RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15088
(1291 letters)
>gnl|CDD|240409 PTZ00416, PTZ00416, elongation factor 2; Provisional.
Length = 836
Score = 538 bits (1387), Expect = e-174
Identities = 241/610 (39%), Positives = 339/610 (55%), Gaps = 67/610 (10%)
Query: 672 DDNEESLKKRISVYNTETMPIIKFFEAKNLVKR-----FNAEKSLVEMCVKHIPSPAENA 726
++++E K + N K K L+K A +L+EM V H+PSP E
Sbjct: 284 NEDKEKYDKMLKSLNISLTGEDKELTGKPLLKAVMQKWLPAADTLLEMIVDHLPSPKEAQ 343
Query: 727 ETKVSYMYTGPGDSDVARDMKACNPEGRLMVHSSKKNAETKVSYMYTGPGDSDVARDMKA 786
+ +V +Y GP D + A ++ C+P G LM MY
Sbjct: 344 KYRVENLYEGPMDDEAANAIRNCDPNGPLM--------------MYI------------- 376
Query: 787 CNPEGRLMVHSSKMYPTEECTFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTV 846
SKM PT + F RV SGT+ GQ+VR+ G NY +ED +
Sbjct: 377 -----------SKMVPTSDKGRFYAFGRVFSGTVATGQKVRIQGPNYVPGKKEDLFEKNI 425
Query: 847 GRLWIYEARYKVEVNRVPAGNWVLIEGIDQPIVKTSTITDLITNEDMYIFRPLKFNTQSV 906
R + RY ++ VP GN V + G+DQ +VK+ TIT T+E + R +K++ V
Sbjct: 426 QRTVLMMGRYVEQIEDVPCGNTVGLVGVDQYLVKSGTIT---TSETAHNIRDMKYSVSPV 482
Query: 907 IKIAVEPVNPSELPKMLDGLRKVNKSYPLLTTKVEESGEHVVLGTGELYLDCVMHDLRKM 966
+++AVEP NP +LPK+++GL+++ KS PL+ EESGEH+V G GEL+++ + DL
Sbjct: 483 VRVAVEPKNPKDLPKLVEGLKRLAKSDPLVVCTTEESGEHIVAGCGELHVEICLKDLEDD 542
Query: 967 YSEIDIKVADPVVAFCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHI 1026
Y+ IDI V+DPVV++ ETV E SS C +++PNK N++ M AEPL + LAE IE V
Sbjct: 543 YANIDIIVSDPVVSYRETVTEESSQTCLSKSPNKHNRLYMKAEPLTEELAEAIEEGKVGP 602
Query: 1027 AWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGL--LGSVKDS 1084
+ K F KY+WD AR IW FGPE GPN+LVD T KG+ + +KDS
Sbjct: 603 EDDPKERANFLADKYEWDKNDARKIWCFGPENKGPNVLVDVT------KGVQYMNEIKDS 656
Query: 1085 IVQGFQWGTREGPLCEEPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMATP 1144
V FQW T+EG LC+E +R ++F ILD + + +HRG GQIIPTARRV Y+ L A+P
Sbjct: 657 CVSAFQWATKEGVLCDENMRGIRFNILDVTLHADAIHRGAGQIIPTARRVFYACELTASP 716
Query: 1145 RLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFET 1204
RL+EP V++ AP D + +Y+VL +RRG V + PG+PL IKA++P +SFGF
Sbjct: 717 RLLEPMFLVDITAPEDAMGGIYSVLNRRRGVVIGEEQRPGTPLSNIKAYLPVAESFGFTA 776
Query: 1205 DLRTHTQGQAFCLSVFHHWQIVPGDPLDKSIVIRPLEPQPATHLAREFMIKTRRRKGLSE 1264
LR T GQAF VF HWQ+VPGDPL+ A E ++ R+RKGL
Sbjct: 777 ALRAATSGQAFPQCVFDHWQVVPGDPLEPG------------SKANEIVLSIRKRKGLKP 824
Query: 1265 DV-SINKFFD 1273
++ ++ + D
Sbjct: 825 EIPDLDNYLD 834
Score = 207 bits (530), Expect = 2e-55
Identities = 90/200 (45%), Positives = 126/200 (63%), Gaps = 8/200 (4%)
Query: 1 MLDGLRKVNKSYPLLTTKVEESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAF 60
+++GL+++ KS PL+ EESGEH+V G GEL+++ + DL Y+ IDI V+DPVV++
Sbjct: 498 LVEGLKRLAKSDPLVVCTTEESGEHIVAGCGELHVEICLKDLEDDYANIDIIVSDPVVSY 557
Query: 61 CETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLGEFFQSKY 120
ETV E SS C +++PNK N++ M AEPL + LAE IE V + K F KY
Sbjct: 558 RETVTEESSQTCLSKSPNKHNRLYMKAEPLTEELAEAIEEGKVGPEDDPKERANFLADKY 617
Query: 121 DWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGL--LGSVKDSIVQGFQWGTREGPLC 178
+WD AR IW FGPE GPN+LVD T KG+ + +KDS V FQW T+EG LC
Sbjct: 618 EWDKNDARKIWCFGPENKGPNVLVDVT------KGVQYMNEIKDSCVSAFQWATKEGVLC 671
Query: 179 EEPIRNVKFKIREGNLNSSP 198
+E +R ++F I + L++
Sbjct: 672 DENMRGIRFNILDVTLHADA 691
Score = 103 bits (258), Expect = 4e-22
Identities = 44/104 (42%), Positives = 65/104 (62%), Gaps = 8/104 (7%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+FS EVTAA+R+ DG ++ VD EGV + TE +L+ A+QE++ L +NK+DR +L
Sbjct: 100 PGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQERIRPVLFINKVDRAIL 159
Query: 283 ELKLPPQDAYYKIKHIIDEINGLLRYLLIDDDREDGDEEMGDSQ 326
EL+L P++ Y I+ +N ++ DE MGD Q
Sbjct: 160 ELQLDPEEIYQNFVKTIENVNVIIATY--------NDELMGDVQ 195
Score = 68.2 bits (167), Expect = 2e-11
Identities = 33/91 (36%), Positives = 54/91 (59%), Gaps = 7/91 (7%)
Query: 393 MMDTPHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVS 452
+MD P IRN++++ H+ HGK+T+ D L+ G + R+TDT EQERG++
Sbjct: 12 IMDNPDQIRNMSVIAHVDHGKSTLTDSLV--CKAGIISSKNAGDARFTDTRADEQERGIT 69
Query: 453 IKASPVTLL----LPDVKGKN-YLMNIFDTP 478
IK++ ++L L D K +L+N+ D+P
Sbjct: 70 IKSTGISLYYEHDLEDGDDKQPFLINLIDSP 100
Score = 42.7 bits (101), Expect = 0.001
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 569 RPLLRLVYKVE-VNRVPAGNWVLIEGIDQPIVKTSTITDLITNEDITSNKF 618
R +L + VE + VP GN V + G+DQ +VK+ TIT T +I K+
Sbjct: 427 RTVLMMGRYVEQIEDVPCGNTVGLVGVDQYLVKSGTITTSETAHNIRDMKY 477
Score = 42.0 bits (99), Expect = 0.003
Identities = 17/66 (25%), Positives = 33/66 (50%)
Query: 510 RKFSKKAAHASAQRSFVEFVLEPVYKLVAQVVGDVDSSLPAVLDQLGIHMNKEESKINIR 569
K A +R+F +F+L+P+ +L V+ + +L L I + E+ ++ +
Sbjct: 252 IKDETNAQGKKLKRAFCQFILDPICQLFDAVMNEDKEKYDKMLKSLNISLTGEDKELTGK 311
Query: 570 PLLRLV 575
PLL+ V
Sbjct: 312 PLLKAV 317
>gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit;
Provisional.
Length = 843
Score = 496 bits (1279), Expect = e-158
Identities = 224/610 (36%), Positives = 339/610 (55%), Gaps = 66/610 (10%)
Query: 673 DNEESLKKRISVYNTETMPIIKFFEAKNLVKR-----FNAEKSLVEMCVKHIPSPAENAE 727
D ++ L + K K L+KR A +L+EM + H+PSPA
Sbjct: 289 DQKDKLWPMLEKLGVTLKSDEKELMGKALMKRVMQTWLPASDALLEMIIFHLPSPA---- 344
Query: 728 TKVSYMYTGPGDSDVARDMKACNPEGRLMVHSSKKNAETKVSYMYTGPGDSDVARDMKAC 787
K +V +Y GP D A ++ C
Sbjct: 345 ----------------------------------KAQRYRVENLYEGPLDDKYATAIRNC 370
Query: 788 NPEGRLMVHSSKMYPTEECTFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVG 847
+P G LM++ SKM P + F RV SGT+ G +VR++G NY +++D + +V
Sbjct: 371 DPNGPLMLYVSKMIPASDKGRFFAFGRVFSGTVATGMKVRIMGPNYVPGEKKDLYVKSVQ 430
Query: 848 RLWIYEARYKVEVNRVPAGNWVLIEGIDQPIVKTSTITDLITNEDMYIFRPLKFNTQSVI 907
R I+ + + V VP GN V + G+DQ I K +T+T+ D + + +KF+ V+
Sbjct: 431 RTVIWMGKKQESVEDVPCGNTVAMVGLDQFITKNATLTNE-KEVDAHPIKAMKFSVSPVV 489
Query: 908 KIAVEPVNPSELPKMLDGLRKVNKSYPLLTTKVEESGEHVVLGTGELYLDCVMHDLRKMY 967
++AV+ N S+LPK+++GL+++ KS P++ +EESGEH++ G GEL+L+ + DL+ +
Sbjct: 490 RVAVQCKNASDLPKLVEGLKRLAKSDPMVQCTIEESGEHIIAGAGELHLEICLKDLQDDF 549
Query: 968 -SEIDIKVADPVVAFCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHI 1026
+IKV+DPVV+F ETV+E S +++PNK N++ M A PLE+GLAE I++ +
Sbjct: 550 MGGAEIKVSDPVVSFRETVLEKSCRTVMSKSPNKHNRLYMEARPLEEGLAEAIDDGRIGP 609
Query: 1027 AWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGL--LGSVKDS 1084
+ K + ++ WD A+ IW FGPE TGPN++VD KG+ L +KDS
Sbjct: 610 RDDPKIRSKILAEEFGWDKDLAKKIWCFGPETTGPNMVVDMC------KGVQYLNEIKDS 663
Query: 1085 IVQGFQWGTREGPLCEEPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMATP 1144
+V GFQW T+EG L EE +R + F++ D V+ + +HRGGGQIIPTARRV Y++ L A P
Sbjct: 664 VVAGFQWATKEGALAEENMRGICFEVCDVVLHADAIHRGGGQIIPTARRVIYASQLTAKP 723
Query: 1145 RLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFET 1204
RL+EP VE+QAP + +Y+VL ++RGHV ++ PG+PLY IKA++P I+SFGF
Sbjct: 724 RLLEPVYLVEIQAPEQALGGIYSVLNQKRGHVFEEMQRPGTPLYNIKAYLPVIESFGFSG 783
Query: 1205 DLRTHTQGQAFCLSVFHHWQIVPGDPLDKSIVIRPLEPQPATHLAREFMIKTRRRKGLSE 1264
LR T GQAF VF HW ++ DPL+ A + + R+RKGL E
Sbjct: 784 TLRAATSGQAFPQCVFDHWDMMSSDPLEAGSQ------------AAQLVADIRKRKGLKE 831
Query: 1265 DV-SINKFFD 1273
+ ++++ D
Sbjct: 832 QMPPLSEYED 841
Score = 188 bits (480), Expect = 4e-49
Identities = 81/199 (40%), Positives = 128/199 (64%), Gaps = 9/199 (4%)
Query: 1 MLDGLRKVNKSYPLLTTKVEESGEHVVLGTGELYLDCVMHDLRKMY-SEIDIKVADPVVA 59
+++GL+++ KS P++ +EESGEH++ G GEL+L+ + DL+ + +IKV+DPVV+
Sbjct: 504 LVEGLKRLAKSDPMVQCTIEESGEHIIAGAGELHLEICLKDLQDDFMGGAEIKVSDPVVS 563
Query: 60 FCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLGEFFQSK 119
F ETV+E S +++PNK N++ M A PLE+GLAE I++ + + K + +
Sbjct: 564 FRETVLEKSCRTVMSKSPNKHNRLYMEARPLEEGLAEAIDDGRIGPRDDPKIRSKILAEE 623
Query: 120 YDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGL--LGSVKDSIVQGFQWGTREGPL 177
+ WD A+ IW FGPE TGPN++VD KG+ L +KDS+V GFQW T+EG L
Sbjct: 624 FGWDKDLAKKIWCFGPETTGPNMVVDMC------KGVQYLNEIKDSVVAGFQWATKEGAL 677
Query: 178 CEEPIRNVKFKIREGNLNS 196
EE +R + F++ + L++
Sbjct: 678 AEENMRGICFEVCDVVLHA 696
Score = 86.7 bits (215), Expect = 4e-17
Identities = 37/81 (45%), Positives = 55/81 (67%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+FS EVTAA+R+ DG ++ VD EGV + TE +L+ A+ E++ L VNK+DR L
Sbjct: 106 PGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPVLTVNKMDRCFL 165
Query: 283 ELKLPPQDAYYKIKHIIDEIN 303
EL++ ++AY +I+ N
Sbjct: 166 ELQVDGEEAYQTFSRVIENAN 186
Score = 69.4 bits (170), Expect = 9e-12
Identities = 37/128 (28%), Positives = 61/128 (47%), Gaps = 27/128 (21%)
Query: 385 YNMEFLADMMDTPHLIRNVALVGHLHHGKTTMIDCL------IRQTHPGYRQPAEEKNLR 438
+ E L +MD H IRN++++ H+ HGK+T+ D L I Q G ++R
Sbjct: 4 FTAEELRRIMDKKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAG--------DVR 55
Query: 439 YTDTLFTEQERGVSIKASPVTLLLPDVKGKNYLMNIFDTPASPVTLLLPDVKGKNYLMNI 498
TDT E ERG++IK++ ++L ++ + + G YL+N+
Sbjct: 56 MTDTRADEAERGITIKSTGISLY-------------YEMTDESLKDFKGERDGNEYLINL 102
Query: 499 FDTPGMWD 506
D+PG D
Sbjct: 103 IDSPGHVD 110
Score = 38.9 bits (91), Expect = 0.018
Identities = 22/96 (22%), Positives = 48/96 (50%), Gaps = 10/96 (10%)
Query: 497 NIFDTPGMWDIHVRKFSKKAA-HASAQRSFVEFVLEPVYKLVAQVVGDVDSSLPAVLDQL 555
N FD +K++ K + +R FV+F EP+ +++ + D L +L++L
Sbjct: 248 NFFDPA------TKKWTTKNTGSPTCKRGFVQFCYEPIKQIINTCMNDQKDKLWPMLEKL 301
Query: 556 GIHMNKEESKINIRPLLRLVYKVEVNRVPAGNWVLI 591
G+ + +E ++ + L++ +V +PA + +L
Sbjct: 302 GVTLKSDEKELMGKALMK---RVMQTWLPASDALLE 334
Score = 37.0 bits (86), Expect = 0.079
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 580 VNRVPAGNWVLIEGIDQPIVKTSTITD 606
V VP GN V + G+DQ I K +T+T+
Sbjct: 443 VEDVPCGNTVAMVGLDQFITKNATLTN 469
>gnl|CDD|238840 cd01683, EF2_IV_snRNP, EF-2_domain IV_snRNP domain is a part of 116kD
U5-specific protein of the U5 small nucleoprotein (snRNP)
particle, essential component of the spliceosome. The
protein is structurally closely related to the eukaryotic
translational elongation factor EF2. This domain has been
also identified in 114kD U5-specific protein of
Saccharomyces cerevisiae and may play an important role
either in splicing process itself or the recycling of
spliceosomal snRNP.
Length = 178
Score = 348 bits (894), Expect = e-112
Identities = 138/178 (77%), Positives = 156/178 (87%)
Query: 976 DPVVAFCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLGE 1035
DPVV FCETVVETSS KCFAETPNK+NKITMIAEPL+KGLAEDIEN + ++WN+K+LG+
Sbjct: 1 DPVVTFCETVVETSSAKCFAETPNKKNKITMIAEPLDKGLAEDIENGQLKLSWNRKKLGK 60
Query: 1036 FFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTRE 1095
F ++KY WD LAARSIWAFGP+ GPN+L+DDTLP EVDK LL SVK+SIVQGFQW RE
Sbjct: 61 FLRTKYGWDALAARSIWAFGPDTKGPNVLIDDTLPEEVDKNLLNSVKESIVQGFQWAVRE 120
Query: 1096 GPLCEEPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMATPRLMEPYLFV 1153
GPLCEEPIRNVKFK+LDA IA+EP+ RGGGQIIPTARR YSAFL+ATPRLMEP V
Sbjct: 121 GPLCEEPIRNVKFKLLDADIASEPIDRGGGQIIPTARRACYSAFLLATPRLMEPIYEV 178
Score = 268 bits (688), Expect = 4e-83
Identities = 107/144 (74%), Positives = 125/144 (86%)
Query: 55 DPVVAFCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLGE 114
DPVV FCETVVETSS KCFAETPNK+NKITMIAEPL+KGLAEDIEN + ++WN+K+LG+
Sbjct: 1 DPVVTFCETVVETSSAKCFAETPNKKNKITMIAEPLDKGLAEDIENGQLKLSWNRKKLGK 60
Query: 115 FFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTRE 174
F ++KY WD LAARSIWAFGP+ GPN+L+DDTLP EVDK LL SVK+SIVQGFQW RE
Sbjct: 61 FLRTKYGWDALAARSIWAFGPDTKGPNVLIDDTLPEEVDKNLLNSVKESIVQGFQWAVRE 120
Query: 175 GPLCEEPIRNVKFKIREGNLNSSP 198
GPLCEEPIRNVKFK+ + ++ S P
Sbjct: 121 GPLCEEPIRNVKFKLLDADIASEP 144
>gnl|CDD|238839 cd01681, aeEF2_snRNP_like_IV, This family represents domain IV of
archaeal and eukaryotic elongation factor 2 (aeEF-2) and
of an evolutionarily conserved U5 snRNP-specific protein.
