BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy10357
(252 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3J2K|7 Chain 7, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 439
Score = 293 bits (750), Expect = 7e-80, Method: Compositional matrix adjust.
Identities = 138/223 (61%), Positives = 170/223 (76%), Gaps = 2/223 (0%)
Query: 30 SGQMGQNLKEPVGPEICTWWKGGAFIPFIDALPSLNRKMDGPFLMPVVEKFKDMGTVVMG 89
SG G NLKE + C W+ G FIP++D LP+ NR +DGP +P+V+K+KDMGTVV+G
Sbjct: 205 SGLTGANLKEQ--SDFCPWYIGLPFIPYLDNLPNFNRSVDGPIRLPIVDKYKDMGTVVLG 262
Query: 90 KVESGEAKKGQSLVLMPNRTPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFV 149
K+ESG KGQ LV+MPN+ V V + SDD E V PGEN+K++LKGIEE+++ PGF+
Sbjct: 263 KLESGSIFKGQQLVMMPNKHNVEVLGILSDDTETDFVAPGENLKIRLKGIEEEEILPGFI 322
Query: 150 LCDPNNPARTARVFDAQIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEK 209
LCDP+N + R FD QIVI+EHKSIIC GY+AV+HIH EEV + ALI L+DKK+GEK
Sbjct: 323 LCDPSNLCHSGRTFDVQIVIIEHKSIICPGYNAVLHIHTCIEEVEITALISLVDKKSGEK 382
Query: 210 SKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRDE 252
SKTRPRFVKQDQ+ I RL AG ICL+ FK FPQMGRFTLRDE
Sbjct: 383 SKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDE 425
>pdb|3E1Y|E Chain E, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|F Chain F, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|G Chain G, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|H Chain H, Crystal Structure Of Human Erf1ERF3 COMPLEX
Length = 204
Score = 263 bits (671), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 121/185 (65%), Positives = 148/185 (80%)
Query: 68 MDGPFLMPVVEKFKDMGTVVMGKVESGEAKKGQSLVLMPNRTPVIVDQLWSDDEEVSSVG 127
+ P +P+V+K+KDMGTVV+GK+ESG KGQ LV+MPN+ V V + SDD E +V
Sbjct: 3 LGSPIRLPIVDKYKDMGTVVLGKLESGSICKGQQLVMMPNKHNVEVLGILSDDVETDTVA 62
Query: 128 PGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILEHKSIICAGYSAVMHIH 187
PGEN+K++LKGIEE+++ PGF+LCDPNN + R FDAQIVI+EHKSIIC GY+AV+HIH
Sbjct: 63 PGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFDAQIVIIEHKSIICPGYNAVLHIH 122
Query: 188 CVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRF 247
EEV + ALICL+DKK+GEKSKTRPRFVKQDQ+ I RL AG ICL+ FK FPQMGRF
Sbjct: 123 TCIEEVEITALICLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRF 182
Query: 248 TLRDE 252
TLRDE
Sbjct: 183 TLRDE 187
>pdb|1R5B|A Chain A, Crystal Structure Analysis Of Sup35
pdb|1R5N|A Chain A, Crystal Structure Analysis Of Sup35 Complexed With Gdp
pdb|1R5O|A Chain A, Crystal Structure Analysis Of Sup35 Complexed With Gmppnp
Length = 467
Score = 181 bits (458), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 87/224 (38%), Positives = 139/224 (62%), Gaps = 3/224 (1%)
Query: 30 SGQMGQNLKEPVGPEICTWWKGGAFIPFIDALPSLNRKMDGPFLMPVVEKFKDMGTVVMG 89
