 TYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQMK 316
Y H + +D PGH D+ + +DGAILV+ A G QT + + +Q+
Sbjct: 69 EYETENRHYAH-VDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQV- 126
Query: 317 RYDVPCI-AFINKLDRL 332
VP I F+NK D++
Sbjct: 127 --GVPNIVVFLNKEDQV 141
Score = 42.6 bits (101), Expect = 0.001
Identities = 34/95 (35%), Positives = 49/95 (51%), Gaps = 9/95 (9%)
Query: 26 DSMELERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 84
DS E+ RGITI +A Y H ++ D PGH D+ + +DGAILV+ A
Sbjct: 51 DSAPEEKARGITINTAHVEYETENRHYAHV-DCPGHADYVKNMITGAAQMDGAILVVSAA 109
Query: 85 GGVQSQT---LTVNRQMKRYDVPCI-AFINKLDRL 115
G QT + + +Q+ VP I F+NK D++
Sbjct: 110 DGPMPQTKEHILLAKQV---GVPNIVVFLNKEDQV 141
Score = 31.5 bits (72), Expect = 2.7
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 150 NIGISAHIDSGKTTLTERI 168
NIG H+D GKTTLT I
Sbjct: 14 NIGTIGHVDHGKTTLTAAI 32
>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 = 58.7 bits (142), Expect = 9e-09
Identities = 38/132 (28%), Positives = 54/132 (40%), Gaps = 19/132 (14%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAAT 260
I + H+D GKTTL + + G D + E++RG+TI
Sbjct: 2 IIATAGHVDHGKTTLLKAL------------------TGIAADRLPEEKKRGMTIDLGFA 43
Query: 261 YTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
Y D+ + ID PGH F +D A+LV+ A GV +QT + +
Sbjct: 44 YFPLPDYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGI 103
Query: 321 PC-IAFINKLDR 331
P I I K DR
Sbjct: 104 PHTIVVITKADR 115
Score = 48.3 bits (115), Expect = 2e-05
Identities = 28/85 (32%), Positives = 39/85 (45%), Gaps = 1/85 (1%)
Query: 31 ERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQ 90
E++RG+TI Y D+ + ID PGH F +D A+LV+ A GV +Q
Sbjct: 31 EKKRGMTIDLGFAYFPLPDYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQ 90
Query: 91 TLTVNRQMKRYDVPC-IAFINKLDR 114
T + +P I I K DR
Sbjct: 91 TGEHLAVLDLLGIPHTIVVITKADR 115
>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 = 54.9 bits (133), Expect = 2e-08
Identities = 38/146 (26%), Positives = 58/146 (39%), Gaps = 22/146 (15%)
Query: 202 IGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATY 261
IG + HID GKTTL + + TG + D + E++RGITI Y
Sbjct: 2 IGTAGHIDHGKTTLIKAL---TGIET---------------DRLPEEKKRGITIDLGFAY 43
Query: 262 T-LWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
L + ID PGH F + +D +LV+ A G+ QT ++ +
Sbjct: 44 LDLPDGKRLGFIDVPGHEKFVKNMLAGAGGIDAVLLVVAADEGIMPQTREHLEILELLGI 103
Query: 321 P-CIAFINKLDRLGADPYRVINQMRQ 345
+ + K D D R+ +
Sbjct: 104 KKGLVVLTKADL--VDEDRLELVEEE 127
Score = 44.1 bits (105), Expect = 6e-05
Identities = 26/105 (24%), Positives = 42/105 (40%), Gaps = 4/105 (3%)
Query: 26 DSMELERQRGITIQSAATYT-LWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 84
D + E++RGITI Y L + ID PGH F + +D +LV+ A
Sbjct: 25 DRLPEEKKRGITIDLGFAYLDLPDGKRLGFIDVPGHEKFVKNMLAGAGGIDAVLLVVAAD 84
Query: 85 GGVQSQTLTVNRQMKRYDVP-CIAFINKLDRLGADPYRVINQMRQ 128
G+ QT ++ + + + K D D R+ +
Sbjct: 85 EGIMPQTREHLEILELLGIKKGLVVLTKADL--VDEDRLELVEEE 127
>gnl|CDD|234596 PRK00049, PRK00049, elongation factor Tu; Reviewed.
Length = 396
Score = 57.5 bits (140), Expect = 2e-08
Identities = 49/137 (35%), Positives = 68/137 (49%), Gaps = 18/137 (13%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMH--EVRGKDNVGAVMDSMELERQRGITIQSA 258
N+G H+D GKTTLT I T +++ E + D + D E+ RGITI +A
Sbjct: 14 NVGTIGHVDHGKTTLTAAI---TKVLAKKGGAEAKAYDQI----DKAPEEKARGITINTA 66
Query: 259 -ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT---LTVNRQ 314
Y K H + +D PGH D+ + +DGAILV+ A G QT + + RQ
Sbjct: 67 HVEYETEKRHYAH-VDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQ 125
Query: 315 MKRYDVPCI-AFINKLD 330
+ VP I F+NK D
Sbjct: 126 V---GVPYIVVFLNKCD 139
Score = 41.7 bits (99), Expect = 0.002
Identities = 34/88 (38%), Positives = 46/88 (52%), Gaps = 9/88 (10%)
Query: 31 ERQRGITIQSA-ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 89
E+ RGITI +A Y K H ++ D PGH D+ + +DGAILV+ A G
Sbjct: 56 EKARGITINTAHVEYETEKRHYAHV-DCPGHADYVKNMITGAAQMDGAILVVSAADGPMP 114
Query: 90 QT---LTVNRQMKRYDVPCI-AFINKLD 113
QT + + RQ+ VP I F+NK D
Sbjct: 115 QTREHILLARQV---GVPYIVVFLNKCD 139
Score = 31.3 bits (72), Expect = 2.9
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 150 NIGISAHIDSGKTTLTERI 168
N+G H+D GKTTLT I
Sbjct: 14 NVGTIGHVDHGKTTLTAAI 32
>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional.
Length = 478
Score = 57.3 bits (138), Expect = 3e-08
Identities = 45/135 (33%), Positives = 65/135 (48%), Gaps = 10/135 (7%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGK--DNVGAVMDSMELERQRGITIQSA 258
NIG H+D GKTTLT + T ++ M K D + D+ ER RGITI +A
Sbjct: 83 NIGTIGHVDHGKTTLTAAL---TMALASMGGSAPKKYDEI----DAAPEERARGITINTA 135
Query: 259 ATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRY 318
++ + +D PGH D+ + +DGAILV+ G QT K+
Sbjct: 136 TVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQV 195
Query: 319 DVP-CIAFINKLDRL 332
VP + F+NK D++
Sbjct: 196 GVPNMVVFLNKQDQV 210
Score = 45.8 bits (108), Expect = 1e-04
Identities = 30/92 (32%), Positives = 46/92 (50%), Gaps = 1/92 (1%)
Query: 25 MDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAV 84
+D+ ER RGITI +A ++ + +D PGH D+ + +DGAILV+
Sbjct: 119 IDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGA 178
Query: 85 GGVQSQTLTVNRQMKRYDVP-CIAFINKLDRL 115
G QT K+ VP + F+NK D++
Sbjct: 179 DGPMPQTKEHILLAKQVGVPNMVVFLNKQDQV 210
>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 = 53.2 bits (128), Expect = 4e-08
Identities = 26/149 (17%), Positives = 48/149 (32%), Gaps = 25/149 (16%)
Query: 209 DSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHN 268
GK++L +L VG V D
Sbjct: 7 GVGKSSLLNALL--------------GGEVGEVSD----VPGTTRDPDVYVKELDKGKVK 48
Query: 269 INIIDTPGHVDFTV-----EVERALRVLDGAILVLCAVGG--VQSQTLTVNRQMKRYDVP 321
+ ++DTPG +F LR D +LV+ + + L + R++++ +P
Sbjct: 49 LVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIP 108
Query: 322 CIAFINKLDRLGADPYRVINQMRQKVGHN 350
I NK+D L + ++ +
Sbjct: 109 IILVGNKIDLLEEREVEELLRLEELAKIL 137
Score = 46.7 bits (111), Expect = 1e-05
Identities = 18/89 (20%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 48 KDHNINIIDTPGHVDFTV-----EVERALRVLDGAILVLCAVGG--VQSQTLTVNRQMKR 100
+ ++DTPG +F LR D +LV+ + + L + R++++
Sbjct: 45 GKVKLVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRK 104
Query: 101 YDVPCIAFINKLDRLGADPYRVINQMRQK 129
+P I NK+D L + ++ +
Sbjct: 105 EGIPIILVGNKIDLLEEREVEELLRLEEL 133
>gnl|CDD|185474 PTZ00141, PTZ00141, elongation factor 1- alpha; Provisional.