U5 snRNP is a GTP-binding factor closely related to the
ribosomal translocase EF-2. 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 of the small subunit of ribosome and the
mRNA is shifted one codon relative to the ribosome. It
has been shown that EF-2_IV domain mimics the shape of
anticodon arm of the tRNA in the structurally homologous
ternary complex of Phe-tRNA, EF-1 (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-2 displaces the A-site tRNA to the P-site by
physical interaction with the anticodon arm.
Length = 177
Score = 297 bits (764), Expect = 1e-93
Identities = 107/177 (60%), Positives = 129/177 (72%)
Query: 976 DPVVAFCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLGE 1035
DPVV+F ETVVETSS C A++PNK N++ M AEPL + L EDIE + + +KK+
Sbjct: 1 DPVVSFRETVVETSSGTCLAKSPNKHNRLYMRAEPLPEELIEDIEKGKITLKDDKKKRAR 60
Query: 1036 FFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTRE 1095
KY WD LAAR IWAFGP+ TGPNILVDDT + DK LL +KDSIV GFQW T+E
Sbjct: 61 ILLDKYGWDKLAARKIWAFGPDRTGPNILVDDTKGVQYDKSLLNEIKDSIVAGFQWATKE 120
Query: 1096 GPLCEEPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMATPRLMEPYLF 1152
GPLCEEP+R VKFK+ DA + + +HRGGGQIIP ARR Y+AFL+A+PRLMEP
Sbjct: 121 GPLCEEPMRGVKFKLEDATLHADAIHRGGGQIIPAARRACYAAFLLASPRLMEPMYL 177
Score = 226 bits (578), Expect = 3e-68
Identities = 83/144 (57%), Positives = 102/144 (70%)
Query: 55 DPVVAFCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLGE 114
DPVV+F ETVVETSS C A++PNK N++ M AEPL + L EDIE + + +KK+
Sbjct: 1 DPVVSFRETVVETSSGTCLAKSPNKHNRLYMRAEPLPEELIEDIEKGKITLKDDKKKRAR 60
Query: 115 FFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTRE 174
KY WD LAAR IWAFGP+ TGPNILVDDT + DK LL +KDSIV GFQW T+E
Sbjct: 61 ILLDKYGWDKLAARKIWAFGPDRTGPNILVDDTKGVQYDKSLLNEIKDSIVAGFQWATKE 120
Query: 175 GPLCEEPIRNVKFKIREGNLNSSP 198
GPLCEEP+R VKFK+ + L++
Sbjct: 121 GPLCEEPMRGVKFKLEDATLHADA 144
>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases) [Translation,
ribosomal structure and biogenesis].
Length = 697
Score = 303 bits (779), Expect = 4e-89
Identities = 128/500 (25%), Positives = 204/500 (40%), Gaps = 97/500 (19%)
Query: 772 YTGPGDSDVARDMK-ACNPEGRLMVHSSKMYPT---EECTFFQVLARVMSGTLHAGQEVR 827
G D ++ + + + EG L K+ + TF RV SGTL +G EV
Sbjct: 286 IKGDLDDEIEKAVLRKASDEGPLSALVFKIMTDPFVGKLTFV----RVYSGTLKSGSEVL 341
Query: 828 VLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVLIEGIDQPIVKTSTITDL 887
+ + VGRL + + EV+ VPAG+ V + G+ T+ D
Sbjct: 342 NSTKG---------KKERVGRLLLMHGNEREEVDEVPAGDIVALVGLKD-ATTGDTLCDE 391
Query: 888 ITNEDMYIFRPLKFNTQSVIKIAVEPVNPSELPKMLDGLRKVNKSYPLLTTKV-EESGEH 946
I ++F VI +AVEP ++ K+ + L K+ + P + EE+GE
Sbjct: 392 ---NKPVILESMEFPE-PVISVAVEPKTKADQEKLSEALNKLAEEDPTFRVETDEETGET 447
Query: 947 VVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAFCETVVETSSL----KCFAETPNKRN 1002
++ G GEL+L+ ++ D K ++++V P VA+ ET+ + S + K + P +
Sbjct: 448 IISGMGELHLEIIV-DRLKREFGVEVEVGKPQVAYRETIRKKSEVEGKHKKQSGGPGQYG 506
Query: 1003 KITMIAEPLEKGLAEDIENQIVHIAWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPN 1062
+ + EPLE G + ++IV
Sbjct: 507 HVYIEIEPLEDGSGFEFVDKIV-------------------------------------- 528
Query: 1063 ILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTREGPLCEEPIRNVKFKILDAVIATEPLHR 1122
+P E + +V+ GF+ + GPL P+ +VK +LD +
Sbjct: 529 ---GGVVPKEY----IPAVEK----GFREALKSGPLAGYPVVDVKVTLLDGSYH--EVDS 575
Query: 1123 GGGQIIPTARRVAYSAFLMATPRLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPV 1182
A A L A P L+EP + VE+ P + + V L RRG +
Sbjct: 576 SEMAFKIAASLAFKEAMLKAKPVLLEPIMKVEITTPEEYMGDVIGDLNSRRGQILGMEQR 635
Query: 1183 PGSPLYTIKAFIPAIDSFGFETDLRTHTQGQAFCLSVFHHWQIVPGDPLDKSIVIRPLEP 1242
PG L IKA +P + FG+ TDLR+ TQG+A F H++ VP
Sbjct: 636 PGGGLDVIKAEVPLAEMFGYATDLRSATQGRASFSMEFDHYEEVP--------------- 680
Query: 1243 QPATHLAREFMIKTRRRKGL 1262
+ +A E + K R+RKGL
Sbjct: 681 ---SSVAEEIIAKRRKRKGL 697
Score = 102 bits (257), Expect = 4e-22
Identities = 41/194 (21%), Positives = 77/194 (39%), Gaps = 55/194 (28%)
Query: 1 MLDGLRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVA 59
+ + L K+ + P + EE+GE ++ G GEL+L+ ++ D K ++++V P VA
Sbjct: 422 LSEALNKLAEEDPTFRVETDEETGETIISGMGELHLEIIV-DRLKREFGVEVEVGKPQVA 480
Query: 60 FCETVVETSSL----KCFAETPNKRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLGEF 115
+ ET+ + S + K + P + + + EPLE G + ++I
Sbjct: 481 YRETIRKKSEVEGKHKKQSGGPGQYGHVYIEIEPLEDGSGFEFVDKI------------- 527
Query: 116 FQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTREG 175
V +P E + +V+ GF+ + G
Sbjct: 528 ----------------------------VGGVVPKEY----IPAVEK----GFREALKSG 551
Query: 176 PLCEEPIRNVKFKI 189
PL P+ +VK +
Sbjct: 552 PLAGYPVVDVKVTL 565
Score = 95.8 bits (239), Expect = 5e-20
Identities = 28/81 (34%), Positives = 44/81 (54%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+F+ EV ++R+ DG V+ VDA EGV TE + + A + + L VNK+DRL
Sbjct: 84 PGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKYGVPRILFVNKMDRLGA 143
Query: 283 ELKLPPQDAYYKIKHIIDEIN 303
+ L + ++ +
Sbjct: 144 DFYLVVEQLKERLGANPVPVQ 164
Score = 64.6 bits (158), Expect = 2e-10
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVT 459
IRN+ +V H+ GKTT+ + ++ T + D + EQERG++I ++ T
Sbjct: 10 IRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATT 69
Query: 460 LLLPDVKGKNYLMNIFDTPAS 480
L +Y +N+ DTP
Sbjct: 70 LFWKG----DYRINLIDTPGH 86
>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed.
Length = 731
Score = 302 bits (775), Expect = 3e-88
Identities = 169/585 (28%), Positives = 278/585 (47%), Gaps = 98/585 (16%)
Query: 692 IIKFFEA---KNLVKRFNAEKSLVEMCVKHIPSPAENAETKVSYMYTGPGDSDVARDMKA 748
II ++E K L ++ + +++M VKH+P+P E + ++ ++ G +S+V + M
Sbjct: 225 IIDYYEKGKQKELAEKAPLHEVVLDMVVKHLPNPIEAQKYRIPKIWKGDLNSEVGKAMLN 284
Query: 749 CNPEGRL--MVHSSKKNAETKVSYMYTGPGDSDVARDMKACNPEGRLMVHSSKMYPTEEC 806
C+P G L MV T + P +VA
Sbjct: 285 CDPNGPLVMMV--------TDII---VDPHAGEVA------------------------- 308
Query: 807 TFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAG 866
RV SGTL GQEV ++G +R+ VG IY + EV +PAG
Sbjct: 309 -----TGRVFSGTLRKGQEVYLVGAKKK------NRVQQVG---IYMGPEREEVEEIPAG 354
Query: 867 NWVLIEGIDQPIVKTSTITDLITNEDMYIFRPLKFNTQSVIKIAVEPVNPSELPKMLDGL 926
N + G+ T+ + EDM F LK ++ V+ +A+E NP +LPK+++ L
Sbjct: 355 NIAAVTGLKDARAG-ETVVSV---EDMTPFESLKHISEPVVTVAIEAKNPKDLPKLIEVL 410
Query: 927 RKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAFCETV 985
R++ K P L K+ EE+GEH++ G GEL+L+ + + +++ Y I++ ++P+V + ETV
Sbjct: 411 RQLAKEDPTLVVKINEETGEHLLSGMGELHLEVITYRIKRDYG-IEVVTSEPIVVYRETV 469
Query: 986 VETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVH---IAWNKKRLGEFFQSKYD 1042
S ++PNK N+ + EPLE+ + E I+ + K L E +
Sbjct: 470 RGKSQ-VVEGKSPNKHNRFYISVEPLEEEVIEAIKEGEISEDMDKKEAKILREKLI-EAG 527
Query: 1043 WDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGL--LGSVKDSIVQGFQWGTREGPLCE 1100
D A+ +WA + N+ +D T KG+ L V + I++GF+ +EGPL
Sbjct: 528 MDKDEAKRVWA----IYNGNVFIDMT------KGIQYLNEVMELIIEGFREAMKEGPLAA 577
Query: 1101 EPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMATPRLMEPYLFVEVQAPAD 1160
EP+R VK ++ DA + + +HRG Q+IP R ++A L A P L+EP V++ P D
Sbjct: 578 EPVRGVKVRLHDAKLHEDAIHRGPAQVIPAVRNAIFAAMLTAKPTLLEPIQKVDINVPQD 637
Query: 1161 CVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFETDLRTHTQGQAFCLSVF 1220
+ AV + RRG + D G + I+A P + FGF ++R+ T+G+A + F
Sbjct: 638 YMGAVTREIQGRRGKIL-DMEQEGD-MAIIEAEAPVAEMFGFAGEIRSATEGRALWSTEF 695
Query: 1221 HHWQIVPGDPLDKSIVIRPLEPQPATHLAREFMIKTRRRKGLSED 1265
++ VP L + + + R RKGL +
Sbjct: 696 AGFEPVP------------------DSLQLDIVRQIRERKGLKPE 722
Score = 116 bits (293), Expect = 2e-26
Identities = 60/194 (30%), Positives = 104/194 (53%), Gaps = 19/194 (9%)
Query: 1 MLDGLRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVA 59
+++ LR++ K P L K+ EE+GEH++ G GEL+L+ + + +++ Y I++ ++P+V
Sbjct: 406 LIEVLRQLAKEDPTLVVKINEETGEHLLSGMGELHLEVITYRIKRDYG-IEVVTSEPIVV 464
Query: 60 FCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDIENQIVH---IAWNKKRLGEFF 116
+ ETV S ++PNK N+ + EPLE+ + E I+ + K L E
Sbjct: 465 YRETVRGKSQ-VVEGKSPNKHNRFYISVEPLEEEVIEAIKEGEISEDMDKKEAKILREKL 523
Query: 117 QSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGL--LGSVKDSIVQGFQWGTRE 174
+ D A+ +WA + N+ +D T KG+ L V + I++GF+ +E
Sbjct: 524 I-EAGMDKDEAKRVWA----IYNGNVFIDMT------KGIQYLNEVMELIIEGFREAMKE 572
Query: 175 GPLCEEPIRNVKFK 188
GPL EP+R VK +
Sbjct: 573 GPLAAEPVRGVKVR 586
Score = 98.0 bits (245), Expect = 1e-20
Identities = 40/85 (47%), Positives = 60/85 (70%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+F +VT AMR DG ++ VDA EGVM TE +L+ A++E++ L +NK+DRL+
Sbjct: 95 PGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVKPVLFINKVDRLIK 154
Query: 283 ELKLPPQDAYYKIKHIIDEINGLLR 307
ELKL PQ+ ++ II ++N L++
Sbjct: 155 ELKLTPQEMQQRLLKIIKDVNKLIK 179
Score = 68.0 bits (167), Expect = 2e-11
Identities = 31/87 (35%), Positives = 49/87 (56%), Gaps = 3/87 (3%)
Query: 392 DMMDTPHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGV 451
++M P IRN+ ++ H+ HGKTT+ D L+ G D EQ RG+
Sbjct: 12 ELMKNPEQIRNIGIIAHIDHGKTTLSDNLL--AGAGMISEELAGEQLALDFDEEEQARGI 69
Query: 452 SIKASPVTLLLPDVKGKNYLMNIFDTP 478
+IKA+ V+++ + +GK YL+N+ DTP
Sbjct: 70 TIKAANVSMVH-EYEGKEYLINLIDTP 95
>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 = 230 bits (589), Expect = 1e-63
Identities = 154/569 (27%), Positives = 271/569 (47%), Gaps = 88/569 (15%)
Query: 699 KNLVKRFNAEKSLVEMCVKHIPSPAENAETKVSYMYTGPGDSDVARDMKACNPEGRLMVH 758
K L K+ + +++M ++H+PSP E + ++ ++ G +S+V + M C+P+G L +
Sbjct: 234 KELAKKSPLHQVVLDMVIRHLPSPIEAQKYRIPVIWKGDLNSEVGKAMLNCDPKGPLALM 293
Query: 759 SSKKNAETKVSYMYTGPGDSDVARDMKACNPEGRLMVHSSKMYPTEECTFFQVLARVMSG 818
+K + + G R+ SG
Sbjct: 294 ITKIVVDKHAGEVAVG---------------------------------------RLYSG 314
Query: 819 TLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVLIEGIDQPI 878
T+ G EV ++ + +RI VG +Y +VEV+ +PAGN V + G+
Sbjct: 315 TIRPGMEVYIVD------RKAKARIQQVG---VYMGPERVEVDEIPAGNIVAVIGLKDA- 364
Query: 879 VKTSTITDLITNEDMYIFRPLKFNTQSVIKIAVEPVNPSELPKMLDGLRKVNKSYPLLTT 938
V TI T E++ F +K ++ V+ +A+E N +LPK+++ LR+V K P +
Sbjct: 365 VAGETICT--TVENITPFESIKHISEPVVTVAIEAKNTKDLPKLIEVLRQVAKEDPTVHV 422
Query: 939 KV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAFCETVVETSSLKCFAET 997
++ EE+GEH++ G GEL+L+ ++ +R+ Y +D++ + P+V + ETV TS + ++
Sbjct: 423 EINEETGEHLISGMGELHLEIIVEKIREDYG-LDVETSPPIVVYRETVTGTSPV-VEGKS 480
Query: 998 PNKRNKITMIAEPLEKGLAEDI-ENQIVHIAWNKKRLGEFFQSKYDWDLLAARSIWAFGP 1056
PNK N+ ++ EPLE+ + + E +IV + KK + D A +
Sbjct: 481 PNKHNRFYIVVEPLEESVIQAFKEGKIVDMKMKKKERRRLLI-EAGMDSEEAARVE---- 535
Query: 1057 EVTGPNILVDDTLPSEVDKGL--LGSVKDSIVQGFQWGTREGPLCEEPIRNVKFKILDAV 1114
E N+ ++ T +G+ L K+ I++GF+ R GP+ E VK K++DA
Sbjct: 536 EYYEGNLFINMT------RGIQYLDETKELILEGFREAMRNGPIAREKCMGVKVKLMDAK 589
Query: 1115 IATEPLHRGGGQIIPTARRVAYSAFLMATPRLMEPYLFVEVQAPADCVSAVYTVLAKRRG 1174
+ + +HRG Q+IP R ++A + A P L+EPY V + P D + A + RRG
Sbjct: 590 LHEDAVHRGPAQVIPAVRSGIFAAMMQAKPVLLEPYQKVFINVPQDMMGAATREIQNRRG 649
Query: 1175 HVTQDAPVPGSPLYTIKAFIPAIDSFGFETDLRTHTQGQAFCLSVFHHWQIVPGDPLDKS 1234
+ + G + TI A P + FGF +R T G+ + +++VP +
Sbjct: 650 QIL-EMKQEGD-MVTIIAKAPVAEMFGFAGAIRGATSGRCLWSTEHAGFELVPQN----- 702
Query: 1235 IVIRPLEPQPATHLAREFMIKTRRRKGLS 1263
L +EF+++ R+RKGL
Sbjct: 703 -------------LQQEFVMEVRKRKGLK 718
Score = 89.2 bits (221), Expect = 7e-18
Identities = 40/85 (47%), Positives = 57/85 (67%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+F +VT AMR DG ++ V A EGVM TE +L+ A++E + L +NK+DRL+
Sbjct: 94 PGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKENVKPVLFINKVDRLIN 153
Query: 283 ELKLPPQDAYYKIKHIIDEINGLLR 307
ELKL PQ+ + II E+N L++
Sbjct: 154 ELKLTPQELQERFIKIITEVNKLIK 178
Score = 88.4 bits (219), Expect = 1e-17
Identities = 57/199 (28%), Positives = 105/199 (52%), Gaps = 17/199 (8%)
Query: 1 MLDGLRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVA 59
+++ LR+V K P + ++ EE+GEH++ G GEL+L+ ++ +R+ Y +D++ + P+V
Sbjct: 406 LIEVLRQVAKEDPTVHVEINEETGEHLISGMGELHLEIIVEKIREDYG-LDVETSPPIVV 464
Query: 60 FCETVVETSSLKCFAETPNKRNKITMIAEPLEKGLAEDI-ENQIVHIAWNKKRLGEFFQS 118
+ ETV TS + ++PNK N+ ++ EPLE+ + + E +IV + KK
Sbjct: 465 YRETVTGTSPV-VEGKSPNKHNRFYIVVEPLEESVIQAFKEGKIVDMKMKKKERRRLLI- 522
Query: 119 KYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGL--LGSVKDSIVQGFQWGTREGP 176
+ D A + E N+ ++ T +G+ L K+ I++GF+ R GP
Sbjct: 523 EAGMDSEEAARVE----EYYEGNLFINMT------RGIQYLDETKELILEGFREAMRNGP 572
Query: 177 LCEEPIRNVKFKIREGNLN 195
+ E VK K+ + L+
Sbjct: 573 IAREKCMGVKVKLMDAKLH 591
Score = 58.0 bits (140), Expect = 3e-08
Identities = 32/89 (35%), Positives = 53/89 (59%), Gaps = 3/89 (3%)
Query: 390 LADMMDTPHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQER 449
+ ++M P IRN+ +V H+ HGKTT+ D L+ + A ++ Y D EQER
Sbjct: 9 IKELMWKPKFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQ--LYLDFDEQEQER 66
Query: 450 GVSIKASPVTLLLPDVKGKNYLMNIFDTP 478
G++I A+ V+ ++ + +G YL+N+ DTP
Sbjct: 67 GITINAANVS-MVHEYEGNEYLINLIDTP 94
>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 = 169 bits (431), Expect = 1e-49
Identities = 58/80 (72%), Positives = 65/80 (81%)
Query: 1148 EPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFETDLR 1207
EP VE+ PAD VSAVY VL++RRGHV D P+PG+PLY +KAFIP I+SFGFETDLR
Sbjct: 1 EPIYEVEITCPADAVSAVYEVLSRRRGHVIYDTPIPGTPLYEVKAFIPVIESFGFETDLR 60
Query: 1208 THTQGQAFCLSVFHHWQIVP 1227
HTQGQAFC SVF HWQIVP
Sbjct: 61 VHTQGQAFCQSVFDHWQIVP 80
>gnl|CDD|239757 cd04090, eEF2_II_snRNP, Loc2 eEF2_C_snRNP, cd01514/C terminal
domain:eEF2_C_snRNP: This family includes C-terminal
portion of the spliceosomal human 116kD U5 small nuclear
ribonucleoprotein (snRNP) protein (U5-116 kD) and, its
yeast counterpart Snu114p. This domain is homologous to
domain II of the eukaryotic translational elongation
factor EF-2. Yeast Snu114p is essential for cell
viability and for splicing in vivo. U5-116 kD binds GTP.