S GQN+K+ V +C W++G + + ++D++ L RK++ PF+MP+ K+KD+GT++ G
Sbjct: 232 SAYTGQNVKDRVDSSVCPWYQGPSLLEYLDSMTHLERKVNAPFIMPIASKYKDLGTILEG 291
Query: 90 KVESGEAKKGQSLVLMPNRTPVIVDQLWSD-DEEVSSVGPGENIKVKLKGIEEDDVSPGF 148
K+E+G KK ++++MP + V ++ + DEE+SS G+ ++++++G ++ DV G+
Sbjct: 292 KIEAGSIKKNSNVLVMPINQTLEVTAIYDEADEEISSSICGDQVRLRVRG-DDSDVQTGY 350
Query: 149 VLCDPNNPARTARVFDAQIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGE 208
VL NP F AQI ILE SI+ GYS VMHIH EEV+ L+ +D KT
Sbjct: 351 VLTSTKNPVHATTRFIAQIAILELPSILTTGYSCVMHIHTAVEEVSFAKLLHKLD-KTNR 409
Query: 209 KSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRDE 252
KSK P F + I LE +C+++F+ + MGRFTLRD+
Sbjct: 410 KSKKPPMFATKGMKIIAELETQTPVCMERFEDYQYMGRFTLRDQ 453
>pdb|3E20|A Chain A, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|D Chain D, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|E Chain E, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|J Chain J, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
Length = 201
Score = 145 bits (367), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 74/184 (40%), Positives = 113/184 (61%), Gaps = 3/184 (1%)
Query: 70 GPFLMPVVEKFKDMGTVVMGKVESGEAKKGQSLVLMPNRTPVIVDQLWSD-DEEVSSVGP 128
PF+MP+ K+KD+GT++ GK+E+G KK ++++MP + V ++ + DEE+SS
Sbjct: 6 APFIMPIASKYKDLGTILEGKIEAGSIKKNSNVLVMPINQTLEVTAIYDEADEEISSSIC 65
Query: 129 GENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILEHKSIICAGYSAVMHIHC 188
G+ ++++++G ++ DV G+VL NP F AQI ILE SI+ GYS VMHIH
Sbjct: 66 GDQVRLRVRG-DDSDVQTGYVLTSTKNPVHATTRFIAQIAILELPSILTTGYSCVMHIHT 124
Query: 189 VAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFT 248
EEV+ L+ +D KT KSK P F + I LE +C+++F+ + MGRFT
Sbjct: 125 AVEEVSFAKLLHKLD-KTNRKSKKPPMFATKGMKIIAELETQTPVCMERFEDYQYMGRFT 183
Query: 249 LRDE 252
LRD+
Sbjct: 184 LRDQ 187
>pdb|1JNY|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Elongation
Factor 1 Alpha In Complex With Gdp
pdb|1JNY|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Elongation
Factor 1 Alpha In Complex With Gdp
pdb|1SKQ|A Chain A, The Crystal Structure Of Sulfolobus Solfataricus
Elongation Factor 1-Alpha In Complex With Magnesium And
Gdp
pdb|1SKQ|B Chain B, The Crystal Structure Of Sulfolobus Solfataricus
Elongation Factor 1-Alpha In Complex With Magnesium And
Gdp
Length = 435
Score = 134 bits (336), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 69/232 (29%), Positives = 126/232 (54%), Gaps = 15/232 (6%)
Query: 26 IISPSG----QMGQNLKEPVGPEICTWWKGGAFIPFIDALPSLNRKMDGPFLMPV--VEK 79
+++PSG +N+K W+ G ++D L + +D P +P+ V
Sbjct: 192 VVAPSGDNITHKSENMK---------WYNGPTLEEYLDQLELPPKPVDKPLRIPIQDVYS 242
Query: 80 FKDMGTVVMGKVESGEAKKGQSLVLMPNRTPVIVDQLWSDDEEVSSVGPGENIKVKLKGI 139