Length = 446
Score = 54.8 bits (132), Expect = 1e-07
Identities = 40/119 (33%), Positives = 57/119 (47%), Gaps = 22/119 (18%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRI------------SEMHEVRGKDNVGAVMDSMELE 248
N+ + H+DSGK+T T +++ G I +EM +G V+D ++ E
Sbjct: 9 NLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMG--KGSFKYAWVLDKLKAE 66
Query: 249 RQRGITIQSAATYTLWK----DHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGG 303
R+RGITI A LWK + IID PGH DF + D AILV+ + G
Sbjct: 67 RERGITIDIA----LWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAG 121
Score = 44.7 bits (106), Expect = 2e-04
Identities = 27/67 (40%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 24 VMDSMELERQRGITIQSAATYTLWK----DHNINIIDTPGHVDFTVEVERALRVLDGAIL 79
V+D ++ ER+RGITI A LWK + IID PGH DF + D AIL
Sbjct: 59 VLDKLKAERERGITIDIA----LWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAIL 114
Query: 80 VLCAVGG 86
V+ + G
Sbjct: 115 VVASTAG 121
>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 = 49.0 bits (118), Expect = 2e-07
Identities = 22/74 (29%), Positives = 40/74 (54%), Gaps = 6/74 (8%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQGNE--GKDDWVTIYAEIPLNDM-FGFAGDL 993
EP + I TP E+ G+++ L +R G+ + E + + Y E+PL ++ + F L
Sbjct: 1 EPFVKATIITPSEYLGAIMELCQERRGVQKDMEYLDANRVMLTY-ELPLAEIVYDFFDKL 59
Query: 994 RSSTQGKGEFSMDY 1007
+S ++G S+DY
Sbjct: 60 KSISKGYA--SLDY 71
Score = 35.5 bits (83), Expect = 0.011
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 796 EPIMSVEISTPIEFQGSVLNLVTKRHGILQ 825
EP + I TP E+ G+++ L +R G+ +
Sbjct: 1 EPFVKATIITPSEYLGAIMELCQERRGVQK 30
>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 = 53.9 bits (130), Expect = 2e-07
Identities = 34/113 (30%), Positives = 52/113 (46%), Gaps = 12/113 (10%)
Query: 208 IDSGKTTLTERILFYTGRISEMH------EVRGKDNVGA------VMDSMELERQRGITI 255
+D GK+TL R+L T +I E + + G ++D ++ ER++GITI
Sbjct: 9 VDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITI 68
Query: 256 QSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT 308
A Y + DTPGH +T + D A+L++ A GV QT
Sbjct: 69 DVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQT 121
Score = 43.1 bits (102), Expect = 5e-04
Identities = 23/68 (33%), Positives = 35/68 (51%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
++D ++ ER++GITI A Y + DTPGH +T + D A+L++ A
Sbjct: 54 LVDGLQAEREQGITIDVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDA 113
Query: 84 VGGVQSQT 91
GV QT
Sbjct: 114 RKGVLEQT 121
>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 = 48.9 bits (117), Expect = 2e-07
Identities = 24/87 (27%), Positives = 34/87 (39%), Gaps = 10/87 (11%)
Query: 502 FIALAFKLEA-GKFGQLTYMRCYQGKLRKGEMIYNVRTD--KKVRVSRLVRLHSNEMEDV 558
AL FK+ G + R G L+KG+ + K +V L R +V
Sbjct: 1 LRALVFKVFKDKGRGTVATGRVESGTLKKGDKVRVGPGGGGVKGKVKSLKRFK----GEV 56
Query: 559 EEVLAGDIFALFGV---DCASGDTFVT 582
+E +AGDI + D GDT
Sbjct: 57 DEAVAGDIVGIVLKDKDDIKIGDTLTD 83
>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 = 51.2 bits (123), Expect = 5e-07
Identities = 44/179 (24%), Positives = 74/179 (41%), Gaps = 38/179 (21%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITI----- 255
N+G+ H+DSGKT+L + L SE+ A D ++RGIT+
Sbjct: 2 NVGLLGHVDSGKTSLA-KAL------SEIAST-------AAFDKNPQSQERGITLDLGFS 47
Query: 256 -------QSAATYTLWKDHNINI--IDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQS 306
+ + N I +D PGH + +++D +LV+ A G+Q+
Sbjct: 48 SFEVDKPKHLEDNENPQIENYQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDAKKGIQT 107
Query: 307 QT---LTVNRQMKRYDVPCIAFINKLDRLGADPYRV-INQMR---QKVGHNAAFLQIPI 358
QT L + + + P I +NK+D + + + I +M+ QK PI
Sbjct: 108 QTAECLVIGELLCK---PLIVVLNKIDLIPEEERKRKIEKMKKRLQKTLEKTRLKDSPI 163
Score = 36.2 bits (84), Expect = 0.042
Identities = 26/117 (22%), Positives = 52/117 (44%), Gaps = 21/117 (17%)
Query: 31 ERQRGITI------------QSAATYTLWKDHNINI--IDTPGHVDFTVEVERALRVLDG 76
++RGIT+ + + N I +D PGH + +++D
Sbjct: 35 SQERGITLDLGFSSFEVDKPKHLEDNENPQIENYQITLVDCPGHASLIRTIIGGAQIIDL 94
Query: 77 AILVLCAVGGVQSQT---LTVNRQMKRYDVPCIAFINKLDRLGADPYRV-INQMRQK 129
+LV+ A G+Q+QT L + + + P I +NK+D + + + I +M+++
Sbjct: 95 MLLVVDAKKGIQTQTAECLVIGELLCK---PLIVVLNKIDLIPEEERKRKIEKMKKR 148
Score = 32.7 bits (75), Expect = 0.68
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 150 NIGISAHIDSGKTTL 164
N+G+ H+DSGKT+L
Sbjct: 2 NVGLLGHVDSGKTSL 16
>gnl|CDD|165621 PLN00043, PLN00043, elongation factor 1-alpha; Provisional.
Length = 447
Score = 52.4 bits (125), Expect = 9e-07
Identities = 37/117 (31%), Positives = 55/117 (47%), Gaps = 18/117 (15%)
Query: 201 NIGISAHIDSGKTTLTERILFYTG----RISEMHEVRGKD------NVGAVMDSMELERQ 250
NI + H+DSGK+T T +++ G R+ E E + V+D ++ ER+
Sbjct: 9 NIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERE 68
Query: 251 RGITIQSAATYTLWKDHNI----NIIDTPGHVDFTVEVERALRVLDGAILVLCAVGG 303
RGITI A LWK +ID PGH DF + D A+L++ + G
Sbjct: 69 RGITIDIA----LWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG 121
Score = 40.1 bits (93), Expect = 0.006
Identities = 24/67 (35%), Positives = 34/67 (50%), Gaps = 8/67 (11%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNI----NIIDTPGHVDFTVEVERALRVLDGAIL 79
V+D ++ ER+RGITI A LWK +ID PGH DF + D A+L
Sbjct: 59 VLDKLKAERERGITIDIA----LWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVL 114
Query: 80 VLCAVGG 86
++ + G
Sbjct: 115 IIDSTTG 121
>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated.
Length = 746
Score = 52.2 bits (126), Expect = 1e-06
Identities = 49/147 (33%), Positives = 62/147 (42%), Gaps = 43/147 (29%)
Query: 207 HIDSGKTTLTERILFYTGRISEMHEVRGKDNV-----GAVMDSMELERQRGITIQSAATY 261
H+D GKT+L + I R K NV G GIT Q Y
Sbjct: 257 HVDHGKTSLLDAI-------------R-KTNVAAGEAG------------GIT-QHIGAY 289
Query: 262 TL-WKDHNINIIDTPGHVDFTVEVERALR-----VLDGAILVLCAVGGVQSQTLTVNRQM 315
+ I +DTPGH FT A+R V D +LV+ A GV QT+
Sbjct: 290 QVETNGGKITFLDTPGHEAFT-----AMRARGAQVTDIVVLVVAADDGVMPQTIEAINHA 344
Query: 316 KRYDVPCIAFINKLDRLGADPYRVINQ 342
K VP I INK+D+ GA+P RV +
Sbjct: 345 KAAGVPIIVAINKIDKPGANPDRVKQE 371
Score = 52.2 bits (126), Expect = 1e-06
Identities = 37/97 (38%), Positives = 47/97 (48%), Gaps = 12/97 (12%)
Query: 35 GITIQSAATYTL-WKDHNINIIDTPGHVDFTVEVERALR-----VLDGAILVLCAVGGVQ 88
GIT Q Y + I +DTPGH FT A+R V D +LV+ A GV
Sbjct: 281 GIT-QHIGAYQVETNGGKITFLDTPGHEAFT-----AMRARGAQVTDIVVLVVAADDGVM 334
Query: 89 SQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQ 125
QT+ K VP I INK+D+ GA+P RV +
Sbjct: 335 PQTIEAINHAKAAGVPIIVAINKIDKPGANPDRVKQE 371
>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1
[Inorganic ion transport and metabolism].