Experiments suggest that GTP binding and probably GTP
hydrolysis is important for the function of the U5-116
kD/Snu114p. In complex with GTP, EF-2 promotes the
translocation step of translation. During translocation
the peptidyl-tRNA is moved from the A site to the P
site, the uncharged tRNA from the P site to the E-site
and, the mRNA is shifted one codon relative to the
ribosome.
Length = 94
Score = 166 bits (422), Expect = 3e-48
Identities = 57/94 (60%), Positives = 69/94 (73%)
Query: 793 LMVHSSKMYPTEECTFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIY 852
L+VH +K+Y T + F R+ SGT+ GQ+V+VLGENYSL DEED I T+GRLWI
Sbjct: 1 LVVHVTKLYSTSDGGSFWAFGRIYSGTIKKGQKVKVLGENYSLDDEEDMTICTIGRLWIL 60
Query: 853 EARYKVEVNRVPAGNWVLIEGIDQPIVKTSTITD 886
RYK+EVN PAGNWVLI+GID IVKT+TIT
Sbjct: 61 GGRYKIEVNEAPAGNWVLIKGIDSSIVKTATITS 94
Score = 66.8 bits (164), Expect = 2e-13
Identities = 23/31 (74%), Positives = 26/31 (83%)
Query: 576 YKVEVNRVPAGNWVLIEGIDQPIVKTSTITD 606
YK+EVN PAGNWVLI+GID IVKT+TIT
Sbjct: 64 YKIEVNEAPAGNWVLIKGIDSSIVKTATITS 94
>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 = 162 bits (411), Expect = 4e-45
Identities = 64/119 (53%), Positives = 82/119 (68%), Gaps = 12/119 (10%)
Query: 190 REGNLNSSP-SIYCSN---KSHSWEIVCTRNNNKCLPPGHVNFSDEVTAAMRLCDGVVLF 245
R ++ S+P S+ + KS+ I+ T PGHVNF DEV AA+RLCDGVVL
Sbjct: 50 RGISIKSNPISLVLEDSKGKSYLINIIDT--------PGHVNFMDEVAAALRLCDGVVLV 101
Query: 246 VDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLMLELKLPPQDAYYKIKHIIDEING 304
VD EG+ TERL++HA+QE + + L +NKIDRL+LELKLPP DAYYK++H IDEIN
Sbjct: 102 VDVVEGLTSVTERLIRHAIQEGLPMVLVINKIDRLILELKLPPTDAYYKLRHTIDEINN 160
Score = 119 bits (301), Expect = 2e-30
Identities = 46/79 (58%), Positives = 58/79 (73%), Gaps = 1/79 (1%)
Query: 401 RNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAE-EKNLRYTDTLFTEQERGVSIKASPVT 459
RNV + GHLHHGKT+++D LI QTH K LRYTDT EQERG+SIK++P++
Sbjct: 1 RNVCIAGHLHHGKTSLLDMLIEQTHKRTPSVKLGWKPLRYTDTRKDEQERGISIKSNPIS 60
Query: 460 LLLPDVKGKNYLMNIFDTP 478
L+L D KGK+YL+NI DTP
Sbjct: 61 LVLEDSKGKSYLINIIDTP 79
>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 = 153 bits (388), Expect = 6e-44
Identities = 47/80 (58%), Positives = 59/80 (73%)
Query: 1148 EPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFETDLR 1207
EP VE+Q P D + VY+VL+KRRGHV + P G+PL+ IKA++P I+SFGFETDLR
Sbjct: 1 EPIYLVEIQCPEDALGKVYSVLSKRRGHVLSEEPKEGTPLFEIKAYLPVIESFGFETDLR 60
Query: 1208 THTQGQAFCLSVFHHWQIVP 1227
+ T GQAF VF HW+IVP
Sbjct: 61 SATSGQAFPQLVFSHWEIVP 80
>gnl|CDD|130426 TIGR01359, UMP_CMP_kin_fam, UMP-CMP kinase family. This subfamily
of the adenylate kinase superfamily contains examples of
UMP-CMP kinase, as well as others proteins with unknown
specificity, some currently designated adenylate kinase.
All known members are eukaryotic.
Length = 183
Score = 151 bits (384), Expect = 6e-42
Identities = 56/96 (58%), Positives = 70/96 (72%), Gaps = 1/96 (1%)
Query: 615 SNKFLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPEDVCVRRCLKRGAEGSGRADDN 674
S KFLIDGFPRN+ NL+ W K M +KV +VLFFDCPE+V ++R LKRG + SGR DDN
Sbjct: 76 SKKFLIDGFPRNEENLEAWEKLMDNKVNFKFVLFFDCPEEVMIKRLLKRG-QSSGRVDDN 134
Query: 675 EESLKKRISVYNTETMPIIKFFEAKNLVKRFNAEKS 710
ES+KKR YN +T+P+I+ +E K VK NAE S
Sbjct: 135 IESIKKRFRTYNEQTLPVIEHYENKGKVKEINAEGS 170
>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 = 136 bits (345), Expect = 7e-38
Identities = 45/93 (48%), Positives = 59/93 (63%), Gaps = 1/93 (1%)
Query: 793 LMVHSSKMYPTEECTFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIY 852
L+++ +KM PT + F RV SGT+ GQ+VRVLG NYS DEED T+ RL++
Sbjct: 1 LVMYVTKMVPTPDKGGFIAFGRVFSGTIRKGQKVRVLGPNYSPEDEEDLSKKTIQRLYLM 60
Query: 853 EARYKVEVNRVPAGNWVLIEGIDQ-PIVKTSTI 884
RY+ V+ VPAGN VLI G+DQ T+TI
Sbjct: 61 MGRYREPVDEVPAGNIVLIVGLDQLKSGTTATI 93
Score = 51.0 bits (123), Expect = 8e-08
Identities = 23/78 (29%), Positives = 32/78 (41%), Gaps = 20/78 (25%)
Query: 528 FVLEPVYKLVAQVVGDVDSSLPAVLDQLGIHMNKEESKINIRPLLRLVYKVEVNRVPAGN 587
VL P Y D + + +L + M + Y+ V+ VPAGN
Sbjct: 35 RVLGPNY-----SPEDEEDLSKKTIQRLYLMMGR--------------YREPVDEVPAGN 75
Query: 588 WVLIEGIDQ-PIVKTSTI 604
VLI G+DQ T+TI
Sbjct: 76 IVLIVGLDQLKSGTTATI 93
>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 = 121 bits (305), Expect = 6e-31
Identities = 43/97 (44%), Positives = 71/97 (73%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+FS EVTAA+RL DG ++ VDA EGV + TE +L+ A++E++ L +NKIDRL+L
Sbjct: 80 PGHVDFSSEVTAALRLTDGALVVVDAVEGVCVQTETVLRQALEERVKPVLVINKIDRLIL 139
Query: 283 ELKLPPQDAYYKIKHIIDEINGLLRYLLIDDDREDGD 319
ELKL P++AY ++ I++++N ++ ++ +++
Sbjct: 140 ELKLSPEEAYQRLLRIVEDVNAIIETYAPEEFKQEKW 176
Score = 70.3 bits (173), Expect = 2e-13
Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 6/82 (7%)
Query: 401 RNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVTL 460
RN+ ++ H+ HGKTT+ D L+ G RY DT EQERG++IK+S ++L
Sbjct: 1 RNICIIAHVDHGKTTLSDSLL--ASAGIISEKLAGKARYLDTREDEQERGITIKSSAISL 58
Query: 461 L----LPDVKGKNYLMNIFDTP 478
+ G +YL+N+ D+P
Sbjct: 59 YFEYEEEKMDGNDYLINLIDSP 80
>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 = 109 bits (274), Expect = 6e-28
Identities = 33/117 (28%), Positives = 46/117 (39%), Gaps = 6/117 (5%)
Query: 1026 IAWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSI 1085
I + K + + D A+ I P G N VD+T K ++
Sbjct: 9 IGKDVKERAYKLKKQSGGDGQYAKVILRIEPLPGGGNEFVDET----KGGQYPNEFKPAV 64
Query: 1086 VQGFQWGTREGPLCEEPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMA 1142
+GFQ +EGPL EP+R+VK + D + IP ARR A L A
Sbjct: 65 EKGFQEAMKEGPLAGEPVRDVKVTLTDGSYH--EVDSSEAAFIPAARRAFKEALLKA 119
Score = 79.2 bits (196), Expect = 2e-17
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 4/85 (4%)
Query: 105 IAWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSI 164
I + K + + D A+ I P G N VD+T K ++
Sbjct: 9 IGKDVKERAYKLKKQSGGDGQYAKVILRIEPLPGGGNEFVDET----KGGQYPNEFKPAV 64
Query: 165 VQGFQWGTREGPLCEEPIRNVKFKI 189
+GFQ +EGPL EP+R+VK +
Sbjct: 65 EKGFQEAMKEGPLAGEPVRDVKVTL 89
>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 = 108 bits (272), Expect = 1e-27
Identities = 31/118 (26%), Positives = 42/118 (35%), Gaps = 5/118 (4%)
Query: 1026 IAWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSI 1085
I K + + D AR I P G DDT+ V + ++
Sbjct: 8 ITKPVKEAEGKHKKQSGGDGQYARVILEVEPLERGSGFEFDDTIVGGV---IPKEYIPAV 64
Query: 1086 VQGFQWGTREGPLCEEPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMAT 1143
+GF+ EGPL P+ +VK +LD E P ARR A L A
Sbjct: 65 EKGFREALEEGPLAGYPVVDVKVTLLDGSYH-EVDSSEMA-FKPAARRAFKEALLKAG 120
Score = 83.7 bits (208), Expect = 6e-19
Identities = 22/90 (24%), Positives = 35/90 (38%), Gaps = 3/90 (3%)
Query: 105 IAWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSI 164
I K + + D AR I P G DDT+ V + ++
Sbjct: 8 ITKPVKEAEGKHKKQSGGDGQYARVILEVEPLERGSGFEFDDTIVGGV---IPKEYIPAV 64
Query: 165 VQGFQWGTREGPLCEEPIRNVKFKIREGNL 194
+GF+ EGPL P+ +VK + +G+
Sbjct: 65 EKGFREALEEGPLAGYPVVDVKVTLLDGSY 94
>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 = 106 bits (266), Expect = 2e-27
Identities = 33/80 (41%), Positives = 46/80 (57%), Gaps = 1/80 (1%)
Query: 1148 EPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFETDLR 1207
EP + VE+ P + + AV L+KRRG + P G+ IKA +P + FGF TDLR
Sbjct: 1 EPIMKVEITVPEEYLGAVIGDLSKRRGEILGMEPR-GTGRVVIKAELPLAEMFGFATDLR 59
Query: 1208 THTQGQAFCLSVFHHWQIVP 1227
+ TQG+A F H++ VP
Sbjct: 60 SLTQGRASFSMEFSHYEPVP 79
>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield adenosine
diphosphates (ADP). This enzyme is required for the
biosynthesis of ADP and is essential for homeostasis of
adenosine phosphates.
Length = 194
Score = 108 bits (271), Expect = 1e-26
Identities = 32/134 (23%), Positives = 60/134 (44%), Gaps = 21/134 (15%)
Query: 598 IVKTSTITDLITNE---DITSNKFLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPED 654
+V + L+ F++DGFPR + + ++ + + ++ V+ D P++
Sbjct: 57 LVPDEIVIKLLKERLKKPDCKKGFILDGFPRTVDQAEALDELLDEGIKPDKVIELDVPDE 116
Query: 655 VCVRRCLKR------------------GAEGSGRADDNEESLKKRISVYNTETMPIIKFF 696
V + R L R G S R+DDNEE++KKR+ VY +T P+I ++
Sbjct: 117 VLIERILGRRICPVSGRVYHLGKDDVTGEPLSQRSDDNEETIKKRLEVYKEQTAPLIDYY 176
Query: 697 EAKNLVKRFNAEKS 710
+ K + +
Sbjct: 177 KKKGKLVEIDGSGD 190
>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 = 101 bits (253), Expect = 2e-25
Identities = 32/89 (35%), Positives = 48/89 (53%), Gaps = 1/89 (1%)
Query: 1145 RLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFET 1204
L+EP + VE+ P + + V L +RRG + P G I+A +P + FGF T
Sbjct: 1 VLLEPIMKVEITVPEEYLGDVIGDLNQRRGEILDMEPDGGG-RVVIEAEVPLAELFGFST 59
Query: 1205 DLRTHTQGQAFCLSVFHHWQIVPGDPLDK 1233
+LR+ TQG+ F ++ VPGD LD+
Sbjct: 60 ELRSLTQGRGSFSMEFSGYEPVPGDILDR 88
>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed.
Length = 668
Score = 113 bits (285), Expect = 2e-25
Identities = 110/445 (24%), Positives = 191/445 (42%), Gaps = 103/445 (23%)
Query: 811 VLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVL 870
L RV SGTL G + G + R+ GRL+ + + EV+ AG+ V
Sbjct: 306 SLVRVYSGTLKKGDTLYNSG------TGKKERV---GRLYRMHGKQREEVDEAVAGDIVA 356
Query: 871 IEGIDQPIVKT-STITDLITNEDMYIFRPLKFNTQSVIKIAVEPVNPSELPKMLDGLRKV 929
+ + T T+ D D + P++F + VI +A+EP + + K+ + L K+
Sbjct: 357 VAKLKD--AATGDTLCD---KGDPILLEPMEF-PEPVISLAIEPKDKGDEEKLSEALGKL 410
Query: 930 NKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAFCETVVET 988
+ P L + EE+G+ ++ G GEL+LD + L++ Y ++++ P V + ET+ +
Sbjct: 411 AEEDPTLRVERDEETGQTILSGMGELHLDVALERLKREYG-VEVETGPPQVPYRETIRKK 469
Query: 989 SSLKCFAETPNKRN--------KITMIAEPLEKGLAEDIENQIVHIAWNKKRLGEFFQSK 1040
+ +K+ + + EPL +G E E
Sbjct: 470 AE----GHGRHKKQSGGHGQFGDVWLEVEPLPRG--EGFE-------------------- 503
Query: 1041 YDWDLLAARSIWAFGPEVTGPNILVDDTLPSE----VDKGLLGSVKDSIVQGFQWGTREG 1096
F +V G + P + V+KG V++++ +G
Sbjct: 504 -------------FVDKVVGGAV------PRQYIPAVEKG----VREALE--------KG 532
Query: 1097 PLCEEPIRNVKFKILD----AVIATEPLHRGGGQIIPTARRVAYS-AFLMATPRLMEPYL 1151
L P+ +VK + D +V ++E + A R+A+ A A P L+EP +
Sbjct: 533 VLAGYPVVDVKVTLTDGSYHSVDSSEMAFK-------IAARLAFREALPKAKPVLLEPIM 585
Query: 1152 FVEVQAPADCVSAVYTVLAKRRGHVT-QDAPVPGSPLYTIKAFIPAIDSFGFETDLRTHT 1210
VEV P + V V L+ RRG + ++ G ++A +P + FG+ TDLR+ T
Sbjct: 586 KVEVSVPEEFVGDVIGDLSSRRGRILGMESRGGGD---VVRAEVPLAEMFGYATDLRSLT 642
Query: 1211 QGQAFCLSVFHHWQIVPGDPLDKSI 1235
QG+ F H++ VPG+ +K I
Sbjct: 643 QGRGSFSMEFSHYEEVPGNVAEKVI 667
Score = 57.4 bits (140), Expect = 4e-08
Identities = 24/57 (42%), Positives = 35/57 (61%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGHV+F+ EV A+R+ DG V+ V A GV TE + + A + + + VNK+DR
Sbjct: 68 PGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIFVNKMDR 124
Score = 32.0 bits (74), Expect = 2.8
Identities = 15/45 (33%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 20 EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAFCETV 64
EE+G+ ++ G GEL+LD + L++ Y ++++ P V + ET+
Sbjct: 423 EETGQTILSGMGELHLDVALERLKREYG-VEVETGPPQVPYRETI 466
>gnl|CDD|201213 pfam00406, ADK, Adenylate kinase.