+GTV +G+VESG K G +V MP V + + ++ PG+NI ++G+
Sbjct: 243 ISGVGTVPVGRVESGVLKVGDKIVFMPAGKVGEVRSIETHHTKMDKAEPGDNIGFNVRGV 302
Query: 140 EEDDVSPGFVLCDPNNPARTARVFDAQIVILEHKSIICAGYSAVMHIHCVAEEVNVKALI 199
E+ D+ G V+ PNNP A F A+I+++ H + + GY+ V+H+H + V L+
Sbjct: 303 EKKDIKRGDVVGHPNNPPTVADEFTARIIVVWHPTALANGYTPVLHVHTASVACRVSELV 362
Query: 200 CLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRD 251
+D +TG++++ P+F+KQ +AI++ + +C++++ FP +GRF +RD
Sbjct: 363 SKLDPRTGQEAEKNPQFLKQGDVAIVKFKPIKPLCVEKYNEFPPLGRFAMRD 414
>pdb|3AGJ|A Chain A, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|C Chain C, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|E Chain E, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|G Chain G, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
Length = 437
Score = 112 bits (279), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 62/209 (29%), Positives = 110/209 (52%), Gaps = 8/209 (3%)
Query: 48 WWKGGAFIPFIDALPSLNRKMDGPFLMPV--VEKFKDMGTVVMGKVESGEAKKGQSLVLM 105
W+ G + +D L + +D P +PV V GTV +G+VE+G + G +V M
Sbjct: 209 WYNGPTLVEALDQLQPPAKPVDKPLRIPVQNVYSIPGAGTVPVGRVETGVLRVGDKVVFM 268
Query: 106 PNRTPVIVDQLWSDD---EEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARV 162
P P +V ++ S + +++ PG+NI ++G+ + D+ G V + P A
Sbjct: 269 P---PGVVGEVRSIEMHYQQLQQAEPGDNIGFAVRGVSKSDIKRGDVAGHLDKPPTVAEE 325
Query: 163 FDAQIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQI 222
F+A+I ++ H S I GY+ V+H+H + + + +D KTG+ + P+F+K
Sbjct: 326 FEARIFVIWHPSAITVGYTPVIHVHTASVSSRIIEIKAKLDPKTGQVVEQNPQFLKAGDA 385
Query: 223 AIMRLEAAGVICLDQFKLFPQMGRFTLRD 251
AI+R + + +++F PQ+GRF +RD
Sbjct: 386 AIVRFKPVKPLVVEKFSEIPQLGRFAMRD 414
>pdb|3VMF|A Chain A, Archaeal Protein
Length = 440
Score = 112 bits (279), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 62/209 (29%), Positives = 110/209 (52%), Gaps = 8/209 (3%)
Query: 48 WWKGGAFIPFIDALPSLNRKMDGPFLMPV--VEKFKDMGTVVMGKVESGEAKKGQSLVLM 105
W+ G + +D L + +D P +PV V GTV +G+VE+G + G +V M
Sbjct: 212 WYNGPTLVEALDQLQPPAKPVDKPLRIPVQNVYSIPGAGTVPVGRVETGVLRVGDKVVFM 271
Query: 106 PNRTPVIVDQLWSDD---EEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARV 162
P P +V ++ S + +++ PG+NI ++G+ + D+ G V + P A
Sbjct: 272 P---PGVVGEVRSIEMHYQQLQQAEPGDNIGFAVRGVSKSDIKRGDVAGHLDKPPTVAEE 328
Query: 163 FDAQIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQI 222
F+A+I ++ H S I GY+ V+H+H + + + +D KTG+ + P+F+K
Sbjct: 329 FEARIFVIWHPSAITVGYTPVIHVHTASVSSRIIEIKAKLDPKTGQVVEQNPQFLKAGDA 388
Query: 223 AIMRLEAAGVICLDQFKLFPQMGRFTLRD 251
AI+R + + +++F PQ+GRF +RD
Sbjct: 389 AIVRFKPVKPLVVEKFSEIPQLGRFAMRD 417
>pdb|1F60|A Chain A, Crystal Structure Of The Yeast Elongation Factor Complex
Eef1a:eef1ba
pdb|1G7C|A Chain A, Yeast Eef1a:eef1ba In Complex With Gdpnp