Length = 431
Score = 51.1 bits (123), Expect = 2e-06
Identities = 37/114 (32%), Positives = 56/114 (49%), Gaps = 12/114 (10%)
Query: 207 HIDSGKTTLTERILFYT-----------GRISEMHEVRGKD-NVGAVMDSMELERQRGIT 254
+D GK+TL R+L+ T R S+ +G+ ++ ++D +E ER++GIT
Sbjct: 14 SVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGIT 73
Query: 255 IQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT 308
I A Y + I DTPGH +T + D AIL++ A GV QT
Sbjct: 74 IDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQT 127
Score = 42.7 bits (101), Expect = 0.001
Identities = 41/140 (29%), Positives = 64/140 (45%), Gaps = 22/140 (15%)
Query: 24 VMDSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCA 83
++D +E ER++GITI A Y + I DTPGH +T + D AIL++ A
Sbjct: 60 LVDGLEAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDA 119
Query: 84 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRV-INQM-----RQKTSRWISNE 137
GV QT +R+ +FI L LG V +N+M ++ I +
Sbjct: 120 RKGVLEQT-------RRH-----SFIASL--LGIRHVVVAVNKMDLVDYSEEVFEAIVAD 165
Query: 138 --SLSEHKPIEYIRNIGISA 155
+ + ++ +R I ISA
Sbjct: 166 YLAFAAQLGLKDVRFIPISA 185
>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 = 43.8 bits (104), Expect = 1e-05
Identities = 23/65 (35%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHG--ILQGNEGKDDWVTIYAEIPLNDMFGFAGDLR 994
EPI VEI+ P + +V ++++R G I + A IP+ + FGF DLR
Sbjct: 1 EPIYEVEITCPADAVSAVYEVLSRRRGHVIYDTPIPGTPLYEVKAFIPVIESFGFETDLR 60
Query: 995 SSTQG 999
TQG
Sbjct: 61 VHTQG 65
>gnl|CDD|239660 cd03689, RF3_II, RF3_II: this subfamily represents the domain II of
bacterial Release Factor 3 (RF3). Termination of protein
synthesis by the ribosome requires two release factor
(RF) classes. The class II RF3 is a GTPase that removes
class I RFs (RF1 or RF2) from the ribosome after release
of the nascent polypeptide. RF3 in the GDP state binds
to the ribosomal class I RF complex, followed by an
exchange of GDP for GTP and release of the class I RF.
Sequence comparison of class II release factors with
elongation factors shows that prokaryotic RF3 is more
similar to EF-G whereas eukaryotic eRF3 is more similar
to eEF1A, implying that their precise function may
differ.
Length = 85
Score = 42.6 bits (101), Expect = 4e-05
Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 3/67 (4%)
Query: 519 YMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDIFALF--GVDCAS 576
++R GK +G + +VR K+VR+S + + + E V+E GDI L G
Sbjct: 20 FVRVCSGKFERGMKVKHVRLGKEVRLSNPQQFFAQDRETVDEAYPGDIIGLVNPGN-FQI 78
Query: 577 GDTFVTD 583
GDT
Sbjct: 79 GDTLTEG 85
>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 = 44.5 bits (106), Expect = 5e-05
Identities = 33/177 (18%), Positives = 60/177 (33%), Gaps = 36/177 (20%)
Query: 210 SGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHN- 268
GK++L +L NVG V G T +
Sbjct: 8 VGKSSLLNALL--------------GQNVGIVSPIP------GTT-RDPVRKEWELLPLG 46
Query: 269 -INIIDTPGHVDFTVE----VERALRVL---DGAILVLCAVGGVQSQTLTVNRQMKRYDV 320
+ +IDTPG + VE A +V D +LV+ + + + ++
Sbjct: 47 PVVLIDTPGLDEEGGLGRERVEEARQVADRADLVLLVVDSDLTPVEEEAKLGL-LRERGK 105
Query: 321 PCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGI-IDLIQRKAI 376
P + +NK+D + + + R+ +P+ S G ID +++K
Sbjct: 106 PVLLVLNKIDLVPESEEEELLRERKL----ELLPDLPVIAVSALPGEGIDELRKKIA 158
Score = 39.9 bits (94), Expect = 0.002
Identities = 20/102 (19%), Positives = 39/102 (38%), Gaps = 15/102 (14%)
Query: 51 NINIIDTPGHVDFTVE----VERALRVL---DGAILVLCAVGGVQSQTLTVNRQMKRYDV 103
+ +IDTPG + VE A +V D +LV+ + + + ++
Sbjct: 47 PVVLIDTPGLDEEGGLGRERVEEARQVADRADLVLLVVDSDLTPVEEEAKLGL-LRERGK 105
Query: 104 PCIAFINKLDRLGADPYRVINQMRQKTSRWISNESLSEHKPI 145
P + +NK+D + + + R+ E L + I
Sbjct: 106 PVLLVLNKIDLVPESEEEELLRERKL-------ELLPDLPVI 140
>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction
only].
Length = 187
Score = 45.1 bits (107), Expect = 5e-05
Identities = 34/148 (22%), Positives = 53/148 (35%), Gaps = 21/148 (14%)
Query: 202 IGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITI-QSAAT 260
I + + +GKTT + S+ V A S+ + +R T+ +
Sbjct: 13 IVVIGPVGAGKTTFVRAL-------SDKPLVI----TEADASSVSGKGKRPTTVAMDFGS 61
Query: 261 YTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAI-LVLCAVGGVQSQTLTVNRQMK--- 316
L +D +++ TPG F E R GAI LV + T +
Sbjct: 62 IELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRP----ITFHAEEIIDFLT 117
Query: 317 -RYDVPCIAFINKLDRLGADPYRVINQM 343
R +P + INK D A P I +
Sbjct: 118 SRNPIPVVVAINKQDLFDALPPEKIREA 145
Score = 38.2 bits (89), Expect = 0.008
Identities = 27/112 (24%), Positives = 41/112 (36%), Gaps = 10/112 (8%)
Query: 21 VGAVMDSMELERQRGITI-QSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAI- 78
A S+ + +R T+ + L +D +++ TPG F E R GAI
Sbjct: 38 TEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIV 97
Query: 79 LVLCAVGGVQSQTLTVNRQMK----RYDVPCIAFINKLDRLGADPYRVINQM 126
LV + T + R +P + INK D A P I +
Sbjct: 98 LVDSSRP----ITFHAEEIIDFLTSRNPIPVVVAINKQDLFDALPPEKIREA 145
>gnl|CDD|235195 PRK04004, PRK04004, translation initiation factor IF-2; Validated.