Length = 186
Score = 92.4 bits (230), Expect = 3e-21
Identities = 36/133 (27%), Positives = 59/133 (44%), Gaps = 29/133 (21%)
Query: 598 IVKTSTITDLITNE---DITSNKFLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPED 654
+V + L+ + N FL+DGFPR + + + ++L YV+ FD P++
Sbjct: 54 LVPDEVVIGLVKERLEQNDCKNGFLLDGFPRTVPQAEALEEMLEYGIKLDYVIEFDVPDE 113
Query: 655 VCVRRCLKR--------------------------GAEGSGRADDNEESLKKRISVYNTE 688
V V R R G S R+DDNEE++KKR+ Y+ +
Sbjct: 114 VLVERLTGRRIHPNSGRSYHLEFNPPKVPGKDDVTGEPLSQRSDDNEETVKKRLETYHKQ 173
Query: 689 TMPIIKFFEAKNL 701
T P+I +++ K
Sbjct: 174 TEPVIDYYKKKGK 186
>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 96.6 bits (241), Expect = 3e-20
Identities = 116/460 (25%), Positives = 192/460 (41%), Gaps = 87/460 (18%)
Query: 786 ACNPEGRLMVHSSKMYPTEECTFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILT 845
+PE L+ K+ L RV SGTL AG L + +
Sbjct: 299 DPDPEKPLLALVFKVQYDPYAGKLTYL-RVYSGTLRAGS---------QLYNGTGGKREK 348
Query: 846 VGRLWIYEARYKVEVNRVPAGNWVLIEGIDQPIVKTSTITDLITNEDMYIFRPLKFNTQS 905
VGRL+ + + EV+R AG+ V + G+ + T+ D + + + + L F +
Sbjct: 349 VGRLFRLQGNKREEVDRAKAGDIVAVAGLKELETG-DTLHD--SADPVLLE-LLTF-PEP 403
Query: 906 VIKIAVEPVNPSELPKMLDGLRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLR 964
V+ +AVEP + K+ + L K+ P L + EE+G+ ++ G GEL+L+ + LR
Sbjct: 404 VVSLAVEPERRGDEQKLAEALEKLVWEDPSLRVEEDEETGQTILSGMGELHLEVALERLR 463
Query: 965 KMYSEIDIKVADPVVAFCETVVETSS-----LKCFAETPNKRNKITMIAEPLEKGLAEDI 1019
+ + ++++ P VA+ ET+ + + K F + ++ + EPLE+G
Sbjct: 464 REF-KLEVNTGKPQVAYRETIRKMAEGVYRHKKQFGGK-GQFGEVHLRVEPLERG----- 516
Query: 1020 ENQIVHIAWNKKRLGEFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLG 1079
G F SK V G I P E L+
Sbjct: 517 -------------AGFIFVSK-----------------VVGGAI------PEE----LIP 536
Query: 1080 SVKDSIVQGFQWGTREGPLCEEPIRNVKFKILDA----VIATEPLHRGGGQIIPTARRVA 1135
+V+ I + GPL P+ +++ +LD V ++E A R A
Sbjct: 537 AVEKGIREALA----SGPLAGYPVTDLRVTVLDGKYHPVDSSE-------SAFKAAARKA 585
Query: 1136 -YSAFLMATPRLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFI 1194
AF A P L+EP + +E+ P + V V L++RRG + P + +KA
Sbjct: 586 FLEAFRKANPVLLEPIMELEITVPTEHVGDVLGDLSQRRGRIEGTEPRGDGEVL-VKAEA 644
Query: 1195 PAIDSFGFETDLRTHTQGQA-FCLSVFHHWQIVPGDPLDK 1233
P + FG+ T LR+ T+G+ F + F H+ VP K
Sbjct: 645 PLAELFGYATRLRSMTKGRGSFTME-FSHFDPVPPAVQKK 683
Score = 58.4 bits (142), Expect = 2e-08
Identities = 21/57 (36%), Positives = 35/57 (61%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH++F+ EV ++R+ DG V+ DA GV TE + + A + + + +NK+DR
Sbjct: 81 PGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIPRLIFINKMDR 137
Score = 47.3 bits (113), Expect = 5e-05
Identities = 27/108 (25%), Positives = 48/108 (44%), Gaps = 18/108 (16%)
Query: 393 MMDTPHLIRNVALVGHLHHGKTTMIDCLI---RQTHPGYRQPAE-EKNLRYTDTLFTEQE 448
IRN+ ++ H+ GKTT+ + ++ + H + E E TD + EQE
Sbjct: 1 AEMPLMQIRNIGILAHIDAGKTTLTERILFYTGKIH----KMGEVEDGTTVTDWMPQEQE 56
Query: 449 RGVSIKASPVTLLLPDVKGKNYLMNIFDTPASP-----VTLLLPDVKG 491
RG++I+++ + N+ +N+ DTP V L + G
Sbjct: 57 RGITIESAATSC-----DWDNHRINLIDTPGHIDFTGEVERSLRVLDG 99
Score = 33.4 bits (77), Expect = 0.99
Identities = 15/45 (33%), Positives = 30/45 (66%), Gaps = 1/45 (2%)
Query: 20 EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAFCETV 64
EE+G+ ++ G GEL+L+ + LR+ + ++++ P VA+ ET+
Sbjct: 440 EETGQTILSGMGELHLEVALERLRREF-KLEVNTGKPQVAYRETI 483
>gnl|CDD|130427 TIGR01360, aden_kin_iso1, adenylate kinase, isozyme 1 subfamily.
Members of this family are adenylate kinase, EC 2.7.4.3.
This clade is found only in eukaryotes and includes
human adenylate kinase isozyme 1 (myokinase). Within the
adenylate kinase superfamily, this set appears
specifically closely related to a subfamily of
eukaryotic UMP-CMP kinases (TIGR01359), rather than to
the large clade of bacterial, archaeal, and eukaryotic
adenylate kinase family members in TIGR01351.
Length = 188
Score = 89.1 bits (221), Expect = 4e-20
Identities = 41/97 (42%), Positives = 59/97 (60%), Gaps = 4/97 (4%)
Query: 614 TSNKFLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPEDVCVRRCLKRGAEGSGRADD 673
TS FLIDG+PR + + + + VL+FDC ED V+R LKR E SGR DD
Sbjct: 81 TSKGFLIDGYPREVKQGEEFERRIGPPT---LVLYFDCSEDTMVKRLLKRA-ETSGRVDD 136
Query: 674 NEESLKKRISVYNTETMPIIKFFEAKNLVKRFNAEKS 710
NE+++KKR+ Y T P+I ++E K +++ NAE +
Sbjct: 137 NEKTIKKRLETYYKATEPVIAYYETKGKLRKINAEGT 173
>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 = 95.3 bits (237), Expect = 9e-20
Identities = 109/432 (25%), Positives = 177/432 (40%), Gaps = 90/432 (20%)
Query: 807 TFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAG 866
TF RV SG L +G V + ++ VGRL A + E+ V AG
Sbjct: 325 TFV----RVYSGVLKSGSYV---------KNSRKNKKERVGRLVKMHANNREEIKEVRAG 371
Query: 867 NWVLIEGIDQPIVKTSTITDLITNEDM-YIFRPLKFNTQSVIKIAVEPVNPSELPKMLDG 925
+ G+ K +T D + + + I ++F + VI +AVEP ++ KM
Sbjct: 372 DICAAIGL-----KDTTTGDTLCDPKIDVILERMEF-PEPVISLAVEPKTKADQEKMGIA 425
Query: 926 LRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAFCET 984
L K+ + P T E+G+ ++ G GEL+LD ++ +++ + +++ V P VA+ ET
Sbjct: 426 LGKLAEEDPTFRTFTDPETGQTIIAGMGELHLDIIVDRMKREF-KVEANVGAPQVAYRET 484
Query: 985 VVETSSLK-CFAETPNKRNKITMIA---EPLEKGLAEDIENQIVHIAWNKKRLGEFFQSK 1040
+ ++ A+ R + + EPLE E N+I G +
Sbjct: 485 IRSKVEVEGKHAKQSGGRGQYGHVKIRFEPLEPKGYE-FVNEIK---------GGVIPRE 534
Query: 1041 YDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTREGPLCE 1100
Y +P+ VDK G Q GPL
Sbjct: 535 Y---------------------------IPA-VDK------------GLQEAMESGPLAG 554
Query: 1101 EPIRNVKFKILDA----VIATEPLHRGGGQIIPTARRVAYSAFLMATPRLMEPYLFVEVQ 1156
P+ ++K + D V ++E + + A + A A P L+EP + VEV+
Sbjct: 555 YPVVDIKATLFDGSYHDVDSSEMAFKLAASL---AFKEAGKK---ANPVLLEPIMKVEVE 608
Query: 1157 APADCVSAVYTVLAKRRGHVT-QDAPVPGSPLYTIKAFIPAIDSFGFETDLRTHTQGQAF 1215
P + + V L+ RRG + +A IKA +P + FG+ TDLR+ TQG+
Sbjct: 609 VPEEYMGDVMGDLSSRRGIIEGMEARGNVQ---KIKAEVPLSEMFGYATDLRSFTQGRGT 665
Query: 1216 CLSVFHHWQIVP 1227
F H+ VP
Sbjct: 666 YSMEFLHYGEVP 677
Score = 47.1 bits (112), Expect = 6e-05
Identities = 26/84 (30%), Positives = 43/84 (51%), Gaps = 8/84 (9%)
Query: 196 SSPSIYCSNKSHSWEIVCTRNNNKCLPPGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLN 255
+S + K H I+ T PGHV+F+ EV ++R+ DG V +DA GV
Sbjct: 64 TSAATTVFWKGHRINIIDT--------PGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQ 115
Query: 256 TERLLKHAVQEKMAITLCVNKIDR 279
+E + + A + ++ VNK+D+
Sbjct: 116 SETVWRQANRYEVPRIAFVNKMDK 139
Score = 36.7 bits (85), Expect = 0.080
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 23/88 (26%)
Query: 400 IRNVALVGHLHHGKTTMIDCL---------IRQTHPGYRQPAEEKNLRYTDTLFTEQERG 450
RN+ + H+ GKTT + + I + H G D + E+ERG
Sbjct: 10 FRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAAT---------MDWMEQEKERG 60
Query: 451 VSIKASPVTLLLPDVKGKNYLMNIFDTP 478
++I ++ T V K + +NI DTP
Sbjct: 61 ITITSAATT-----VFWKGHRINIIDTP 83
Score = 35.9 bits (83), Expect = 0.14
Identities = 28/108 (25%), Positives = 52/108 (48%), Gaps = 7/108 (6%)
Query: 1 MLDGLRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVA 59
M L K+ + P T E+G+ ++ G GEL+LD ++ +++ + +++ V P VA
Sbjct: 422 MGIALGKLAEEDPTFRTFTDPETGQTIIAGMGELHLDIIVDRMKREF-KVEANVGAPQVA 480
Query: 60 FCETVVETSSLK-CFAETPNKRNKITMIA---EPLEKGLAEDIENQIV 103
+ ET+ ++ A+ R + + EPLE E N+I
Sbjct: 481 YRETIRSKVEVEGKHAKQSGGRGQYGHVKIRFEPLEPKGYE-FVNEIK 527
>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 = 86.6 bits (215), Expect = 3e-19
Identities = 27/83 (32%), Positives = 40/83 (48%), Gaps = 6/83 (7%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGH +FS E + DG +L VDA EGV T L A+ + I + VNKIDR
Sbjct: 70 PGHEDFSKETVRGLAQADGALLVVDANEGVEPQTREHLNIALAGGLPIIVAVNKIDR--- 126
Query: 283 ELKLPPQDAYYKIKHIIDEINGL 305
+ +D ++ I + + +
Sbjct: 127 ---VGEEDFDEVLREIKELLKLI 146
Score = 73.1 bits (180), Expect = 1e-14
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVTLL 461
NV ++GH+ HGKTT+ L+ QT + + DTL E+ERG++IK V
Sbjct: 1 NVGVIGHVDHGKTTLTGSLLYQTGA--IDRRGTRKETFLDTLKEERERGITIKTGVVEFE 58
Query: 462 LPDVKGKNYLMNIFDTP 478
P +N DTP
Sbjct: 59 WPK-----RRINFIDTP 70
>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 = 86.4 bits (215), Expect = 4e-19
Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 10/84 (11%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+F+ E+ DG +L VDA EGVM T L A + I + +NKIDR
Sbjct: 74 PGHVDFTKEMIRGASQADGAILVVDAVEGVMPQTREHLLLAKTLGVPIIVFINKIDR--- 130
Query: 283 ELKLPPQDAYYKIKHIIDEINGLL 306
DA +++ +++EI+ L
Sbjct: 131 -----VDDA--ELEEVVEEISREL 147
Score = 78.3 bits (194), Expect = 2e-16
Identities = 31/79 (39%), Positives = 44/79 (55%), Gaps = 7/79 (8%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVT 459
RN+ ++GH+ HGKTT+ D L+ T G K R D L E+ERG++IK + V+
Sbjct: 3 HRNIGIIGHVDHGKTTLTDALLYVT--GAISKESAKGARVLDKLKEERERGITIKIAAVS 60
Query: 460 LLLPDVKGKNYLMNIFDTP 478
+ K L+NI DTP
Sbjct: 61 -----FETKKRLINIIDTP 74
>gnl|CDD|234711 PRK00279, adk, adenylate kinase; Reviewed.
Length = 215
Score = 86.0 bits (214), Expect = 8e-19
Identities = 35/135 (25%), Positives = 62/135 (45%), Gaps = 28/135 (20%)
Query: 603 TITDLITNEDITSNKFLIDGFPRNQNNLDGWNKEMADK-VELLYVLFFDCPEDVCVRRCL 661
+ + + D N FL+DGFPR + ++ + + ++L V+ D P++ V R
Sbjct: 67 LVKERLAQPD-CKNGFLLDGFPRTIPQAEALDEMLKELGIKLDAVIEIDVPDEELVERLS 125
Query: 662 KR--------------------------GAEGSGRADDNEESLKKRISVYNTETMPIIKF 695
R G E RADDNEE+++KR+ VY+ +T P+I +
Sbjct: 126 GRRICPACGRTYHVKFNPPKVEGKCDVCGEELIQRADDNEETVRKRLEVYHKQTAPLIDY 185
Query: 696 FEAKNLVKRFNAEKS 710
++ K +K+ + S
Sbjct: 186 YKKKGKLKKIDGTGS 200
>gnl|CDD|237185 PRK12739, PRK12739, elongation factor G; Reviewed.
Length = 691
Score = 89.1 bits (222), Expect = 7e-18
Identities = 116/442 (26%), Positives = 190/442 (42%), Gaps = 109/442 (24%)
Query: 807 TFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAG 866
TFF RV SG L +G V + + RI GRL A + E+ V AG
Sbjct: 324 TFF----RVYSGVLESGSYV------LNTTKGKKERI---GRLLQMHANKREEIKEVYAG 370
Query: 867 NWVLIEGIDQPIVKTSTITDLITNED-MYIFRPLKFNTQSVIKIAVEPVNPSELPKMLDG 925
+ G+ K +T D + +E I ++F + VI +AVEP ++ KM
Sbjct: 371 DIAAAVGL-----KDTTTGDTLCDEKAPIILESMEF-PEPVISLAVEPKTKADQDKMGLA 424
Query: 926 LRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSE--IDIKVADPVVAFC 982
L+K+ + P + EE+G+ ++ G GEL+LD ++ D +M E ++ V P VA+
Sbjct: 425 LQKLAEEDPTFRVETDEETGQTIISGMGELHLD-IIVD--RMKREFKVEANVGAPQVAYR 481
Query: 983 ETVVETSSLKC-FAETPNKRNK---ITMIAEPLEKGLAEDIENQIVHIAWNKKRLGEFFQ 1038
ET+ ++ + + + R + + + EP E+G + N+IV
Sbjct: 482 ETITKSVEAEGKYKKQSGGRGQYGDVWIEFEPNEEGKGFEFVNKIV-------------- 527
Query: 1039 SKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSE----VDKGLLGSVKDSIVQGFQWGTR 1094
G I P E V+KGL ++K+ ++ G+
Sbjct: 528 ---------------------GGVI------PKEYIPAVEKGLEEAMKNGVLAGY----- 555
Query: 1095 EGPLCEEPIRNVKFKILD----AVIATEPLHRGGGQIIPTARRVAYSAFL-----MATPR 1145
P+ +VK + D V ++E A ++A S L A P
Sbjct: 556 -------PMVDVKATLYDGSYHDVDSSE-----------LAFKIAASMALKEAAKKAGPV 597
Query: 1146 LMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFETD 1205
++EP + VEV P + + V L +RRG + G+ + +KAF+P + FG+ TD
Sbjct: 598 ILEPIMKVEVVTPEEYMGDVIGDLNRRRGQIQGMEARGGAQI--VKAFVPLSEMFGYATD 655
Query: 1206 LRTHTQGQAFCLSVFHHWQIVP 1227
LR+ TQG+A F H++ VP
Sbjct: 656 LRSATQGRATFSMEFDHYEEVP 677
Score = 40.6 bits (96), Expect = 0.006
Identities = 22/57 (38%), Positives = 34/57 (59%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGHV+F+ EV ++R+ DG V DA GV +E + + A + + + VNK+DR
Sbjct: 81 PGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVPRIVFVNKMDR 137
Score = 35.6 bits (83), Expect = 0.18
Identities = 30/110 (27%), Positives = 57/110 (51%), Gaps = 10/110 (9%)
Query: 1 MLDGLRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSE--IDIKVADPV 57
M L+K+ + P + EE+G+ ++ G GEL+LD ++ D +M E ++ V P
Sbjct: 421 MGLALQKLAEEDPTFRVETDEETGQTIISGMGELHLD-IIVD--RMKREFKVEANVGAPQ 477
Query: 58 VAFCETVVETSSLKC-FAETPNKRNK---ITMIAEPLEKGLAEDIENQIV 103
VA+ ET+ ++ + + + R + + + EP E+G + N+IV
Sbjct: 478 VAYRETITKSVEAEGKYKKQSGGRGQYGDVWIEFEPNEEGKGFEFVNKIV 527
Score = 33.3 bits (77), Expect = 1.2
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 23/90 (25%)
Query: 398 HLIRNVALVGHLHHGKTTMIDCL---------IRQTHPGYRQPAEEKNLRYTDTLFTEQE 448
RN+ ++ H+ GKTT + + I + H G D + EQE
Sbjct: 6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAAT---------MDWMEQEQE 56
Query: 449 RGVSIKASPVTLLLPDVKGKNYLMNIFDTP 478
RG++I ++ T K + +NI DTP
Sbjct: 57 RGITITSAATT-----CFWKGHRINIIDTP 81
>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 = 77.2 bits (191), Expect = 4e-17
Identities = 30/89 (33%), Positives = 44/89 (49%), Gaps = 6/89 (6%)
Query: 1146 LMEPYLFVEVQAPADCVSAVYTVLAKRRGHV--TQDAPVPGSPLYTIKAFIPAIDSFGFE 1203
L+EP + VEV P + + V L RRG + + IKA +P + FG+
Sbjct: 1 LLEPIMKVEVTVPEEYMGDVIGDLNSRRGKIEGMEQ----RGGAQVIKAKVPLSEMFGYA 56
Query: 1204 TDLRTHTQGQAFCLSVFHHWQIVPGDPLD 1232
TDLR+ TQG+A F H++ VP +
Sbjct: 57 TDLRSATQGRATWSMEFSHYEEVPKSIAE 85
>gnl|CDD|215125 PLN02200, PLN02200, adenylate kinase family protein.
Length = 234
Score = 80.3 bits (198), Expect = 1e-16
Identities = 46/112 (41%), Positives = 62/112 (55%), Gaps = 7/112 (6%)
Query: 598 IVKTSTITDLITNEDITS--NKFLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPEDV 655
IV + LI E +S NKFLIDGFPR + N + E E VLFFDCPE+
Sbjct: 101 IVPSEVTVKLIQKEMESSDNNKFLIDGFPRTEENRIAF--ERIIGAEPNVVLFFDCPEEE 158
Query: 656 CVRRCLKRGAEGSGRADDNEESLKKRISVYNTETMPIIKFFEAKNLVKRFNA 707
V+R L R GR DDN +++KKR+ V+N +P+I ++ K + NA
Sbjct: 159 MVKRVLNRN---QGRVDDNIDTIKKRLKVFNALNLPVIDYYSKKGKLYTINA 207
>gnl|CDD|233369 TIGR01351, adk, adenylate kinase. Adenylate kinase (EC 2.7.4.3)
converts ATP + AMP to ADP + ADP, that is, uses ATP as a
phosphate donor for AMP. Most members of this family are
known or believed to be adenylate kinase. However, some
members accept other nucleotide triphosphates as donors,
may be unable to use ATP, and may fail to complement
adenylate kinase mutants. An example of a
nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10)
is a GTP:AMP phosphotransferase. This family is
designated subfamily rather than equivalog for this
reason [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 210
Score = 77.3 bits (191), Expect = 1e-15
Identities = 30/139 (21%), Positives = 58/139 (41%), Gaps = 28/139 (20%)
Query: 601 TSTITDLITNEDITSNKFLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPEDVCVRRC 660
+ + +T N F++DGFPR + + + + +K++ V+ D P++ V R
Sbjct: 64 NQLVKERLTQNQDNENGFILDGFPRTLSQAEALDALLKEKID--AVIELDVPDEELVERL 121
Query: 661 LKR--------------------------GAEGSGRADDNEESLKKRISVYNTETMPIIK 694
R G R DD EE +KKR+ VY +T P+I
Sbjct: 122 SGRRICPSCGRVYHLKFNPPKVPGCDDCTGELLIQREDDTEEVVKKRLEVYKEQTEPLID 181
Query: 695 FFEAKNLVKRFNAEKSLVE 713
+++ + ++ + + + E
Sbjct: 182 YYKKRGILVQIDGNGPIDE 200
>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 = 74.9 bits (185), Expect = 3e-15
Identities = 28/78 (35%), Positives = 44/78 (56%), Gaps = 3/78 (3%)
Query: 401 RNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVTL 460
RN +++ H+ HGK+T+ D L+ T E + D++ E+ERG++IKA V L
Sbjct: 1 RNFSIIAHIDHGKSTLADRLLELTGT---VSEREMKEQVLDSMDLERERGITIKAQAVRL 57
Query: 461 LLPDVKGKNYLMNIFDTP 478
G+ YL+N+ DTP
Sbjct: 58 FYKAKDGEEYLLNLIDTP 75
Score = 52.2 bits (126), Expect = 2e-07
Identities = 23/56 (41%), Positives = 34/56 (60%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKID 278
PGHV+FS EV+ ++ C+G +L VDA +GV T A++ + I +NKID
Sbjct: 75 PGHVDFSYEVSRSLAACEGALLVVDATQGVEAQTLANFYLALENNLEIIPVINKID 130
>gnl|CDD|172994 PRK14528, PRK14528, adenylate kinase; Provisional.
Length = 186
Score = 73.5 bits (180), Expect = 1e-14
Identities = 38/112 (33%), Positives = 61/112 (54%), Gaps = 3/112 (2%)
Query: 604 ITDLITNEDITSNKFLIDGFPRNQNNLDGWNKEMADK-VELLYVLFFDCPEDVCVRRCLK 662
I D I D N FL+DGFPR D + + ++ + + + P+ ++R L
Sbjct: 69 IKDRIREAD-CKNGFLLDGFPRTVEQADALDALLKNEGKSIDKAINLEVPDGELLKRLLG 127
Query: 663 RGAEGSGRADDNEESLKKRISVYNTETMPIIKFFEAKNLVKRFNAEKSLVEM 714
R AE GRADDNE ++K R+ YN +T+P++ F+ A+ + + N SL E+
Sbjct: 128 R-AEIEGRADDNEATIKNRLDNYNKKTLPLLDFYAAQKKLSQVNGVGSLEEV 178
>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 = 70.0 bits (172), Expect = 3e-14
Identities = 27/168 (16%), Positives = 48/168 (28%), Gaps = 59/168 (35%)
Query: 981 FCETVVETSSLKCFAETPN------KRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLG 1034
+ ET+ S++ E + ++T+ EPLE+G
Sbjct: 1 YRETI--RKSVEATGEFERELGGKPQFGEVTLRVEPLERG-------------------- 38
Query: 1035 EFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTR 1094
+VD + L +K+++ +G +
Sbjct: 39 -------------------------SGVRVVDPVDE----ELLPAELKEAVEEGIRDACA 69
Query: 1095 EGPLCEEPIRNVKFKILDAVIATEPLHRGGGQIIPTARRVAYSAFLMA 1142
GPL P+ +V+ +LD A R SA A
Sbjct: 70 SGPLTGYPLTDVRVTVLDVPY--HEGVSTEAGFRAAAGRAFESAAQKA 115
Score = 49.2 bits (118), Expect = 5e-07
Identities = 21/151 (13%), Positives = 47/151 (31%), Gaps = 60/151 (39%)
Query: 60 FCETVVETSSLKCFAETPN------KRNKITMIAEPLEKGLAEDIENQIVHIAWNKKRLG 113
+ ET+ S++ E + ++T+ EPLE+G
Sbjct: 1 YRETI--RKSVEATGEFERELGGKPQFGEVTLRVEPLERG-------------------- 38
Query: 114 EFFQSKYDWDLLAARSIWAFGPEVTGPNILVDDTLPSEVDKGLLGSVKDSIVQGFQWGTR 173
+VD + L +K+++ +G +
Sbjct: 39 -------------------------SGVRVVDPVDE----ELLPAELKEAVEEGIRDACA 69
Query: 174 EGPLCEEPIRNVKFKIREGNLN---SSPSIY 201
GPL P+ +V+ + + + S+ + +
Sbjct: 70 SGPLTGYPLTDVRVTVLDVPYHEGVSTEAGF 100
>gnl|CDD|237745 PRK14527, PRK14527, adenylate kinase; Provisional.
Length = 191
Score = 69.8 bits (171), Expect = 2e-13
Identities = 33/112 (29%), Positives = 64/112 (57%), Gaps = 4/112 (3%)
Query: 598 IVKTSTITDLITNE--DITSNKFLIDGFPRNQNNLDGWNKEMAD-KVELLYVLFFDCPED 654
+V I LI +E + + + DGFPR + ++ + + LL V+ + P++
Sbjct: 64 LVPDELILALIRDELAGMEPVRVIFDGFPRTLAQAEALDRLLEELGARLLAVVLLEVPDE 123
Query: 655 VCVRRCLKRGAEGSGRADDNEESLKKRISVYNTETMPIIKFFEAKNLVKRFN 706
+RR ++R + GR+DDNEE++++R VY +T P++ ++EA+ +KR +
Sbjct: 124 ELIRRIVERARQ-EGRSDDNEETVRRRQQVYREQTQPLVDYYEARGHLKRVD 174
>gnl|CDD|179433 PRK02496, adk, adenylate kinase; Provisional.
Length = 184
Score = 67.9 bits (166), Expect = 1e-12
Identities = 34/109 (31%), Positives = 55/109 (50%), Gaps = 13/109 (11%)
Query: 598 IVKTSTITDLIT---NEDITSNKFLIDGFPRNQNN---LDGWNKEMADKVELLYVLFFDC 651
+V + DL+ + +N +++DGFPR LD +E+ E V+ D
Sbjct: 59 LVPDQLVLDLVQERLQQPDAANGWILDGFPRKVTQAAFLDELLQEIGQSGE--RVVNLDV 116
Query: 652 PEDVCVRRCLKRGAEGSGRADDNEESLKKRISVYNTETMPIIKFFEAKN 700
P+DV V R L RG R DD EE +++R+ VY +T P+I ++ +
Sbjct: 117 PDDVVVERLLARG-----RKDDTEEVIRRRLEVYREQTAPLIDYYRDRQ 160
>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 = 67.6 bits (166), Expect = 1e-12
Identities = 25/57 (43%), Positives = 36/57 (63%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH +F EV + + DGV+L VDA+EG M T +LK A++ + + +NKIDR
Sbjct: 73 PGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALEAGLKPIVVINKIDR 129
Score = 65.7 bits (161), Expect = 6e-12
Identities = 31/79 (39%), Positives = 48/79 (60%), Gaps = 7/79 (8%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVT 459
IRN+A++ H+ HGKTT++D L++Q+ +R+ EE R D+ E+ERG++I A
Sbjct: 2 IRNIAIIAHVDHGKTTLVDALLKQSG-TFRE-NEEVGERVMDSNDLERERGITILAKNTA 59
Query: 460 LLLPDVKGKNYLMNIFDTP 478
+ D K +NI DTP
Sbjct: 60 ITYKDTK-----INIIDTP 73
>gnl|CDD|223557 COG0481, LepA, Membrane GTPase LepA [Cell envelope biogenesis,
outer membrane].
Length = 603
Score = 70.3 bits (173), Expect = 4e-12
Identities = 29/81 (35%), Positives = 47/81 (58%), Gaps = 7/81 (8%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLR--YTDTLFTEQERGVSIKASP 457
IRN +++ H+ HGK+T+ D L+ T E+ +R D++ E+ERG++IKA
Sbjct: 9 IRNFSIIAHIDHGKSTLADRLLELTGG-----LSEREMRAQVLDSMDIERERGITIKAQA 63
Query: 458 VTLLLPDVKGKNYLMNIFDTP 478
V L G+ Y++N+ DTP
Sbjct: 64 VRLNYKAKDGETYVLNLIDTP 84
Score = 47.2 bits (113), Expect = 5e-05
Identities = 30/83 (36%), Positives = 48/83 (57%), Gaps = 8/83 (9%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+FS EV+ ++ C+G +L VDA++GV T + A++ + I +NKID
Sbjct: 84 PGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENNLEIIPVLNKID---- 139
Query: 283 ELKLPPQDAYYKIKHIIDEINGL 305
LP D ++K I++I G+
Sbjct: 140 ---LPAADP-ERVKQEIEDIIGI 158
>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 = 60.6 bits (148), Expect = 2e-11
Identities = 29/80 (36%), Positives = 41/80 (51%), Gaps = 2/80 (2%)
Query: 1148 EPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFETDLR 1207
EP + VEV P + + V L+ RRG + G IKA +P + FG+ TDLR
Sbjct: 1 EPIMKVEVTVPEEYMGDVIGDLSSRRGQILGTESRGG--WKVIKAEVPLAEMFGYSTDLR 58
Query: 1208 THTQGQAFCLSVFHHWQIVP 1227
+ TQG+ F H++ VP
Sbjct: 59 SLTQGRGSFTMEFSHYEEVP 78
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 63.1 bits (154), Expect = 3e-11
Identities = 30/96 (31%), Positives = 51/96 (53%), Gaps = 6/96 (6%)
Query: 602 STITDLITNEDITSNKFLIDGFPRNQNNLDGWNKEMAD-KVELLYVLFFDCPEDVCVRRC 660
+ + + D F++DGFPR + + + V L V+ D PE++ + R
Sbjct: 66 GLVKERLDEADCK-AGFILDGFPRTLCQARALKRLLKELGVRLDMVIELDVPEELLLERL 124
Query: 661 LKRGAEGSGRADDNEESLKKRISVYNTETMPIIKFF 696
L R R DDNEE++KKR+ VY+ +T P+I+++
Sbjct: 125 LGRR----VREDDNEETVKKRLKVYHEQTAPLIEYY 156
>gnl|CDD|172997 PRK14531, PRK14531, adenylate kinase; Provisional.
Length = 183
Score = 63.3 bits (154), Expect = 3e-11
Identities = 32/105 (30%), Positives = 55/105 (52%), Gaps = 10/105 (9%)
Query: 613 ITSNKFLIDGFPRN---QNNLDGWNKEMADKVELLYVLFFDCPEDVCVRRCLKRGAEGSG 669
+ S +L+DGFPR L+ +E+ +E + +L D + V + R L RG
Sbjct: 77 LNSGGWLLDGFPRTVAQAEALEPLLEELKQPIEAVVLLELD--DAVLIERLLARG----- 129
Query: 670 RADDNEESLKKRISVYNTETMPIIKFFEAKNLVKRFNAEKSLVEM 714
RADDNE ++ R+ VY +T P+I + + L++ A+ S+ +
Sbjct: 130 RADDNEAVIRNRLEVYREKTAPLIDHYRQRGLLQSVEAQGSIEAI 174
>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 = 67.0 bits (164), Expect = 4e-11
Identities = 29/81 (35%), Positives = 47/81 (58%), Gaps = 7/81 (8%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLR--YTDTLFTEQERGVSIKASP 457
IRN +++ H+ HGK+T+ D L+ T E+ +R D++ E+ERG++IKA
Sbjct: 3 IRNFSIIAHIDHGKSTLADRLLEYT-----GAISEREMREQVLDSMDLERERGITIKAQA 57
Query: 458 VTLLLPDVKGKNYLMNIFDTP 478
V L G+ Y++N+ DTP
Sbjct: 58 VRLNYKAKDGETYVLNLIDTP 78
Score = 53.1 bits (128), Expect = 8e-07
Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 8/83 (9%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLML 282
PGHV+FS EV+ ++ C+G +L VDAA+G+ T + A++ + I +NKID
Sbjct: 78 PGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLEIIPVINKID---- 133
Query: 283 ELKLPPQDAYYKIKHIIDEINGL 305
LP D ++K I+E+ GL
Sbjct: 134 ---LPSADP-ERVKKEIEEVIGL 152
>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 = 63.1 bits (154), Expect = 6e-10
Identities = 25/57 (43%), Positives = 36/57 (63%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH +F EV + + DGV+L VDA+EG M T +LK A++ + + +NKIDR
Sbjct: 72 PGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDR 128
Score = 59.6 bits (145), Expect = 8e-09
Identities = 28/79 (35%), Positives = 45/79 (56%), Gaps = 7/79 (8%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVT 459
IRN+A++ H+ HGKTT++D L++Q+ G + E R D+ E+ERG++I A
Sbjct: 1 IRNIAIIAHVDHGKTTLVDALLKQS--GTFRANEAVAERVMDSNDLERERGITILAKNTA 58
Query: 460 LLLPDVKGKNYLMNIFDTP 478
++ +NI DTP
Sbjct: 59 -----IRYNGTKINIVDTP 72
Score = 41.1 bits (97), Expect = 0.004
Identities = 37/147 (25%), Positives = 57/147 (38%), Gaps = 18/147 (12%)
Query: 1098 LCEEPIRNVKFKILDAVIATEPLHRGGGQI-----IPTARRVAYSAFLMATPR------- 1145
L E NV ++ D A + G G++ I T RR + + P+
Sbjct: 331 LMRELETNVALRVEDTESADKFEVSGRGELHLSILIETMRREGFE-LQVGRPQVIYKEID 389
Query: 1146 --LMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAF-IPAIDSFGF 1202
+EP + + P + V AV L KR+G + P T F IP+ GF
Sbjct: 390 GKKLEPIEELTIDVPEEHVGAVIEKLGKRKGEMVDMEPSGNG--RTRLEFKIPSRGLIGF 447
Query: 1203 ETDLRTHTQGQAFCLSVFHHWQIVPGD 1229
T+ T T+G VF ++ G+
Sbjct: 448 RTEFLTDTRGTGIMNHVFDEYEPWKGE 474
Score = 38.1 bits (89), Expect = 0.036
Identities = 21/77 (27%), Positives = 40/77 (51%), Gaps = 7/77 (9%)
Query: 811 VLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVL 870
+ RV GT+ GQ+V ++ + ++ E+ RI +L +E +VE++ AG+ V
Sbjct: 218 AIGRVHRGTVKKGQQVALMKRDGTI---ENGRI---SKLLGFEGLERVEIDEAGAGDIVA 271
Query: 871 IEGIDQPIVKTSTITDL 887
+ G++ + TI D
Sbjct: 272 VAGLEDINI-GETIADP 287
>gnl|CDD|184729 PRK14532, PRK14532, adenylate kinase; Provisional.