Length = 586
Score = 46.7 bits (112), Expect = 6e-05
Identities = 43/145 (29%), Positives = 58/145 (40%), Gaps = 41/145 (28%)
Query: 207 HIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRG-ITIQSAATY---- 261
H+D GKTTL ++I RG + ++ G IT AT
Sbjct: 14 HVDHGKTTLLDKI-------------RG---------TAVAAKEAGGITQHIGATEVPID 51
Query: 262 -------TLWKDHNINI-------IDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQ 307
L K I + IDTPGH FT +R + D AILV+ G Q Q
Sbjct: 52 VIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQ 111
Query: 308 TLTVNRQMKRYDVPCIAFINKLDRL 332
T+ +KR P + NK+DR+
Sbjct: 112 TIEAINILKRRKTPFVVAANKIDRI 136
Score = 42.1 bits (100), Expect = 0.001
Identities = 25/61 (40%), Positives = 33/61 (54%)
Query: 55 IDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDR 114
IDTPGH FT +R + D AILV+ G Q QT+ +KR P + NK+DR
Sbjct: 76 IDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTPFVVAANKIDR 135
Query: 115 L 115
+
Sbjct: 136 I 136
>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 = 42.1 bits (100), Expect = 6e-05
Identities = 20/67 (29%), Positives = 39/67 (58%), Gaps = 5/67 (7%)
Query: 521 RCYQGKLRKGEMIYNVRTDKKV---RVSRLVRLHSNEMEDVEEVLAGDIFALFGVDCAS- 576
R ++G ++ G+ + V+ D K+ ++++L + +VEE AGDI A+ G++ +
Sbjct: 21 RIFRGTVKVGQQVAVVKRDGKIEKAKITKLFGFEGLKRVEVEEAEAGDIVAIAGIEDITI 80
Query: 577 GDTFVTD 583
GDT + D
Sbjct: 81 GDT-ICD 86
>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 = 46.7 bits (111), Expect = 6e-05
Identities = 37/133 (27%), Positives = 56/133 (42%), Gaps = 17/133 (12%)
Query: 207 HIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKD 266
H+D GKTTL ++I E + ++GA M++ L K
Sbjct: 12 HVDHGKTTLLDKIRGSAVAKREAGGI--TQHIGATEIPMDVIEG--------ICGDLLKK 61
Query: 267 HNINI-------IDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYD 319
I + IDTPGH FT +R + D AIL++ G + QT ++ Y
Sbjct: 62 FKIRLKIPGLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYK 121
Query: 320 VPCIAFINKLDRL 332
P + NK+DR+
Sbjct: 122 TPFVVAANKIDRI 134
Score = 44.4 bits (105), Expect = 3e-04
Identities = 22/62 (35%), Positives = 32/62 (51%)
Query: 54 IIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLD 113
IDTPGH FT +R + D AIL++ G + QT ++ Y P + NK+D
Sbjct: 73 FIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYKTPFVVAANKID 132
Query: 114 RL 115
R+
Sbjct: 133 RI 134
>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 = 41.3 bits (98), Expect = 1e-04
Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 3/78 (3%)
Query: 937 EPIMSVEISTPIEFQGSVLNLVTKRHGILQ--GNEGKDDWVTIYAEIPLNDMFGFAGDLR 994
EPI + I P E+ G+V+ + KR G + +G + + +IP + GF +
Sbjct: 1 EPIEELTIDVPEEYSGAVIEKLGKRKGEMVDMEPDG-NGRTRLEFKIPSRGLIGFRSEFL 59
Query: 995 SSTQGKGEFSMDYSRYSP 1012
+ T+G G + + Y P
Sbjct: 60 TDTRGTGIMNHVFDGYEP 77
Score = 30.9 bits (71), Expect = 0.48
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 796 EPIMSVEISTPIEFQGSVLNLVTKRHGILQ 825
EPI + I P E+ G+V+ + KR G +
Sbjct: 1 EPIEELTIDVPEEYSGAVIEKLGKRKGEMV 30
>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction
only].
Length = 444
Score = 44.1 bits (105), Expect = 3e-04
Identities = 66/326 (20%), Positives = 115/326 (35%), Gaps = 74/326 (22%)
Query: 47 WKDHNINIIDTPGHVDFTVE------VERALRVLDGA---ILVLCAVGGVQSQTLTVNRQ 97
W +IDT G D + E+AL ++ A + V+ G+ + +
Sbjct: 48 WLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKI 107
Query: 98 MKRYDVPCIAFINKLDRLGADPYRVINQMRQKTSRWISNESLSEHKPIEYIRNIGISAHI 157
++R P I +NK+D L A+ + SL +P+ ISA
Sbjct: 108 LRRSKKPVILVVNKIDNLKAEE--------LAYEFY----SLGFGEPVP------ISAEH 149
Query: 158 DSGKTTLTERILFYTGRISEMHETSRWISNESLSEHKPIEYIRNIGISAHIDSGKTTLTE 217
G L + +L +E E + + I+ I I + GK++L
Sbjct: 150 GRGIGDLLDAVLEL------------LPPDEEEEEEEETDPIK-IAIIGRPNVGKSSLIN 196
Query: 218 RILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPG- 276
IL E R ++ + G T S +IDT G
Sbjct: 197 AIL---------GEER------VIVSDIA-----GTTRDSIDIEFERDGRKYVLIDTAGI 236
Query: 277 ----HVDFTVE---VERALRVLDGA---ILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFI 326
+ +VE V R L+ ++ A +LV+ A G+ Q L + ++ + +
Sbjct: 237 RRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGLIEEAGRGIVIVV 296
Query: 327 NKLDRLGADPYR---VINQMRQKVGH 349
NK D + D ++R+K+
Sbjct: 297 NKWDLVEEDEATMEEFKKKLRRKLPF 322
>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 = 40.3 bits (95), Expect = 3e-04
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 501 PFIALAFKLEAGKFGQ-LTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVE 559
FK+E G+ L Y+R Y G LR + + V ++K++++ L ++ E+ +
Sbjct: 3 ELSGTVFKIERDDKGERLAYLRLYSGTLRLRDSVR-VNREEKIKITELRVFNNGEVVTAD 61
Query: 560 EVLAGDIFALFGVD 573
V AGDI L G+
Sbjct: 62 TVTAGDIAILTGLK 75
>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 = 40.5 bits (95), Expect = 5e-04
Identities = 23/122 (18%), Positives = 43/122 (35%), Gaps = 10/122 (8%)
Query: 672 VAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLEPLPPSANTKLEF-IDETVGTNVPKP 730
+A++ET+++P +K G V + P S++ + + + K
Sbjct: 1 IAYRETILEPARATDTLEKVIGDKKHSVTVTMEVRPNQASSSPVELIELANSAIEVLLKR 60
Query: 731 FLPAIIKGFKQMCEKGCLSGSRVAGVRMVLKDGDNHMVDSN-EISFILAA-----HGAMK 784
A+ G +G L G V V + L + + + I A A+K
Sbjct: 61 IQEAVENGVHSALLQGPLLGFPVQDVAITL---HSLTIGPGTSPTMISACASQCVQKALK 117
Query: 785 QA 786
A
Sbjct: 118 SA 119
>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation
factor; Provisional.
Length = 614
Score = 42.3 bits (100), Expect = 0.001
Identities = 47/157 (29%), Positives = 69/157 (43%), Gaps = 41/157 (26%)
Query: 202 IGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATY 261
I + H+D GKTTL + I TG V A D + E++RG+TI Y
Sbjct: 3 IATAGHVDHGKTTLLQAI---TG-------------VNA--DRLPEEKKRGMTIDLG--Y 42
Query: 262 TLWKDHN---INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT--------LT 310
W + + ID PGH F + + +D A+LV+ GV +QT LT
Sbjct: 43 AYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLT 102
Query: 311 VNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKV 347
N + +A + K DR D R I ++R++V
Sbjct: 103 GNPMLT------VA-LTKADR--VDEAR-IAEVRRQV 129
Score = 31.6 bits (72), Expect = 2.5
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 31 ERQRGITIQSAATYTLWKDHN---INIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGV 87
E++RG+TI Y W + + ID PGH F + + +D A+LV+ GV
Sbjct: 31 EKKRGMTIDLG--YAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGV 88
Query: 88 QSQT 91
+QT
Sbjct: 89 MAQT 92
>gnl|CDD|237833 PRK14845, PRK14845, translation initiation factor IF-2;
Provisional.
Length = 1049
Score = 41.8 bits (98), Expect = 0.002
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 54 IIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLD 113
IDTPGH FT +R + D A+LV+ G + QT+ +++Y P + NK+D
Sbjct: 530 FIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKID 589
Query: 114 RL 115
+
Sbjct: 590 LI 591
Score = 41.8 bits (98), Expect = 0.002
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 271 IIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLD 330
IDTPGH FT +R + D A+LV+ G + QT+ +++Y P + NK+D
Sbjct: 530 FIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKID 589
Query: 331 RL 332
+
Sbjct: 590 LI 591
>gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Provisional.
Length = 632
Score = 41.5 bits (98), Expect = 0.003
Identities = 38/117 (32%), Positives = 55/117 (47%), Gaps = 20/117 (17%)
Query: 208 IDSGKTTLTERILFYTGRISEMH----EVRGKDNVGA---------VMDSMELERQRGIT 254
+D GK+TL R+L+ + I E E K VG ++D + ER++GIT
Sbjct: 33 VDDGKSTLIGRLLYDSKMIFEDQLAALERDSKK-VGTQGDEIDLALLVDGLAAEREQGIT 91
Query: 255 IQSAATY--TLWKDHNINII-DTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT 308
I A Y T I+ DTPGH +T + D AI+++ A GV +QT
Sbjct: 92 IDVAYRYFAT---PKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT 145
Score = 36.1 bits (84), Expect = 0.099
Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 6/71 (8%)
Query: 24 VMDSMELERQRGITIQSAATY--TLWKDHNINII-DTPGHVDFTVEVERALRVLDGAILV 80
++D + ER++GITI A Y T I+ DTPGH +T + D AI++
Sbjct: 78 LVDGLAAEREQGITIDVAYRYFAT---PKRKFIVADTPGHEQYTRNMVTGASTADLAIIL 134
Query: 81 LCAVGGVQSQT 91
+ A GV +QT
Sbjct: 135 VDARKGVLTQT 145
>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 = 40.0 bits (94), Expect = 0.006
Identities = 36/135 (26%), Positives = 55/135 (40%), Gaps = 45/135 (33%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQ-SAA 259
NIG+ H+D GKTTLT+ + TG ++ H S EL +RGI+I+ A
Sbjct: 6 NIGMVGHVDHGKTTLTKAL---TGVWTDTH-------------SEEL--KRGISIRLGYA 47
Query: 260 TYTLWKDHN-------------------------INIIDTPGHVDFTVEVERALRVLDGA 294
++K ++ +D PGH + ++DGA
Sbjct: 48 DAEIYKCPECDGPECYTTEPVCPNCGSETELLRRVSFVDAPGHETLMATMLSGAALMDGA 107
Query: 295 ILVLCAVGGV-QSQT 308
+LV+ A Q QT
Sbjct: 108 LLVIAANEPCPQPQT 122
Score = 32.3 bits (74), Expect = 1.3
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 3/38 (7%)
Query: 150 NIGISAHIDSGKTTLTERIL-FYTGRISEMHETSRWIS 186
NIG+ H+D GKTTLT+ + +T SE E R IS
Sbjct: 6 NIGMVGHVDHGKTTLTKALTGVWTDTHSE--ELKRGIS 41
>gnl|CDD|235349 PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional.
Length = 474
Score = 39.9 bits (94), Expect = 0.006
Identities = 37/113 (32%), Positives = 55/113 (48%), Gaps = 12/113 (10%)
Query: 208 IDSGKTTLTERILFYTGRISE-----MH-EVRGKDNVGA------VMDSMELERQRGITI 255
+D GK+TL R+L T +I E +H + + G ++D ++ ER++GITI
Sbjct: 36 VDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITI 95
Query: 256 QSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVGGVQSQT 308
A Y + I DTPGH +T + D AIL++ A GV QT
Sbjct: 96 DVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQT 148
Score = 35.7 bits (83), Expect = 0.13
Identities = 25/66 (37%), Positives = 34/66 (51%)
Query: 26 DSMELERQRGITIQSAATYTLWKDHNINIIDTPGHVDFTVEVERALRVLDGAILVLCAVG 85
D ++ ER++GITI A Y + I DTPGH +T + D AIL++ A
Sbjct: 83 DGLQAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARK 142
Query: 86 GVQSQT 91
GV QT
Sbjct: 143 GVLDQT 148
>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 = 39.7 bits (94), Expect = 0.007
Identities = 70/332 (21%), Positives = 111/332 (33%), Gaps = 74/332 (22%)
Query: 47 WKDHNINIIDTPGHVDFTVE--------VERALRVLDGAILVLCAVGGVQSQTLTVNRQM 98
W +IDT G + E A+ D + V+ G+ + + + +
Sbjct: 44 WGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWL 103
Query: 99 KRYDVPCIAFINKLDRLGADPYRVINQMRQKTSRWISNESLSEHKPIEYIRNIGISAHID 158
++ P I NK+D D V + SL +PI ISA
Sbjct: 104 RKSGKPVILVANKIDGKKEDA--VAAEF----------YSLGFGEPI------PISAEHG 145
Query: 159 SGKTTLTERILFYTGRISEMHETSRWISNESLSEHKPIEYIRNIGISAHIDSGKTTLTER 218
G L + IL + E E + I+ I I + GK+TL
Sbjct: 146 RGIGDLLDAILEL-------------LPEEEEEEEEEDGPIK-IAIIGRPNVGKSTLVNA 191
Query: 219 ILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQSAATYTLWKDHNINIIDTPG-- 276
+L G++ V ++ + G T S +IDT G
Sbjct: 192 LL-------------GEERV--IVSDIA-----GTTRDSIDIPFERNGKKYTLIDTAGIR 231
Query: 277 ---HVDFTVE---VERALRVLDGA---ILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFIN 327
V VE V R L+ ++ A +LVL A G+ Q L + + +N
Sbjct: 232 RKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLRIAGLALEAGKALVIVVN 291
Query: 328 KLDRLGADPYRVINQMRQKVGHNAAFL-QIPI 358
K D L D + ++++ FL PI
Sbjct: 292 KWD-LVKDEKT-REEFKKELRRKLPFLDFAPI 321
Score = 34.3 bits (80), Expect = 0.37
Identities = 30/133 (22%), Positives = 48/133 (36%), Gaps = 21/133 (15%)
Query: 35 GITIQSAATYTLWKDHNINIIDTPG-----HVDFTVE---VERALRVLDGA---ILVLCA 83
G T S +IDT G V VE V R L+ ++ A +LVL A
Sbjct: 205 GTTRDSIDIPFERNGKKYTLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDA 264
Query: 84 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKTSRWISNESLSEHK 143
G+ Q L + + +NK D L D + +++ R +
Sbjct: 265 TEGITEQDLRIAGLALEAGKALVIVVNKWD-LVKDEKT-REEFKKELRRKL--------P 314
Query: 144 PIEYIRNIGISAH 156
+++ + ISA
Sbjct: 315 FLDFAPIVFISAL 327
>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 = 36.0 bits (84), Expect = 0.010
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 9/62 (14%)
Query: 521 RCYQGKLRKGEMIY---------NVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDIFALFG 571
R + G +RKG+ + + K + RL + E V+EV AG+I + G
Sbjct: 22 RVFSGTIRKGQKVRVLGPNYSPEDEEDLSKKTIQRLYLMMGRYREPVDEVPAGNIVLIVG 81
Query: 572 VD 573
+D
Sbjct: 82 LD 83
>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 = 36.6 bits (86), Expect = 0.025
Identities = 29/119 (24%), Positives = 46/119 (38%), Gaps = 13/119 (10%)
Query: 252 GITIQSAATYTLWKDHNINIIDTPG-----HVDFTVE---VERALRVLDGA---ILVLCA 300
G T S + +IDT G V +E V R L+ ++ A +LVL A
Sbjct: 35 GTTRDSIDVPFEYDGQKYTLIDTAGIRKKGKVTEGIEKYSVLRTLKAIERADVVLLVLDA 94
Query: 301 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQ-IPI 358
G+ Q L + + I +NK D + D + + +++ FL PI
Sbjct: 95 SEGITEQDLRIAGLILEEGKALIIVVNKWDLVEKDEKT-MKEFEKELRRKLPFLDYAPI 152
Score = 35.9 bits (84), Expect = 0.050
Identities = 27/109 (24%), Positives = 42/109 (38%), Gaps = 14/109 (12%)
Query: 35 GITIQSAATYTLWKDHNINIIDTPG-----HVDFTVE---VERALRVLDGA---ILVLCA 83
G T S + +IDT G V +E V R L+ ++ A +LVL A
Sbjct: 35 GTTRDSIDVPFEYDGQKYTLIDTAGIRKKGKVTEGIEKYSVLRTLKAIERADVVLLVLDA 94
Query: 84 VGGVQSQTLTVNRQMKRYDVPCIAFINKLDRLGADPYR---VINQMRQK 129
G+ Q L + + I +NK D + D ++R+K
Sbjct: 95 SEGITEQDLRIAGLILEEGKALIIVVNKWDLVEKDEKTMKEFEKELRRK 143
Score = 28.9 bits (66), Expect = 8.2
Identities = 12/47 (25%), Positives = 25/47 (53%)
Query: 422 LEEKSISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLD 468
+E+ + + +K +RR + P++ +AL +GV L DA+ +
Sbjct: 126 VEKDEKTMKEFEKELRRKLPFLDYAPIVFISALTGQGVDKLFDAIKE 172
>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 = 37.5 bits (88), Expect = 0.031
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 9/74 (12%)
Query: 54 IIDTPGHVDFTVE-----VERALRVL---DGAILVLCAVGGVQSQTLTVNRQMKRYDVPC 105
+IDT G +D E VE+ VL D A+LV+ A G L + ++K +P
Sbjct: 59 LIDTAG-LDDEGELGELRVEKTREVLDKTDLALLVVDAGVGPGEYELELIEELKERKIPY 117
Query: 106 IAFINKLDRLGADP 119
I INK+D
Sbjct: 118 IVVINKIDLGEESA 131
Score = 37.5 bits (88), Expect = 0.031
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 9/74 (12%)
Query: 271 IIDTPGHVDFTVE-----VERALRVL---DGAILVLCAVGGVQSQTLTVNRQMKRYDVPC 322
+IDT G +D E VE+ VL D A+LV+ A G L + ++K +P
Sbjct: 59 LIDTAG-LDDEGELGELRVEKTREVLDKTDLALLVVDAGVGPGEYELELIEELKERKIPY 117
Query: 323 IAFINKLDRLGADP 336
I INK+D
Sbjct: 118 IVVINKIDLGEESA 131
>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit
gamma; Validated.