Length = 188
Score = 58.3 bits (141), Expect = 2e-09
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 618 FLIDGFPRNQNNLDGWNKEMAD---KVELLYVLFFDCPEDVCVRRCLKRGAEGSGRADDN 674
+ DGFPR + +K +A K++++ L D + R +KR E GR DDN
Sbjct: 81 AIFDGFPRTVAQAEALDKMLASRGQKIDVVIRLKVDDEA--LIERIVKRFEE-QGRPDDN 137
Query: 675 EESLKKRISVYNTETMPIIKFFEAKNLVK 703
E R+ YN +T P++ ++ + +
Sbjct: 138 PEVFVTRLDAYNAQTAPLLPYYAGQGKLT 166
>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress
response [Signal transduction mechanisms].
Length = 603
Score = 61.5 bits (150), Expect = 2e-09
Identities = 25/57 (43%), Positives = 35/57 (61%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH +F EV + + DGV+L VDA+EG M T +LK A+ + + +NKIDR
Sbjct: 76 PGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALALGLKPIVVINKIDR 132
Score = 59.9 bits (146), Expect = 7e-09
Identities = 30/79 (37%), Positives = 45/79 (56%), Gaps = 7/79 (8%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVT 459
IRN+A++ H+ HGKTT++D L++Q+ G + EE R D+ E+ERG++I A
Sbjct: 5 IRNIAIIAHVDHGKTTLVDALLKQS--GTFREREEVAERVMDSNDLEKERGITILAKNTA 62
Query: 460 LLLPDVKGKNYLMNIFDTP 478
V +NI DTP
Sbjct: 63 -----VNYNGTRINIVDTP 76
Score = 38.4 bits (90), Expect = 0.024
Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 1/85 (1%)
Query: 1145 RLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFET 1204
EP+ V + P + AV L +R+G + AP G ++ IPA GF T
Sbjct: 395 VKCEPFEEVTIDVPEEHQGAVIEKLGERKGEMKDMAPD-GKGRVRLEFVIPARGLIGFRT 453
Query: 1205 DLRTHTQGQAFCLSVFHHWQIVPGD 1229
+ T T+G F H++ V G+
Sbjct: 454 EFLTMTRGTGIMNHSFDHYRPVKGE 478
Score = 32.2 bits (74), Expect = 2.3
Identities = 19/81 (23%), Positives = 37/81 (45%), Gaps = 7/81 (8%)
Query: 811 VLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVL 870
+ R+ GT+ Q+V ++ + + E+ RI +L + ++E+ AG+ V
Sbjct: 222 GIGRIFRGTVKPNQQVALIKSDGTT---ENGRI---TKLLGFLGLERIEIEEAEAGDIVA 275
Query: 871 IEGIDQPIVKTSTITDLITNE 891
I G++ + TI D E
Sbjct: 276 IAGLEDINI-GDTICDPDNPE 295
>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 = 53.0 bits (128), Expect = 9e-09
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 1148 EPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFETDLR 1207
EPYL E++ P D + + LAK T + P T++ IP S ++++L
Sbjct: 1 EPYLRFELEVPQDALGRAMSDLAKMGA--TFEDPQIKGDEVTLEGTIPVATSQDYQSELP 58
Query: 1208 THTQGQAFCLSVFHHWQIVP 1227
++T G+ + F ++
Sbjct: 59 SYTHGEGVLETEFKGYRPCH 78
>gnl|CDD|235462 PRK05433, PRK05433, GTP-binding protein LepA; Provisional.
Length = 600
Score = 59.3 bits (145), Expect = 9e-09
Identities = 32/88 (36%), Positives = 51/88 (57%), Gaps = 8/88 (9%)
Query: 393 MMDTPHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLR--YTDTLFTEQERG 450
MMD + IRN +++ H+ HGK+T+ D LI T E+ ++ D++ E+ERG
Sbjct: 1 MMDMKN-IRNFSIIAHIDHGKSTLADRLIELTGT-----LSEREMKAQVLDSMDLERERG 54
Query: 451 VSIKASPVTLLLPDVKGKNYLMNIFDTP 478
++IKA V L G+ Y++N+ DTP
Sbjct: 55 ITIKAQAVRLNYKAKDGETYILNLIDTP 82
Score = 44.6 bits (107), Expect = 3e-04
Identities = 16/30 (53%), Positives = 24/30 (80%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGV 252
PGHV+FS EV+ ++ C+G +L VDA++GV
Sbjct: 82 PGHVDFSYEVSRSLAACEGALLVVDASQGV 111
>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 = 56.1 bits (136), Expect = 3e-08
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PG+ +F E +A+R D ++ V+A GV + TE++ + K+ + +NK+DR
Sbjct: 72 PGYADFVGETLSALRAVDAALIVVEAQSGVEVGTEKVWEFLDDAKLPRIIFINKMDR 128
Score = 38.7 bits (91), Expect = 0.012
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 11/83 (13%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTH-PGYRQPAEEKNLRYTDTLFT--EQERGVSIKASPV 458
N+ALVGH GKTT+ + L+ T E+ N T + + E++R +SI+ S
Sbjct: 1 NIALVGHSGSGKTTLAEALLYATGAIDRLGRVEDGN---TVSDYDPEEKKRKMSIETSVA 57
Query: 459 TLLLPDVKGKNYLMNIFDTPASP 481
L K +N+ DTP
Sbjct: 58 PLEWNGHK-----INLIDTPGYA 75
>gnl|CDD|104396 PRK10218, PRK10218, GTP-binding protein; Provisional.
Length = 607
Score = 53.2 bits (127), Expect = 7e-07
Identities = 29/80 (36%), Positives = 46/80 (57%), Gaps = 7/80 (8%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVT 459
+RN+A++ H+ HGKTT++D L++Q+ G E R D+ E+ERG++I A
Sbjct: 5 LRNIAIIAHVDHGKTTLVDKLLQQS--GTFDSRAETQERVMDSNDLEKERGITILAKNTA 62
Query: 460 LLLPDVKGKNYLMNIFDTPA 479
+K +Y +NI DTP
Sbjct: 63 -----IKWNDYRINIVDTPG 77
Score = 45.1 bits (106), Expect = 2e-04
Identities = 22/57 (38%), Positives = 31/57 (54%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH +F EV M + D V+L VDA +G M T + K A + + +NK+DR
Sbjct: 76 PGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKPIVVINKVDR 132
Score = 33.1 bits (75), Expect = 1.0
Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 2/86 (2%)
Query: 1145 RLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYTIKAFIPAIDSFGFET 1204
R EPY V + +V L +R+G + P G + IP+ GF +
Sbjct: 395 RKQEPYENVTLDVEEQHQGSVMQALGERKGDLKNMNP-DGKGRVRLDYVIPSRGLIGFRS 453
Query: 1205 DLRTHTQGQAFCLSVFHHW-QIVPGD 1229
+ T T G S F H+ + PG+
Sbjct: 454 EFMTMTSGTGLLYSTFSHYDDVRPGE 479
>gnl|CDD|234569 PRK00007, PRK00007, elongation factor G; Reviewed.
Length = 693
Score = 52.8 bits (128), Expect = 9e-07
Identities = 32/91 (35%), Positives = 46/91 (50%), Gaps = 4/91 (4%)
Query: 1138 AFLMATPRLMEPYLFVEVQAPADCVSAVYTVLAKRRGHVT-QDAPVPGSPLYTIKAFIPA 1196
A A P L+EP + VEV P + + V L RRG + + I+A +P
Sbjct: 593 AAKKANPVLLEPIMKVEVVTPEEYMGDVIGDLNSRRGQIEGMED---RGGAKVIRAEVPL 649
Query: 1197 IDSFGFETDLRTHTQGQAFCLSVFHHWQIVP 1227
+ FG+ TDLR+ TQG+A F H++ VP
Sbjct: 650 SEMFGYATDLRSMTQGRATYSMEFDHYEEVP 680
Score = 42.4 bits (101), Expect = 0.001
Identities = 53/184 (28%), Positives = 83/184 (45%), Gaps = 28/184 (15%)
Query: 807 TFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAG 866
TFF RV SG L +G V + + RI GR+ A + E+ V AG
Sbjct: 327 TFF----RVYSGVLESGSYV------LNSTKGKKERI---GRILQMHANKREEIKEVRAG 373
Query: 867 NWVLIEGIDQPIVKT-STITDL---ITNEDMYIFRPLKFNTQSVIKIAVEPVNPSELPKM 922
+ G+ T T+ D I E M P VI +AVEP ++ KM
Sbjct: 374 DIAAAVGLKD--TTTGDTLCDEKNPIILESMEFPEP-------VISVAVEPKTKADQEKM 424
Query: 923 LDGLRKVNKSYPLLTTKV-EESGEHVVLGTGELYLDCVMHDLRKMYSEIDIKVADPVVAF 981
L+K+ + P EE+G+ ++ G GEL+LD ++ +++ + ++ V P VA+
Sbjct: 425 GIALQKLAEEDPSFRVSTDEETGQTIIAGMGELHLDIIVDRMKREFK-VEANVGKPQVAY 483
Query: 982 CETV 985
ET+
Sbjct: 484 RETI 487
Score = 38.6 bits (91), Expect = 0.021
Identities = 24/61 (39%), Positives = 35/61 (57%), Gaps = 6/61 (9%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEK---MAITLCVNKIDR 279
PGHV+F+ EV ++R+ DG V DA GV +E + + A + K +A VNK+DR
Sbjct: 83 PGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVPRIAF---VNKMDR 139
Query: 280 L 280
Sbjct: 140 T 140
>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 = 49.2 bits (118), Expect = 4e-06
Identities = 24/60 (40%), Positives = 36/60 (60%), Gaps = 4/60 (6%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAI--TLCVNKIDRL 280
PGH++F EV ++ + DG +L + A EGV T R+L ++ K+ I + VNKIDR
Sbjct: 72 PGHMDFIAEVERSLSVLDGAILVISAVEGVQAQT-RILFRLLR-KLNIPTIIFVNKIDRA 129
Score = 37.6 bits (88), Expect = 0.027
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 17/83 (20%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLR------YTDTLFTEQERGVSIKA 455
N+ ++ H+ GKTT+ + L+ Y A + TD++ E++RG++I +
Sbjct: 1 NIGILAHVDAGKTTLTESLL------YTSGAIRELGSVDKGTTRTDSMELERQRGITIFS 54
Query: 456 SPVTLLLPDVKGKNYLMNIFDTP 478
+ + D K +NI DTP
Sbjct: 55 AVASFQWEDTK-----VNIIDTP 72
>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 = 45.0 bits (107), Expect = 6e-06
Identities = 28/77 (36%), Positives = 42/77 (54%), Gaps = 5/77 (6%)
Query: 1148 EPYLFVEVQAPADCVSAVYTVLAKRRGH-VTQDAPVPGSPLYTIKAFIPAIDSFGFETDL 1206
EP + VEV AP + V +L KR+G V D G +T++A +P D FG+ T+L
Sbjct: 1 EPIMKVEVTAPTEFQGNVIGLLNKRKGTIVDTDT---GEDEFTLEAEVPLNDMFGYSTEL 57
Query: 1207 RTHTQGQA-FCLSVFHH 1222
R+ TQG+ F + +
Sbjct: 58 RSMTQGKGEFSMEFSRY 74
>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 = 47.1 bits (113), Expect = 9e-06
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 15/86 (17%)
Query: 223 PGHVNFSDEVTAAMR-----LCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKI 277
PGH F+ MR + D +L V A +GVM T + HA + I + +NKI
Sbjct: 57 PGHEAFT-----NMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAANVPIIVAINKI 111
Query: 278 DRLMLELKLPPQDAYYKIKHIIDEIN 303
D+ P ++K+ + E+
Sbjct: 112 DKPYGTEADP-----ERVKNELSELG 132
Score = 32.1 bits (74), Expect = 1.0
Identities = 12/23 (52%), Positives = 19/23 (82%), Gaps = 1/23 (4%)
Query: 403 VALVGHLHHGKTTMIDCLIRQTH 425
V ++GH+ HGKTT++D IR+T+
Sbjct: 3 VTVMGHVDHGKTTLLDK-IRKTN 24
>gnl|CDD|237747 PRK14530, PRK14530, adenylate kinase; Provisional.
Length = 215
Score = 47.5 bits (113), Expect = 1e-05
Identities = 28/123 (22%), Positives = 53/123 (43%), Gaps = 30/123 (24%)
Query: 618 FLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPEDVCVRR------------------ 659
F++DG+PRN + + +L VL+ D E+ V R
Sbjct: 85 FVLDGYPRNLEQAE----YLESITDLDVVLYLDVSEEELVDRLTGRRVCPDCGANYHVEF 140
Query: 660 --------CLKRGAEGSGRADDNEESLKKRISVYNTETMPIIKFFEAKNLVKRFNAEKSL 711
C + G E R DD EE++++R+ V+ T P+I+ + + ++ + E++
Sbjct: 141 NQPEEEGVCDECGGELIQRDDDTEETVRERLDVFEENTEPVIEHYRDQGVLVEVDGEQTP 200
Query: 712 VEM 714
E+
Sbjct: 201 DEV 203
>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 = 47.9 bits (115), Expect = 1e-05
Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 12/86 (13%)
Query: 197 SPSIYCSNKSHSWEIVCTRNNNKCLPPGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNT 256
S + C K H I+ T PGHV+F+ EV ++R+ DG V DA GV T
Sbjct: 54 SAATTCFWKDHRINIIDT--------PGHVDFTIEVERSLRVLDGAVAVFDAVAGVQPQT 105
Query: 257 ERLLKHAVQEKMAI-TLC-VNKIDRL 280
E + + A ++ + + VNK+DR
Sbjct: 106 ETVWRQA--DRYGVPRIAFVNKMDRT 129
Score = 29.8 bits (68), Expect = 9.5
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 5/39 (12%)
Query: 440 TDTLFTEQERGVSIKASPVTLLLPDVKGKNYLMNIFDTP 478
D + E+ERG++I+++ T K++ +NI DTP
Sbjct: 39 MDWMEQERERGITIQSAATT-----CFWKDHRINIIDTP 72
>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 = 43.5 bits (103), Expect = 3e-05
Identities = 25/77 (32%), Positives = 32/77 (41%), Gaps = 12/77 (15%)
Query: 811 VLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVL 870
RV SGTL G +VRV V L R+K EV+ AG+ V
Sbjct: 18 ATGRVESGTLKKGDKVRVGP-------GGGGVKGKVKSLK----RFKGEVDEAVAGDIVG 66
Query: 871 IEGIDQPIVKT-STITD 886
I D+ +K T+TD
Sbjct: 67 IVLKDKDDIKIGDTLTD 83
>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 = 42.6 bits (101), Expect = 4e-05
Identities = 14/69 (20%), Positives = 22/69 (31%), Gaps = 7/69 (10%)
Query: 811 VLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVL 870
RV SGTL G +V + + V L ++ + V AG +
Sbjct: 4 ATGRVESGTLKKGDKVVI-------GPNGTGKKGRVTSLEMFHGDLREAVAGANAGIILA 56
Query: 871 IEGIDQPIV 879
G+
Sbjct: 57 GIGLKDIKR 65
>gnl|CDD|172992 PRK14526, PRK14526, adenylate kinase; Provisional.
Length = 211
Score = 45.6 bits (108), Expect = 4e-05
Identities = 42/165 (25%), Positives = 68/165 (41%), Gaps = 45/165 (27%)
Query: 594 IDQPIVKTSTITDLIT---NED----ITSNK-FLIDGFPRNQNNLDGWNKEMADKVELLY 645
I Q + + D IT ED I +N F++DGFPRN N +K + + +
Sbjct: 49 IKQIVENGQLVPDSITIKIVEDKINTIKNNDNFILDGFPRNINQAKALDKFLPN----IK 104
Query: 646 VLFFDCPEDVCVRRCLKR--------------------------GAEGSGRADDNEESLK 679
++ F E++ ++R R + R DD EESLK
Sbjct: 105 IINFLIDEELLIKRLSGRRICKSCNNIFNIYTLPTKEKGICDVCKGDLYQRKDDKEESLK 164
Query: 680 KRISVYNTETMPIIKFFEAKNLVKRFNA-------EKSLVEMCVK 717
R+ Y +T P+I+F+ N + +A +K L+E+ K
Sbjct: 165 TRLQEYKLQTKPLIEFYSKCNRLNNIDASKDIDEVKKKLIEIISK 209
>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional.