Length = 411
Score = 36.4 bits (85), Expect = 0.087
Identities = 40/140 (28%), Positives = 56/140 (40%), Gaps = 55/140 (39%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQ-SAA 259
NIG+ H+D GKTTL + + TG ++ H S EL +RGITI+ A
Sbjct: 11 NIGMVGHVDHGKTTLVQAL---TGVWTDRH-------------SEEL--KRGITIRLGYA 52
Query: 260 TYTLWKDHN-------------------------INIIDTPGHVDFTVEVERAL-----R 289
T+ K + ++ +D PGH E A
Sbjct: 53 DATIRKCPDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGH-----ETLMATMLSGAA 107
Query: 290 VLDGAILVLCAVGGV-QSQT 308
++DGAILV+ A Q QT
Sbjct: 108 LMDGAILVIAANEPCPQPQT 127
Score = 31.0 bits (71), Expect = 3.6
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 150 NIGISAHIDSGKTTLTE 166
NIG+ H+D GKTTL +
Sbjct: 11 NIGMVGHVDHGKTTLVQ 27
>gnl|CDD|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase. The full-length
GTPase protein is required for the complete activity of
the protein of interacting with the 50S ribosome and
binding of both adenine and guanine nucleotides, with a
preference for guanine nucleotide.
Length = 117
Score = 33.4 bits (77), Expect = 0.15
Identities = 19/79 (24%), Positives = 30/79 (37%), Gaps = 10/79 (12%)
Query: 43 TYTLWKDHNINIIDTPG---------HVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT 93
L I ++DTPG V+ A+R D +LV+ A G+
Sbjct: 39 LGVLGLGRQIILVDTPGLIEGASEGKGVEGFNRFLEAIREADLILLVVDASEGLTEDDEE 98
Query: 94 VNRQM-KRYDVPCIAFINK 111
+ ++ K P I +NK
Sbjct: 99 ILEELEKLPKKPIILVLNK 117
Score = 33.4 bits (77), Expect = 0.15
Identities = 19/79 (24%), Positives = 30/79 (37%), Gaps = 10/79 (12%)
Query: 260 TYTLWKDHNINIIDTPG---------HVDFTVEVERALRVLDGAILVLCAVGGVQSQTLT 310
L I ++DTPG V+ A+R D +LV+ A G+
Sbjct: 39 LGVLGLGRQIILVDTPGLIEGASEGKGVEGFNRFLEAIREADLILLVVDASEGLTEDDEE 98
Query: 311 VNRQM-KRYDVPCIAFINK 328
+ ++ K P I +NK
Sbjct: 99 ILEELEKLPKKPIILVLNK 117
>gnl|CDD|201536 pfam00984, UDPG_MGDP_dh, UDP-glucose/GDP-mannose dehydrogenase
family, central domain. The UDP-glucose/GDP-mannose
dehydrogenaseses are a small group of enzymes which
possesses the ability to catalyze the NAD-dependent
2-fold oxidation of an alcohol to an acid without the
release of an aldehyde intermediate.
Length = 96
Score = 32.2 bits (74), Expect = 0.25
Identities = 13/44 (29%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 322 CIAFINKL----DRLGADPYRVINQMRQKVGHNAAFLQIPIGLG 361
I+FIN+L + +GAD V FL G G
Sbjct: 18 KISFINELANICEAVGADVSEVARAAGLDPRIGRKFLNPGPGFG 61
>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit
(eIF-2gamma; GTPase) [Translation, ribosomal structure
and biogenesis].
Length = 415
Score = 34.2 bits (79), Expect = 0.34
Identities = 33/126 (26%), Positives = 52/126 (41%), Gaps = 44/126 (34%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITIQ-SAA 259
NIG+ H+D GKTTLT+ + +G ++ H S EL+ RGITI+ A
Sbjct: 12 NIGMVGHVDHGKTTLTKAL---SGVWTDRH-------------SEELK--RGITIKLGYA 53
Query: 260 TYTLWKDHN-------------------------INIIDTPGHVDFTVEVERALRVLDGA 294
++K ++ +D PGH + ++DGA
Sbjct: 54 DAKIYKCPECYRPECYTTEPKCPNCGAETELVRRVSFVDAPGHETLMATMLSGAALMDGA 113
Query: 295 ILVLCA 300
+LV+ A
Sbjct: 114 LLVIAA 119
Score = 31.5 bits (72), Expect = 2.3
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 150 NIGISAHIDSGKTTLTERIL-FYTGRISEMHETSRWIS 186
NIG+ H+D GKTTLT+ + +T R SE E R I+
Sbjct: 12 NIGMVGHVDHGKTTLTKALSGVWTDRHSE--ELKRGIT 47
>gnl|CDD|224009 COG1084, COG1084, Predicted GTPase [General function prediction
only].
Length = 346
Score = 34.2 bits (79), Expect = 0.37
Identities = 32/137 (23%), Positives = 54/137 (39%), Gaps = 22/137 (16%)
Query: 269 INIIDTPGHVDFTVE----VER----ALRVLDGAILVLCAVGGVQSQTLTVNRQMK---- 316
I +IDTPG +D +E +ER ALR L G IL L ++ ++ Q+
Sbjct: 217 IQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFL--FDPSETCGYSLEEQISLLEE 274
Query: 317 ---RYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETKGIIDLIQR 373
+ P + INK+D AD ++ V + P+ + + +D ++
Sbjct: 275 IKELFKAPIVVVINKIDI--ADEEKLEEI-EASV--LEEGGEEPLKISATKGCGLDKLRE 329
Query: 374 KAIYFEGPLGDNLRIEE 390
+ R EE
Sbjct: 330 EVRKTALEPLLEERSEE 346
Score = 29.6 bits (67), Expect = 8.5
Identities = 24/80 (30%), Positives = 36/80 (45%), Gaps = 17/80 (21%)
Query: 52 INIIDTPGHVDFTVE----VER----ALRVLDGAILVLCAVGGVQSQTLTVNRQMK---- 99
I +IDTPG +D +E +ER ALR L G IL L ++ ++ Q+
Sbjct: 217 IQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFL--FDPSETCGYSLEEQISLLEE 274
Query: 100 ---RYDVPCIAFINKLDRLG 116
+ P + INK+D
Sbjct: 275 IKELFKAPIVVVINKIDIAD 294
>gnl|CDD|132364 TIGR03321, alt_F1F0_F0_B, alternate F1F0 ATPase, F0 subunit B. A
small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, CC and in principle may run in either direction.
This model represents the F0 subunit B of this apparent
second ATP synthase.
Length = 246
Score = 32.7 bits (75), Expect = 0.71
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 6/75 (8%)
Query: 396 KKEAESKRQELIEHV-AEGDEILG---EMFLEEKSISEDDIKKAIRRSTL--TRKFTPVL 449
K+EA+++RQ L++ E DEI E E++ D++++ RK L
Sbjct: 81 KEEAQAERQRLLDEAREEADEIREKWQEALRREQAALSDELRRRTGAEVFAIARKVLTDL 140
Query: 450 VGTALKNKGVQTLLD 464
T L+ + V +
Sbjct: 141 ADTDLEERMVDVFVQ 155
>gnl|CDD|206681 cd01894, EngA1, EngA1 GTPase contains the first domain of EngA.
This EngA1 subfamily CD represents the first 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 = 157
Score = 31.6 bits (73), Expect = 1.0
Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 8/82 (9%)
Query: 47 WKDHNINIIDTPGHVDFTVE--------VERALRVLDGAILVLCAVGGVQSQTLTVNRQM 98
W +IDT G E A+ D + V+ G+ + + +
Sbjct: 42 WGGREFILIDTGGIEPDDEGISKEIREQAEIAIEEADVILFVVDGREGLTPADEEIAKYL 101
Query: 99 KRYDVPCIAFINKLDRLGADPY 120
++ P I +NK+D + +
Sbjct: 102 RKSKKPVILVVNKIDNIKEEEE 123
Score = 31.6 bits (73), Expect = 1.0
Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 8/82 (9%)
Query: 264 WKDHNINIIDTPGHVDFTVE--------VERALRVLDGAILVLCAVGGVQSQTLTVNRQM 315
W +IDT G E A+ D + V+ G+ + + +
Sbjct: 42 WGGREFILIDTGGIEPDDEGISKEIREQAEIAIEEADVILFVVDGREGLTPADEEIAKYL 101
Query: 316 KRYDVPCIAFINKLDRLGADPY 337
++ P I +NK+D + +
Sbjct: 102 RKSKKPVILVVNKIDNIKEEEE 123
>gnl|CDD|239390 cd03116, MobB, Molybdenum is an essential trace element in the form
of molybdenum cofactor (Moco) which is associated with
the metabolism of nitrogen, carbon and sulfur by redox
active enzymes. In E. coli, the synthesis of Moco
involves genes from several loci: moa, mob, mod, moe and
mog. The mob locus contains mobA and mobB genes. MobB
catalyzes the attachment of the guanine dinucleotide to
molybdopterin.