Length = 333
Score = 46.8 bits (111), Expect = 5e-05
Identities = 32/102 (31%), Positives = 50/102 (49%), Gaps = 7/102 (6%)
Query: 604 ITDLITNEDITSNKFLIDGFPRNQNNLDGWNKEMADK-VELLYVLFFDCPEDVCVRRCLK 662
I+D I D +N F++DGFPR + + + DK ++L V+ E + R
Sbjct: 68 ISDRIEQPD-AANGFILDGFPRTVPQAEALDALLKDKQLKLDAVVELRVNEGALLARVET 126
Query: 663 RGAEGSGR-----ADDNEESLKKRISVYNTETMPIIKFFEAK 699
R AE R ADD E L KR++ Y +T P++ ++ K
Sbjct: 127 RVAEMRARGEEVRADDTPEVLAKRLASYRAQTEPLVHYYSEK 168
>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 = 41.7 bits (99), Expect = 1e-04
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 7/73 (9%)
Query: 814 RVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAGNWVLIEG 873
R+ GT+ GQ+V V+ + E ++I +L+ +E +VEV AG+ V I G
Sbjct: 21 RIFRGTVKVGQQVAVVKRDGK---IEKAKI---TKLFGFEGLKRVEVEEAEAGDIVAIAG 74
Query: 874 IDQPIVKTSTITD 886
I+ + TI D
Sbjct: 75 IEDITIG-DTICD 86
>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 509
Score = 44.8 bits (107), Expect = 3e-04
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 223 PGHVNFSDEVTAAMR-----LCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKI 277
PGH F+ AMR + D +L V A +GVM T + HA + I + +NKI
Sbjct: 63 PGHEAFT-----AMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVPIVVAINKI 117
Query: 278 DR 279
D+
Sbjct: 118 DK 119
Score = 30.6 bits (70), Expect = 5.7
Identities = 12/22 (54%), Positives = 18/22 (81%), Gaps = 1/22 (4%)
Query: 403 VALVGHLHHGKTTMIDCLIRQT 424
V ++GH+ HGKTT++D IR+T
Sbjct: 8 VTIMGHVDHGKTTLLD-KIRKT 28
>gnl|CDD|215253 PLN02459, PLN02459, probable adenylate kinase.
Length = 261
Score = 43.7 bits (103), Expect = 3e-04
Identities = 29/126 (23%), Positives = 46/126 (36%), Gaps = 41/126 (32%)
Query: 618 FLIDGFPRNQNNLDGWNKEMADKVELLYVLFFDCPEDVCVRRCLKR-------------- 663
F++DGFPR + + ++ V+ E+V V +CL R
Sbjct: 112 FILDGFPRTVRQAE----ILEGVTDIDLVVNLKLREEVLVEKCLGRRICSECGKNFNVAD 167
Query: 664 ----GAEGS-------------------GRADDNEESLKKRISVYNTETMPIIKFFEAKN 700
G +G RADD EE +K R+ VY E+ P+ F+ +
Sbjct: 168 IDLKGEDGRPGIVMPPLLPPPECASKLITRADDTEEVVKARLRVYKEESQPVEDFYRKRG 227
Query: 701 LVKRFN 706
+ F
Sbjct: 228 KLLEFE 233
>gnl|CDD|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed.
Length = 425
Score = 42.6 bits (101), Expect = 0.001
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 15/74 (20%)
Query: 393 MMDTPHLIRNVALVGHLHHGKTTMIDCLI-------RQTHPGYRQPAEEKN-----LRYT 440
+ PHL N+A++GH+ HGK+T++ L+ R+ A+EK +
Sbjct: 1 AKEKPHL--NLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWV 58
Query: 441 -DTLFTEQERGVSI 453
D L E+ERGV+I
Sbjct: 59 MDRLKEERERGVTI 72
>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 428
Score = 42.3 bits (100), Expect = 0.001
Identities = 24/99 (24%), Positives = 37/99 (37%), Gaps = 24/99 (24%)
Query: 397 PHLIRNVALVGHLHHGKTTMIDCLIRQTHPG---------YRQPAEEKN-----LRY-TD 441
PHL N+ +GH+ GK+T++ L+ G + A+E + D
Sbjct: 6 PHL--NLVFIGHVDAGKSTLVGRLLYDL--GEIDKRTMEKLEKEAKELGKESFKFAWVLD 61
Query: 442 TLFTEQERGVSIKASPVTLLLPDVKGKNYLMNIFDTPAS 480
E+ERGV+I + Y I D P
Sbjct: 62 KTKEERERGVTIDVAHSKFETD-----KYNFTIIDAPGH 95
>gnl|CDD|206726 cd04163, Era, E. coli Ras-like protein (Era) is a multifunctional
GTPase. Era (E. coli Ras-like protein) is a
multifunctional GTPase found in all bacteria except some
eubacteria. It binds to the 16S ribosomal RNA (rRNA) of
the 30S subunit and appears to play a role in the
assembly of the 30S subunit, possibly by chaperoning the
16S rRNA. It also contacts several assembly elements of
the 30S subunit. Era couples cell growth with
cytokinesis and plays a role in cell division and energy
metabolism. Homologs have also been found in eukaryotes.
Era contains two domains: the N-terminal GTPase domain
and a C-terminal domain KH domain that is critical for
RNA binding. Both domains are important for Era
function. Era is functionally able to compensate for
deletion of RbfA, a cold-shock adaptation protein that
is required for efficient processing of the 16S rRNA.
Length = 168
Score = 39.0 bits (92), Expect = 0.004
Identities = 21/72 (29%), Positives = 34/72 (47%)
Query: 231 EVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLMLELKLPPQD 290
+A++ D V+ VDA+E + E +L+ + K + L +NKID + + L P
Sbjct: 75 AAWSALKDVDLVLFVVDASEWIGEGDEFILELLKKSKTPVILVLNKIDLVKDKEDLLPLL 134
Query: 291 AYYKIKHIIDEI 302
K H EI
Sbjct: 135 EKLKELHPFAEI 146
>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 = 36.7 bits (86), Expect = 0.007
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 13/70 (18%)
Query: 807 TFFQVLARVMSGTLHAGQEVRVLGENYSLMDEEDSRILTVGRLWIYEARYKVEVNRVPAG 866
+F RV SGTL AG + Y+ + R+ GRL + + EV AG
Sbjct: 18 SFV----RVYSGTLKAGSTL------YNSTKGKKERV---GRLLRMHGKKQEEVEEAGAG 64
Query: 867 NWVLIEGIDQ 876
+ + G+
Sbjct: 65 DIGAVAGLKD 74
>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 = 38.7 bits (91), Expect = 0.009
Identities = 28/100 (28%), Positives = 46/100 (46%), Gaps = 25/100 (25%)
Query: 223 PGHVNFS-DEVTAAMRLCDGVVLFVDAAEGVMLNTER------LL--KHAVQEKMAITLC 273
PGH ++ + VT A D +L VDA +GV+ T R LL +H V +
Sbjct: 86 PGHEQYTRNMVTGAST-ADLAILLVDARKGVLEQTRRHSYIASLLGIRHVV-------VA 137
Query: 274 VNKIDRLMLELKLPPQDAYYKIKHIIDEINGLLRYLLIDD 313
VNK+D +++ ++ + +IK + L I+D
Sbjct: 138 VNKMD--LVDYD---EEVFEEIK---ADYLAFAASLGIED 169
>gnl|CDD|178435 PLN02842, PLN02842, nucleotide kinase.
Length = 505
Score = 39.8 bits (93), Expect = 0.009
Identities = 25/137 (18%), Positives = 58/137 (42%), Gaps = 33/137 (24%)
Query: 599 VKTSTITDLITNEDITSNKFLIDGFPRNQNNLDGWNKEMADKVEL---LYVLFFDCPEDV 655
+ + +T ++ ED +L+DG+PR+ + +K+++ +++L D P+++
Sbjct: 60 IVIAMVTGRLSREDAKEKGWLLDGYPRSFA-----QAQSLEKLKIRPDIFIL-LDVPDEI 113
Query: 656 CVRRCLKR----------------------GAEGSGRADDNEESLKKRISVYNTETMPII 693
+ RC+ R A R DD EE +K R+ +Y I+
Sbjct: 114 LIDRCVGRRLDPVTGKIYHIKNFPPESEEIKARLITRPDDTEEKVKARLQIYKKNAEAIL 173
Query: 694 KFFEAKNLVKRFNAEKS 710
+ +++ + + +
Sbjct: 174 STYS--DIMVKIDGNRP 188
>gnl|CDD|178279 PLN02674, PLN02674, adenylate kinase.
Length = 244
Score = 38.3 bits (89), Expect = 0.015
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 670 RADDNEESLKKRISVYNTETMPIIKFFEAKNLVKRFNAEKS 710
R DD LK R+ ++ +T P+I ++ K +V +AEK
Sbjct: 191 RKDDTAAVLKSRLEAFHKQTEPVIDYYAKKGVVANLHAEKP 231
>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 = 39.0 bits (91), Expect = 0.016
Identities = 21/57 (36%), Positives = 30/57 (52%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH F+ ++ D VVL V A +GVM T + HA + I + +NKID+
Sbjct: 143 PGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVPIIVAINKIDK 199
>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 = 34.8 bits (81), Expect = 0.029
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 3/78 (3%)
Query: 1148 EPYLFVEVQAPADCVSAVYTVLAKRRGHVTQDAPVPGSPLYT-IKAFIPAIDSFGFETDL 1206
EP + + P + AV L KR+G + P T ++ IP+ GF ++
Sbjct: 1 EPIEELTIDVPEEYSGAVIEKLGKRKGEMVDMEPDGNG--RTRLEFKIPSRGLIGFRSEF 58
Query: 1207 RTHTQGQAFCLSVFHHWQ 1224
T T+G VF ++
Sbjct: 59 LTDTRGTGIMNHVFDGYE 76
>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 = 37.6 bits (87), Expect = 0.048
Identities = 18/57 (31%), Positives = 31/57 (54%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH +FS++ + D ++ +DAA+GV T +L++ I +NK+DR
Sbjct: 88 PGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTPIFTFMNKLDR 144
Score = 30.6 bits (69), Expect = 5.6
Identities = 21/83 (25%), Positives = 42/83 (50%), Gaps = 11/83 (13%)
Query: 401 RNVALVGHLHHGKTTMIDCLIR-----QTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKA 455
R A++ H GKTT+ + ++ QT + +++ + +D + E++RG+SI
Sbjct: 12 RTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAK-SDWMEMEKQRGISITT 70
Query: 456 SPVTLLLPDVKGKNYLMNIFDTP 478
S ++ + L+N+ DTP
Sbjct: 71 S---VMQFPYRDC--LVNLLDTP 88
>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 = 37.1 bits (86), Expect = 0.058
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 15/70 (21%)
Query: 397 PHLIRNVALVGHLHHGKTTMIDCLI-------RQTHPGYRQPAEEK-----NLRYT-DTL 443
H+ NVA +GH+ HGK+T + L+ QT + + A+EK + D L
Sbjct: 6 EHI--NVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRL 63
Query: 444 FTEQERGVSI 453
E+ERGV+I
Sbjct: 64 KEERERGVTI 73
>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 = 36.4 bits (85), Expect = 0.071
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 8/61 (13%)
Query: 223 PGHVNFSDE----VTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKID 278
PGH +FS++ +TA D V+ +DAA+GV T +L + + I +NK+D
Sbjct: 79 PGHEDFSEDTYRTLTAV----DSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLD 134
Query: 279 R 279
R
Sbjct: 135 R 135
Score = 33.0 bits (76), Expect = 0.98
Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 13/84 (15%)
Query: 401 RNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEE----KNLRYT--DTLFTEQERGVSIK 454
R A++ H GKTT+ + L+ G Q A K+ ++ D + E++RG+S+
Sbjct: 3 RTFAIISHPDAGKTTLTEKLLL--FGGAIQEAGAVKARKSRKHATSDWMEIEKQRGISVT 60
Query: 455 ASPVTLLLPDVKGKNYLMNIFDTP 478
+S + + K ++N+ DTP
Sbjct: 61 SSVMQF-----EYKGCVINLLDTP 79
>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 36.2 bits (85), Expect = 0.10
Identities = 18/73 (24%), Positives = 32/73 (43%)
Query: 230 DEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLMLELKLPPQ 289
++++ D V+ VDA E + E +L+ + K + L +NKID + + +L P
Sbjct: 76 KAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVILVLNKIDLVKDKEELLPL 135
Query: 290 DAYYKIKHIIDEI 302
EI
Sbjct: 136 LEELSELMDFAEI 148
>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 = 35.0 bits (81), Expect = 0.10
Identities = 20/111 (18%), Positives = 39/111 (35%), Gaps = 20/111 (18%)
Query: 207 HSWEIVCTRNNNKCL-----PPGHVNFSD-------EVTAAMRLCDGVVLFVDAAEGVML 254
+ V + G ++ V +++R+ D V+L +D E +
Sbjct: 38 NYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEK 97
Query: 255 NTERLLKHAVQEKMAITLCVNKIDRLMLELKLPPQDAYYKIKHIIDEINGL 305
T+ + H + + I L NKID L + + ++NG
Sbjct: 98 QTK-EIIHHAESGVPIILVGNKID-------LRDAKLKTHVAFLFAKLNGE 140
Score = 30.8 bits (70), Expect = 2.4
Identities = 16/85 (18%), Positives = 25/85 (29%), Gaps = 32/85 (37%)
Query: 400 IRNVALVGHLHHGKTTMIDCLIRQ------THPGYRQPAEEKNLRYTDTLFTEQERGVSI 453
+ +VG + GK+T+++ L+ PG T T
Sbjct: 1 EIKIVIVGDPNVGKSTLLNRLLGNKISITEYKPG-----------TTRNYVTTVIE---- 45
Query: 454 KASPVTLLLPDVKGKNYLMNIFDTP 478
GK Y N+ DT
Sbjct: 46 -----------EDGKTYKFNLLDTA 59
>gnl|CDD|240262 PTZ00088, PTZ00088, adenylate kinase 1; Provisional.
Length = 229
Score = 35.5 bits (82), Expect = 0.11
Identities = 13/31 (41%), Positives = 21/31 (67%)
Query: 670 RADDNEESLKKRISVYNTETMPIIKFFEAKN 700
R+DD EE + R++ Y + PII+FF+ +N
Sbjct: 173 RSDDTEEIVAHRLNTYESTNSPIIQFFKNEN 203
>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 = 35.8 bits (83), Expect = 0.15
Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 15/64 (23%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTER------LL--KHAVQEKMAITLCV 274
PGH ++ + D VL VDA +GV+ T R LL +H V L V
Sbjct: 88 PGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIRHVV-------LAV 140
Query: 275 NKID 278
NK+D
Sbjct: 141 NKMD 144
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 35.9 bits (83), Expect = 0.15
Identities = 16/44 (36%), Positives = 23/44 (52%)
Query: 235 AMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKID 278
A+ L D VV VD G+ ER+++ + + L VNKID
Sbjct: 351 AVSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVVLAVNKID 394
>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated.
Length = 746
Score = 36.0 bits (84), Expect = 0.15
Identities = 24/61 (39%), Positives = 31/61 (50%), Gaps = 10/61 (16%)
Query: 223 PGHVNFSDEVTAAMR-----LCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKI 277
PGH F+ AMR + D VVL V A +GVM T + HA + I + +NKI
Sbjct: 304 PGHEAFT-----AMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVPIIVAINKI 358
Query: 278 D 278
D
Sbjct: 359 D 359
>gnl|CDD|234274 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA. EngA
(YfgK, Der) is a ribosome-associated essential GTPase
with a duplication of its GTP-binding domain. It is
broadly to universally distributed among bacteria. It
appears to function in ribosome biogenesis or stability
[Protein synthesis, Other].
Length = 429
Score = 35.5 bits (83), Expect = 0.18
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 12/77 (15%)
Query: 235 AMRLCDGVVLFVDAAEGVMLNTE---RLLKHAVQEKMAITLCVNKIDRLMLELKLPPQDA 291
A+ D V+L +DA EG+ TE R+ A++ A+ + VNK D + +
Sbjct: 251 AIERADVVLLVLDATEGI---TEQDLRIAGLALEAGKALVIVVNKWD------LVKDEKT 301
Query: 292 YYKIKHIIDEINGLLRY 308
+ K + L +
Sbjct: 302 REEFKKELRRKLPFLDF 318
>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 = 34.1 bits (79), Expect = 0.21
Identities = 21/64 (32%), Positives = 28/64 (43%), Gaps = 15/64 (23%)
Query: 403 VALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVTLLL 462
+ GH+ HGKTT+I L TD L E++RG++I L L
Sbjct: 2 IGTAGHIDHGKTTLIKAL---------------TGIETDRLPEEKKRGITIDLGFAYLDL 46
Query: 463 PDVK 466
PD K
Sbjct: 47 PDGK 50
>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 = 33.2 bits (77), Expect = 0.40
Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 8/76 (10%)
Query: 234 AAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLMLELKLPPQDAYY 293
A+ D V+L +DA+EG+ R+ ++E A+ + VNK D + +
Sbjct: 80 KAIERADVVLLVLDASEGITEQDLRIAGLILEEGKALIIVVNKWDLV--------EKDEK 131
Query: 294 KIKHIIDEINGLLRYL 309
+K E+ L +L
Sbjct: 132 TMKEFEKELRRKLPFL 147
>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases. Rnd1/Rho6 is a member of
the novel Rho subfamily Rnd, together with Rnd2/Rho7 and
Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not
hydrolyze it to GDP, indicating that it is
constitutively active. In rat, Rnd1/Rho6 is highly
expressed in the cerebral cortex and hippocampus during
synapse formation, and plays a role in spine formation.
Rnd1/Rho6 is also expressed in the liver and in
endothelial cells, and is upregulated in uterine
myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8,
Rnd1/Rho6 is believed to function as an antagonist to
RhoA. Most Rho proteins contain a lipid modification
site at the C-terminus, with a typical sequence motif
CaaX, where a = an aliphatic amino acid and X = any
amino acid. Lipid binding is essential for membrane
attachment, a key feature of most Rho proteins. Due to
the presence of truncated sequences in this CD, the
lipid modification site is not available for annotation.
Length = 232
Score = 33.9 bits (77), Expect = 0.41
Identities = 26/79 (32%), Positives = 37/79 (46%), Gaps = 11/79 (13%)
Query: 397 PHLIR-NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKA 455
P ++R + LVG + GKT M+ L + +P P +N YT L TE++R
Sbjct: 9 PLVVRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFEN--YTACLETEEQR------ 60
Query: 456 SPVTLLLPDVKGKNYLMNI 474
V L L D G Y N+
Sbjct: 61 --VELSLWDTSGSPYYDNV 77
>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 = 34.3 bits (79), Expect = 0.44
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 15/53 (28%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIK 454
N+ +VGH+ HGKTT+ L +TDT E +RG+SI+
Sbjct: 6 NIGMVGHVDHGKTTLTKALTGV---------------WTDTHSEELKRGISIR 43
>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1
[Inorganic ion transport and metabolism].
Length = 431
Score = 33.8 bits (78), Expect = 0.59
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 17/65 (26%)
Query: 223 PGHVNFS-DEVTAAMRLCDGVVLFVDAAEGVMLNTER------LL--KHAVQEKMAITLC 273
PGH ++ + T A D +L VDA +GV+ T R LL +H V +
Sbjct: 94 PGHEQYTRNMATGA-STADLAILLVDARKGVLEQTRRHSFIASLLGIRHVV-------VA 145
Query: 274 VNKID 278
VNK+D
Sbjct: 146 VNKMD 150
>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 = 34.1 bits (78), Expect = 0.61
Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNT-ERLLKHAVQEKMAITLCVNKIDR 279
PGH F A D +L VDA EGVM T E L + + + K DR
Sbjct: 58 PGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADR 115
Score = 30.6 bits (69), Expect = 7.1
Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 20/77 (25%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVTLL 461
+A GH+ HGKTT++ L D L E++RG++I
Sbjct: 2 IIATAGHVDHGKTTLLKALTGIA---------------ADRLPEEKKRGMTIDLGFAYFP 46
Query: 462 LPDVKGKNYLMNIFDTP 478
LPD Y + D P
Sbjct: 47 LPD-----YRLGFIDVP 58
>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 = 33.0 bits (76), Expect = 0.67
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 19/55 (34%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLR--YTDTLFTEQERGVSIK 454
N+ +GH+ HGKTT++ K L +T E +R ++IK
Sbjct: 2 NIGTIGHVAHGKTTLV-----------------KALSGVWTVRHKEELKRNITIK 39
>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors
[Translation, ribosomal structure and biogenesis].
Length = 394
Score = 33.4 bits (77), Expect = 0.77
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 397 PHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKAS 456
PH+ NV +GH+ HGKTT+ + AE K D E+ RG++I +
Sbjct: 11 PHV--NVGTIGHVDHGKTTLTAAITTVLAKKGG--AEAKAYDQIDNAPEEKARGITINTA 66
Query: 457 PVTLLLPD 464
V +
Sbjct: 67 HVEYETAN 74
>gnl|CDD|234628 PRK00093, PRK00093, GTP-binding protein Der; Reviewed.
Length = 435
Score = 33.5 bits (78), Expect = 0.83
Identities = 22/78 (28%), Positives = 36/78 (46%), Gaps = 16/78 (20%)
Query: 235 AMRLCDGVVLFVDAAEGVMLNTE---RLLKHAVQEKMAITLCVNKIDRLMLELKLPPQDA 291
A+ D V+L +DA EG+ TE R+ A++ A+ + VNK D L+ E
Sbjct: 252 AIERADVVLLVIDATEGI---TEQDLRIAGLALEAGRALVIVVNKWD-LVDE-------- 299
Query: 292 YYKIKHIIDEINGLLRYL 309
++ E+ L +L
Sbjct: 300 -KTMEEFKKELRRRLPFL 316
>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit
gamma; Validated.
Length = 411
Score = 33.3 bits (77), Expect = 0.85
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 15/53 (28%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIK 454
N+ +VGH+ HGKTT++ L +TD E +RG++I+
Sbjct: 11 NIGMVGHVDHGKTTLVQALTGV---------------WTDRHSEELKRGITIR 48
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 33.3 bits (76), Expect = 0.93
Identities = 16/57 (28%), Positives = 27/57 (47%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDR 279
PGH FS + + D +L + A +GV T + + + I + +NKID+
Sbjct: 303 PGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVPIIVAINKIDK 359
Score = 31.3 bits (71), Expect = 4.3
Identities = 12/22 (54%), Positives = 18/22 (81%), Gaps = 1/22 (4%)
Query: 403 VALVGHLHHGKTTMIDCLIRQT 424
V ++GH+ HGKTT++D IR+T
Sbjct: 247 VTILGHVDHGKTTLLD-KIRKT 267
>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 = 33.2 bits (76), Expect = 1.0
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 4/62 (6%)
Query: 397 PHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKAS 456
PH+ N+ +GH+ HGKTT+ + A + D E+ RG++I +
Sbjct: 11 PHV--NIGTIGHVDHGKTTLTAAITTVLAKEGG--AAARAYDQIDNAPEEKARGITINTA 66
Query: 457 PV 458
V
Sbjct: 67 HV 68
>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 = 1.1
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 230 DEVTAAMRLCDGVVLF-VDAAEGVMLNTERLLKHAVQEKMAITLCVNKID 278
++ A+ D V+LF VD EG+ E + K+ + K + L VNKID
Sbjct: 68 EQAEIAIEEAD-VILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKID 116
>gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Provisional.
Length = 632
Score = 33.0 bits (76), Expect = 1.1
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 17/65 (26%)
Query: 223 PGHVNFS-DEVTAAMRLCDGVVLFVDAAEGVMLNTER------LL--KHAVQEKMAITLC 273
PGH ++ + VT A D ++ VDA +GV+ T R LL +H + L
Sbjct: 112 PGHEQYTRNMVTGA-STADLAIILVDARKGVLTQTRRHSFIASLLGIRH-------VVLA 163
Query: 274 VNKID 278
VNK+D
Sbjct: 164 VNKMD 168
>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit
(eIF-2gamma; GTPase) [Translation, ribosomal structure
and biogenesis].
Length = 415
Score = 32.7 bits (75), Expect = 1.2
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 15/53 (28%)
Query: 402 NVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIK 454
N+ +VGH+ HGKTT+ L G +TD E +RG++IK
Sbjct: 12 NIGMVGHVDHGKTTLTKAL-----SGV----------WTDRHSEELKRGITIK 49
>gnl|CDD|223645 COG0572, Udk, Uridine kinase [Nucleotide transport and metabolism].
Length = 218
Score = 32.3 bits (74), Expect = 1.2
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 15/81 (18%)
Query: 594 IDQPIVKTSTITDLITNEDITSNKFLIDGFPRNQNNLDG----WNKEMADKVELLYVLFF 649
+D P+ T T + N +I ++G +++ + D ++L +F
Sbjct: 86 VDLPVYDYKTHTREPETIKVEPNDVVI---------VEGILLLYDERLRDLMDL--KIFV 134
Query: 650 DCPEDVCVRRCLKRGAEGSGR 670
D DV + R +KR + GR
Sbjct: 135 DTDADVRLIRRIKRDVQERGR 155
>gnl|CDD|234596 PRK00049, PRK00049, elongation factor Tu; Reviewed.
Length = 396
Score = 32.5 bits (75), Expect = 1.4
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 397 PHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKAS 456
PH+ NV +GH+ HGKTT+ + + AE K D E+ RG++I +
Sbjct: 11 PHV--NVGTIGHVDHGKTTLTAAITKVLAKKG--GAEAKAYDQIDKAPEEKARGITINTA 66
Query: 457 PV 458
V
Sbjct: 67 HV 68
>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 = 31.7 bits (72), Expect = 1.5
Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 7/65 (10%)
Query: 223 PGHVNFSD-----EVTAAMRLCDGVVLFVDAAEGVML--NTERLLKHAVQEKMAITLCVN 275
PG F +R D ++L VD+ + +L+ +E + I L N
Sbjct: 55 PGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPIILVGN 114
Query: 276 KIDRL 280
KID L
Sbjct: 115 KIDLL 119
>gnl|CDD|215046 PLN00066, PLN00066, PsbP domain-containing protein 4; Provisional.
Length = 262
Score = 31.7 bits (72), Expect = 2.1
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 127 ARSIWAFGPEVTGPNILVDDTLPSEVDK 154
+ I FGPE+ G + L EV +
Sbjct: 177 EKVISGFGPELIGEPVEEGKVLSMEVAE 204
Score = 31.7 bits (72), Expect = 2.1
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 1048 ARSIWAFGPEVTGPNILVDDTLPSEVDK 1075
+ I FGPE+ G + L EV +
Sbjct: 177 EKVISGFGPELIGEPVEEGKVLSMEVAE 204
>gnl|CDD|226593 COG4108, PrfC, Peptide chain release factor RF-3 [Translation,
ribosomal structure and biogenesis].
Length = 528
Score = 32.2 bits (74), Expect = 2.2
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 8/61 (13%)
Query: 223 PGHVNFSDE----VTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKID 278
PGH +FS++ +TA D V+ +DAA+G+ T +L + + I +NK+D
Sbjct: 89 PGHEDFSEDTYRTLTAV----DSAVMVIDAAKGIEPQTLKLFEVCRLRDIPIFTFINKLD 144
Query: 279 R 279
R
Sbjct: 145 R 145
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 30.7 bits (70), Expect = 2.3
Identities = 9/36 (25%), Positives = 17/36 (47%)
Query: 645 YVLFFDCPEDVCVRRCLKRGAEGSGRADDNEESLKK 680
+++ + PE+V R +R G +D E L +
Sbjct: 100 RIVYLEAPEEVLRERNAQRERSGGDPSDVPEAVLDR 135
>gnl|CDD|224081 COG1159, Era, GTPase [General function prediction only].
Length = 298
Score = 31.4 bits (72), Expect = 2.9
Identities = 21/72 (29%), Positives = 34/72 (47%)
Query: 231 EVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRLMLELKLPPQD 290
+A++ D ++ VDA EG E +L+ + K + L VNKID++ + L
Sbjct: 78 AARSALKDVDLILFVVDADEGWGPGDEFILEQLKKTKTPVILVVNKIDKVKPKTVLLKLI 137
Query: 291 AYYKIKHIIDEI 302
A+ K EI
Sbjct: 138 AFLKKLLPFKEI 149
>gnl|CDD|219206 pfam06863, DUF1254, Protein of unknown function (DUF1254). This
family represents a conserved region about 130 residues
long within hypothetical proteins of unknown function.
Family members include eukaryotic, bacterial and
archaeal proteins.
Length = 126
Score = 29.9 bits (68), Expect = 3.5
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 470 YLMNIFDTPASPVTLLLPDVKGKNYLMNIFDTPGMW 505
Y D PV + +PD G+ Y + + D W
Sbjct: 26 YSSAWLDLSDGPVVIEVPDTGGRYYSLQVLD---AW 58
>gnl|CDD|213207 cd03240, ABC_Rad50, ATP-binding cassette domain of Rad50. The
catalytic domains of Rad50 are similar to the
ATP-binding cassette of ABC transporters, but are not
associated with membrane-spanning domains. The conserved
ATP-binding motifs common to Rad50 and the ABC
transporter family include the Walker A and Walker B
motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known as
the ABC signature sequence.
Length = 204
Score = 30.7 bits (70), Expect = 3.6
Identities = 19/77 (24%), Positives = 27/77 (35%), Gaps = 11/77 (14%)
Query: 404 ALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKASPVTLLLP 463
+VG GKTT+I+ L P K + L E E +K L
Sbjct: 26 LIVGQNGAGKTTIIEALKYALTG--ELPPNSKGGAHDPKLIREGEVRAQVK-----LAFE 78
Query: 464 DVKGKNYL----MNIFD 476
+ GK Y + I +
Sbjct: 79 NANGKKYTITRSLAILE 95
>gnl|CDD|225401 COG2845, COG2845, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 354
Score = 30.9 bits (70), Expect = 4.6
Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 5/70 (7%)
Query: 485 LLPDVKGKNYLMNIFDTPGMWDIHVRKFSKKAAH--ASAQRSFVEFVLEPVYKLVAQVVG 542
D GK+++ D G + +R +K H +R ++ +P+ +
Sbjct: 270 GFVDEGGKDFVTTGVDINGQP-VRLR--AKDGIHFTKEGKRKLAFYLEKPIRAELETARP 326
Query: 543 DVDSSLPAVL 552
+D + P L
Sbjct: 327 GIDRTQPISL 336
>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 = 30.5 bits (70), Expect = 4.7
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 15/66 (22%)
Query: 402 NVALVGHLHHGKTTMIDCLI--------RQTHPGYRQPAEEKN-----LRYT-DTLFTEQ 447
N+ ++GH+ GK+T+ L+ R Y + A+E + D L E+
Sbjct: 1 NLVVIGHVDAGKSTLTGHLLYKLGGVDKRTIEK-YEKEAKEMGKESFKYAWVLDKLKEER 59
Query: 448 ERGVSI 453
ERGV+I
Sbjct: 60 ERGVTI 65
>gnl|CDD|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed.
Length = 394
Score = 31.1 bits (71), Expect = 4.7
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 397 PHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKAS 456
PH+ N+ +GH+ HGKTT+ + R + K+ D E+ERG++I +
Sbjct: 11 PHV--NIGTIGHVDHGKTTLTAAI--TKVLAERGLNQAKDYDSIDAAPEEKERGITINTA 66
Query: 457 PV 458
V
Sbjct: 67 HV 68
>gnl|CDD|235195 PRK04004, PRK04004, translation initiation factor IF-2; Validated.
Length = 586
Score = 30.9 bits (71), Expect = 5.5
Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 403 VALVGHLHHGKTTMIDCLIRQTHPGYRQP 431
V ++GH+ HGKTT++D IR T ++
Sbjct: 9 VVVLGHVDHGKTTLLD-KIRGTAVAAKEA 36
>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 = 29.9 bits (68), Expect = 5.9
Identities = 11/19 (57%), Positives = 14/19 (73%), Gaps = 2/19 (10%)
Query: 397 PHLIRNVALVGHLHHGKTT 415
PH+ NV +GH+ HGKTT
Sbjct: 1 PHV--NVGTIGHVDHGKTT 17
>gnl|CDD|183708 PRK12735, PRK12735, elongation factor Tu; Reviewed.
Length = 396
Score = 30.6 bits (70), Expect = 6.2
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 397 PHLIRNVALVGHLHHGKTTMIDCLIRQTHPGYRQPAEEKNLRYTDTLFTEQERGVSIKAS 456
PH+ NV +GH+ HGKTT+ + + E K D E+ RG++I S
Sbjct: 11 PHV--NVGTIGHVDHGKTTLTAAITKVLAKKGG--GEAKAYDQIDNAPEEKARGITINTS 66
Query: 457 PV 458
V
Sbjct: 67 HV 68
>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional.
Length = 447
Score = 30.6 bits (69), Expect = 6.9
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 395 DTPHLIRNVALVGHLHHGKTTM 416
PH+ NV +GH+ HGKTT+
Sbjct: 58 TKPHV--NVGTIGHVDHGKTTL 77
>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 = 30.6 bits (69), Expect = 7.3
Identities = 12/31 (38%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 403 VALVGHLHHGKTTMIDCLIRQTHPGYRQPAE 433
V+++GH+ HGKTT++D IR + R+
Sbjct: 7 VSVLGHVDHGKTTLLD-KIRGSAVAKREAGG 36
Score = 30.2 bits (68), Expect = 7.9
Identities = 19/58 (32%), Positives = 25/58 (43%)
Query: 223 PGHVNFSDEVTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKIDRL 280
PGH F++ L D +L VD EG T+ L K + NKIDR+
Sbjct: 77 PGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYKTPFVVAANKIDRI 134
>gnl|CDD|226974 COG4626, COG4626, Phage terminase-like protein, large subunit
[General function prediction only].
Length = 546
Score = 30.4 bits (69), Expect = 8.3
Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 9/87 (10%)
Query: 180 EPIRNVKFKIREGNLNSSPSIYCSNKSHSWEIVCTRNNNKCLPPGHVNFSDEVTAAMRLC 239
I+ ++ K+ EG L ++ N W C N G+ + +
Sbjct: 464 GAIKTIERKLAEGVL-----VHGDNPLMEW---CV-GNVVVEEKGNAIIITKKVSGNGKI 514
Query: 240 DGVVLFVDAAEGVMLNTERLLKHAVQE 266
D + V+A + LN E K E
Sbjct: 515 DPFMALVNAVSLMSLNPEDPKKKEYAE 541
>gnl|CDD|179105 PRK00741, prfC, peptide chain release factor 3; Provisional.
Length = 526
Score = 30.1 bits (69), Expect = 9.7
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 8/61 (13%)
Query: 223 PGHVNFSDE----VTAAMRLCDGVVLFVDAAEGVMLNTERLLKHAVQEKMAITLCVNKID 278
PGH +FS++ +TA D ++ +DAA+GV T +L++ I +NK+D
Sbjct: 87 PGHEDFSEDTYRTLTAV----DSALMVIDAAKGVEPQTRKLMEVCRLRDTPIFTFINKLD 142
Query: 279 R 279
R
Sbjct: 143 R 143
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
0.319 0.136 0.405
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: 66,363,192
Number of extensions: 6724655
Number of successful extensions: 5372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5221
Number of HSP's successfully gapped: 210
Length of query: 1291
Length of database: 10,937,602
Length adjustment: 108
Effective length of query: 1183
Effective length of database: 6,147,370
Effective search space: 7272338710
Effective search space used: 7272338710
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 65 (28.7 bits)