Length = 159
Score = 31.5 bits (72), Expect = 1.1
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 151 IGISAHIDSGKTTLTERIL 169
IG + SGKTTL E+++
Sbjct: 4 IGFVGYSGSGKTTLLEKLI 22
Score = 31.5 bits (72), Expect = 1.1
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 202 IGISAHIDSGKTTLTERIL 220
IG + SGKTTL E+++
Sbjct: 4 IGFVGYSGSGKTTLLEKLI 22
>gnl|CDD|232975 TIGR00437, feoB, ferrous iron transporter FeoB. FeoB (773 amino
acids in E. coli), a cytoplasmic membrane protein
required for iron(II) update, is encoded in an operon
with FeoA (75 amino acids), which is also required, and
is regulated by Fur. There appear to be two copies in
Archaeoglobus fulgidus and Clostridium acetobutylicum
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 591
Score = 32.8 bits (75), Expect = 1.1
Identities = 40/198 (20%), Positives = 74/198 (37%), Gaps = 19/198 (9%)
Query: 252 GITIQSAATYTLWKDHNINIIDTPGHVDFTV-----EVERALRVLDGAILVLCAVGGVQ- 305
G+T++ ++ +I I+D PG T EV R + + LV+ V
Sbjct: 26 GVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNL 85
Query: 306 SQTLTVNRQMKRYDVPCIAFINKLDRLGADPYRVINQMRQKVGHNAAFLQIPIGLGSETK 365
+ L + Q+ +P I +N +D R+ + ++ L +P+ S T+
Sbjct: 86 ERNLYLTLQLLELGIPMILALNLVDEAEKKGIRIDEEKLEER------LGVPVVPTSATE 139
Query: 366 GI-IDLIQRKAIYFEGPLGDNLRIEEIPADLKKEAESKRQELIEHVAEGDEILGEMFLE- 423
G I+ ++ G R EI EA E++E + E + + LE
Sbjct: 140 GRGIERLKDAIRKAIGLKELKKRAIEI----VPEAYQVV-EVVEGLIEIIYSISKRGLEI 194
Query: 424 EKSISEDDIKKAIRRSTL 441
+ ED + +
Sbjct: 195 LLGLLEDLSLEIEKIERN 212
Score = 32.0 bits (73), Expect = 1.8
Identities = 20/85 (23%), Positives = 36/85 (42%), Gaps = 6/85 (7%)
Query: 35 GITIQSAATYTLWKDHNINIIDTPGHVDFTV-----EVERALRVLDGAILVLCAVGGVQ- 88
G+T++ ++ +I I+D PG T EV R + + LV+ V
Sbjct: 26 GVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNL 85
Query: 89 SQTLTVNRQMKRYDVPCIAFINKLD 113
+ L + Q+ +P I +N +D
Sbjct: 86 ERNLYLTLQLLELGIPMILALNLVD 110
>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG). NOG1 is a
nucleolar GTP-binding protein present in eukaryotes
ranging from trypanosomes to humans. NOG1 is
functionally linked to ribosome biogenesis and found in
association with the nuclear pore complexes and
identified in many preribosomal complexes. Thus, defects
in NOG1 can lead to defects in 60S biogenesis. The S.
cerevisiae NOG1 gene is essential for cell viability,
and mutations in the predicted G motifs abrogate
function. It is a member of the ODN family of
GTP-binding proteins that also includes the bacterial
Obg and DRG proteins.
Length = 167
Score = 31.4 bits (72), Expect = 1.4
Identities = 23/93 (24%), Positives = 37/93 (39%), Gaps = 13/93 (13%)
Query: 269 INIIDTPGHVDFTVE----VER----ALRVLDGAILVLCAVGG-----VQSQTLTVNRQM 315
+IDTPG +D +E +E AL L A+L ++ Q
Sbjct: 49 WQVIDTPGILDRPLEERNTIEMQAITALAHLRAAVLFFIDPSETCGYSIEEQLSLFKEIK 108
Query: 316 KRYDVPCIAFINKLDRLGADPYRVINQMRQKVG 348
++ P I +NK+D L + I + +K G
Sbjct: 109 PLFNKPVIVVLNKIDLLTEEDLSEIEKELEKEG 141
Score = 30.2 bits (69), Expect = 2.9
Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 13/91 (14%)
Query: 52 INIIDTPGHVDFTVE----VER----ALRVLDGAILVLCAVGG-----VQSQTLTVNRQM 98
+IDTPG +D +E +E AL L A+L ++ Q
Sbjct: 49 WQVIDTPGILDRPLEERNTIEMQAITALAHLRAAVLFFIDPSETCGYSIEEQLSLFKEIK 108
Query: 99 KRYDVPCIAFINKLDRLGADPYRVINQMRQK 129
++ P I +NK+D L + I + +K
Sbjct: 109 PLFNKPVIVVLNKIDLLTEEDLSEIEKELEK 139
>gnl|CDD|218214 pfam04695, Pex14_N, Peroxisomal membrane anchor protein (Pex14p)
conserved region. Family of peroxisomal membrane anchor
proteins which bind the PTS1 (peroxisomal targeting
signal) receptor and are required for the import of
PTS1-containing proteins into peroxisomes. Loss of
functional Pex14p results in defects in both the PTS1
and PTS2-dependent import pathways. Deletion analysis of
this conserved region implicates it in selective
peroxisome degradation. In the majority of members this
region is situated at the N-terminus of the protein.
Length = 79
Score = 29.2 bits (66), Expect = 2.1
Identities = 8/19 (42%), Positives = 16/19 (84%)
Query: 421 FLEEKSISEDDIKKAIRRS 439
FLE K ++E++I +A++R+
Sbjct: 29 FLESKGLTEEEIDEALKRA 47
>gnl|CDD|223783 COG0711, AtpF, F0F1-type ATP synthase, subunit b [Energy production
and conversion].
Length = 161
Score = 30.7 bits (70), Expect = 2.3
Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 2/81 (2%)
Query: 389 EEIPADLKKEAESKRQELIEHVAEGDEILGEMFLEEKSISEDDIKKAIRRST--LTRKFT 446
EI KKEAE +E+ E E + E E ++ + +R L
Sbjct: 75 SEIIEQAKKEAEQIAEEIKAEAEEELERIKEAAEAEIEAEKERALEELRAEVAELAVAIA 134
Query: 447 PVLVGTALKNKGVQTLLDAVL 467
L+G + + L+DA +
Sbjct: 135 EKLLGKKVDEAAQKDLIDAFI 155
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 31.4 bits (72), Expect = 2.5
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 367 IIDLIQ-RKAIYFEGPLGDNL---RIEEIPADLKKEAESKRQELIEHVAEGD 414
IID IQ R A++ PL R+ I + E E I +V+EGD
Sbjct: 145 IIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGD 196
>gnl|CDD|235966 PRK07207, PRK07207, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 965
Score = 31.5 bits (72), Expect = 3.1
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 17/45 (37%)
Query: 377 YFEGPLGDNLRIEEIPADLKK--------------EAESKRQELI 407
YF+G L RI+ IPADLK EA S+RQ+ I
Sbjct: 831 YFDGSLQ---RIDRIPADLKALYATAFEVDPRWLVEAASRRQKWI 872
>gnl|CDD|227244 COG4907, COG4907, Predicted membrane protein [Function unknown].
Length = 595
Score = 31.1 bits (70), Expect = 3.5
Identities = 21/137 (15%), Positives = 43/137 (31%), Gaps = 25/137 (18%)
Query: 587 SISLESIYVADPVVSMSIKAVNNKDRDNFSKAVQRFTKEDPTFHFFYDPESKETLVSGMG 646
++ S Y V+ S+ D + E TF F Y + + +
Sbjct: 81 ENNVISPYREVDPVNYSVTDEG--DGVYRIGLYSKNYNEVRTFKFVYTLPEAIKVYNDVA 138
Query: 647 ELHLEIYAQRMEREYNCPVVLGKPKVAFKETLVQPFDFDYLHKKQSGGSGQYGRVIGTLE 706
+ + ++ Q + + + K T+ P + DY + K L
Sbjct: 139 QFNRKLVGQDWQ----------QGISSVKVTIELPVENDYDNSK-------------VLV 175
Query: 707 PLPPSANTKLEFIDETV 723
P +++ I+ V
Sbjct: 176 FGHPPLTGEVDKIENNV 192
>gnl|CDD|233564 TIGR01768, GGGP-family, geranylgeranylglyceryl phosphate synthase
family protein. This model represents a family of
sequences including geranylgeranylglyceryl phosphate
synthase which catalyzes the first committed step in the
synthesis of ether-linked membrane lipids in archaea.
The clade of bacterial sequences may have the same
function or a closely related function. This model
supercedes TIGR00265, which has been retired.
Length = 223
Score = 30.5 bits (69), Expect = 3.7
Identities = 18/74 (24%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 77 AILVLCAVGGVQSQTLTVNRQMKRYDVPCIAFINKLDRL--GADPYRVINQMRQKTSRWI 134
AIL+ + G +T T+ ++RY +P I F + + AD + + WI
Sbjct: 30 AILIGGSQGVTYEKTDTLIEALRRYGLPIILFPSNPTNVSRDADALFFPSVLNSDDPYWI 89
Query: 135 SN---ESLSEHKPI 145
E+ + K I
Sbjct: 90 IGAQIEAAPKFKKI 103
>gnl|CDD|237048 PRK12299, obgE, GTPase CgtA; Reviewed.
Length = 335
Score = 30.8 bits (71), Expect = 3.9
Identities = 10/44 (22%), Positives = 22/44 (50%)
Query: 427 ISEDDIKKAIRRSTLTRKFTPVLVGTALKNKGVQTLLDAVLDYL 470
+ E++ ++ L PV + +A+ +G+ LL A+ + L
Sbjct: 284 LDEEEEREKRAALELAALGGPVFLISAVTGEGLDELLRALWELL 327
>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 = 28.6 bits (65), Expect = 4.1
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 6/71 (8%)
Query: 515 GQLTYMRCYQGKLRKGEMIYNVRTDKKVRVSRLVRLHSNEMEDVEEVLAGDI-FALFGV- 572
G + +R + G L+KG+ I + T K+ V + EM +E+ AG + + + G+
Sbjct: 15 GVIALVRVFDGTLKKGDKIRFMSTGKEYEVEEVGIFRP-EMTPTDELSAGQVGYIIAGIK 73
Query: 573 ---DCASGDTF 580
D GDT
Sbjct: 74 TVKDARVGDTI 84
>gnl|CDD|188935 cd09536, SAM_Ste50_fungal, SAM domain of Ste50 fungal subfamily.
SAM (sterile alpha motif) domain of Ste50 fungal
subfamily is a protein-protein interaction domain.
Proteins of this subfamily have SAM domain at the
N-terminus and Ras-associated UBQ superfamily domain at
the C-terminus. They participate in regulation of mating
pheromone response, invasive growth and high osmolarity
growth response, and contribute to cell wall integrity
in vegetative cells. Ste50 of S.cerevisiae acts as an
adaptor protein between G protein and MAP triple kinase
Ste11. Ste50 proteins are able to form homooligomers,
binding each other via their SAM domains, as well as
heterodimers and heterogeneous complexes with SAM domain
or SAM homodimers of MAPKKK Ste11 protein kinase.
Length = 74
Score = 28.2 bits (63), Expect = 4.4
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 404 QELIEHVAEGDEILGEMFLEE-KSISEDDIKKAIRRSTLTRKF 445
L E+ G +L E+ LE+ K + ++D+ AIR L K
Sbjct: 29 DRLRENNITGS-LLSELTLEDCKELCDNDLSLAIRLKLLINKL 70
>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 = 29.9 bits (68), Expect = 4.9
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 18/55 (32%)
Query: 201 NIGISAHIDSGKTTLTERILFYTGRISEMHEVRGKDNVGAVMDSMELERQRGITI 255
NIG H+ GKTTL + +S + VR K+ EL+ R ITI
Sbjct: 2 NIGTIGHVAHGKTTLVK-------ALSGVWTVRHKE---------ELK--RNITI 38
>gnl|CDD|224978 COG2067, FadL, Long-chain fatty acid transport protein [Lipid
metabolism].
Length = 440
Score = 30.1 bits (68), Expect = 6.3
Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 5/48 (10%)
Query: 967 GNEGKDDWV-TIYAEIPLNDMFGFAGDLRSSTQGKGEFSMDYSRYSPA 1013
G+ WV Y P+ND F F G + +Y
Sbjct: 99 GDITPTAWVPNFYFVAPINDQFAFGLSF-YVPYG---LATEYDDNWAG 142
>gnl|CDD|212166 cd11652, SSH-N, N-terminal domain conserved in slingshot (SSH)
phosphatases. This domain or region conserved in
Bilateria is found N-terminal to the DEK_C-like and
catalytic domains of slingshot phosphatases. Slingshot
is a cofilin-specific phosphatase. Dephosphorylation
reactivates cofilin, which in turn depolymerizes actin
and is thus required for actin filament reorganization.
Slingshot is a member of the dual-specificity protein
phosphatase family. This N-terminal SSH region may be
involved in P-cofilin binding (the model C-terminus plus
the DEK_C-like domain, which are characterized as the
"B" domain in some of the literature), and may be
required for the F-actin mediated activation of
slingshot (the N-terminal region of this model,
sometimes referred to as the "A" domain).
Length = 233
Score = 29.6 bits (67), Expect = 6.3
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 6/40 (15%)
Query: 543 RVSRLVRLHSNEMEDVEEVLAGDIFALFGVDCASGDTFVT 582
R LV + + +D EE + L GVD ++ T
Sbjct: 101 RTRYLVVVSTLGRQDTEESI------LLGVDFPPKESSCT 134
>gnl|CDD|237731 PRK14494, PRK14494, putative molybdopterin-guanine dinucleotide
biosynthesis protein MobB/FeS domain-containing protein
protein; Provisional.
Length = 229
Score = 29.6 bits (67), Expect = 8.1
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 148 IRNIGISAHIDSGKTTLTERIL 169
+R IG+ DSGKTTL E+IL
Sbjct: 1 MRAIGVIGFKDSGKTTLIEKIL 22
Score = 29.6 bits (67), Expect = 8.1
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 199 IRNIGISAHIDSGKTTLTERIL 220
+R IG+ DSGKTTL E+IL
Sbjct: 1 MRAIGVIGFKDSGKTTLIEKIL 22
>gnl|CDD|237248 PRK12890, PRK12890, allantoate amidohydrolase; Reviewed.
Length = 414
Score = 29.9 bits (68), Expect = 8.2
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 16/98 (16%)
Query: 267 HNINIIDTPGHVDFTVEV--------ERALRVLDGAILVLCAVGGVQSQTLTVNRQMK-R 317
+ IN++ PG V FT+++ E A L + + A GV+ + ++R
Sbjct: 275 NAINVV--PGRVVFTLDLRSPDDAVLEAAEAALLAELEAIAAARGVRIELERLSRSEPVP 332
Query: 318 YDVPCIAFINK-LDRLGADPYRVINQMRQKVGHNAAFL 354
D + + RLG R M GH+AA +
Sbjct: 333 CDPALVDAVEAAAARLGYPSRR----MPSGAGHDAAAI 366
>gnl|CDD|106966 PHA00657, PHA00657, crystallin beta/gamma motif-containing protein.
Length = 2052
Score = 30.1 bits (67), Expect = 8.3
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 654 AQRMEREYNCPV--VLGKPKVAFKETLVQPFDFDYLHK 689
AQR+ R N P+ VL +PK A ++ + DFD L K
Sbjct: 60 AQRVARRANLPIETVLNQPKEAKRQDTIGAIDFDTLGK 97
>gnl|CDD|224677 COG1763, MobB, Molybdopterin-guanine dinucleotide biosynthesis
protein [Coenzyme metabolism].
Length = 161
Score = 28.8 bits (65), Expect = 8.7
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 151 IGISAHIDSGKTTLTERIL 169
+GI + +SGKTTL E+++
Sbjct: 5 LGIVGYKNSGKTTLIEKLV 23
Score = 28.8 bits (65), Expect = 8.7
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 202 IGISAHIDSGKTTLTERIL 220
+GI + +SGKTTL E+++
Sbjct: 5 LGIVGYKNSGKTTLIEKLV 23
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 0.135 0.391
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: 53,642,348
Number of extensions: 5426315
Number of successful extensions: 5870
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5590
Number of HSP's successfully gapped: 349
Length of query: 1043
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 936
Effective length of database: 6,191,724
Effective search space: 5795453664
Effective search space used: 5795453664
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)