pdb|1IJE|A Chain A, Nucleotide Exchange Intermediates In The Eef1a-eef1ba
Complex
pdb|1IJF|A Chain A, Nucleotide Exchange Mechanisms In The Eef1a-Eef1ba Complex
pdb|2B7B|A Chain A, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a And Gdp
pdb|2B7C|A Chain A, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a
Length = 458
Score = 103 bits (257), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 59/205 (28%), Positives = 103/205 (50%), Gaps = 3/205 (1%)
Query: 50 KGGAFIPFIDALPSLNRKMDGPFLMPV--VEKFKDMGTVVMGKVESGEAKKGQSLVLMPN 107
KG + IDA+ +R D P +P+ V K +GTV +G+VE+G K G + P
Sbjct: 222 KGKTLLEAIDAIEQPSRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFAPA 281
Query: 108 RTPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDP-NNPARTARVFDAQ 166
V + E++ PG+N+ +K + ++ G V D N+P + F+A
Sbjct: 282 GVTTEVKSVEMHHEQLEQGVPGDNVGFNVKNVSVKEIRRGNVCGDAKNDPPKGCASFNAT 341
Query: 167 IVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMR 226
+++L H I AGYS V+ H L+ D+++G+K + P+F+K A+++
Sbjct: 342 VIVLNHPGQISAGYSPVLDCHTAHIACRFDELLEKNDRRSGKKLEDHPKFLKSGDAALVK 401
Query: 227 LEAAGVICLDQFKLFPQMGRFTLRD 251
+ +C++ F +P +GRF +RD
Sbjct: 402 FVPSKPMCVEAFSEYPPLGRFAVRD 426
>pdb|3MCA|A Chain A, Structure Of The Dom34-Hbs1 Complex And Implications For
Its Role In No-Go Decay
Length = 592
Score = 67.8 bits (164), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 58/250 (23%), Positives = 113/250 (45%), Gaps = 10/250 (4%)
Query: 3 ESVKYAVSFWQPKLWTVRQEILLIISPSGQMGQNLKEPVGPEICTWWKGGAFIPFIDALP 62
+ +K VS + K+ + + + S G NL + ++ W+KG + +D L
Sbjct: 336 QEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQKDSSDLYKWYKGPTLLSALDQLV 395
Query: 63 SLNRKMDGPFLMPVVEKFKDMGTV-VMGKVESGEAKKGQSLVLMPNRTPVIVDQLWSDDE 121
+ P + + + ++ +V V G+VE+G + Q L + ++ V + + +
Sbjct: 396 PPEKPYRKPLRLSIDDVYRSPRSVTVTGRVEAGNVQVNQVLYDVSSQEDAYVKNVIRNSD 455
Query: 122 EVSS-VGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILEHKSIICAGY 180
S+ G+ + ++L IE + + PG +L + NP R R F A+I + I +G
Sbjct: 456 PSSTWAVAGDTVTLQLADIEVNQLRPGDILSNYENPVRRVRSFVAEIQTFDIHGPILSGS 515
Query: 181 SAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKL 240
+ V+H+ V++K I ++ K +R R + + I L+ +CL +
Sbjct: 516 TLVLHLGRTVTSVSLK--IVTVNNKRSRHIASRKRAL----VRISFLDGLFPLCLAE--E 567
Query: 241 FPQMGRFTLR 250
P +GRF LR
Sbjct: 568 CPALGRFILR 577
>pdb|3P27|A Chain A, Crystal Structure Of S. Cerevisiae Hbs1 Protein (Gdp-Bound
Form), A Translational Gtpase Involved In Rna Quality
Control Pathways And Interacting With Dom34PELOTA
pdb|3P27|B Chain B, Crystal Structure Of S. Cerevisiae Hbs1 Protein (Gdp-Bound
Form), A Translational Gtpase Involved In Rna Quality
Control Pathways And Interacting With Dom34PELOTA
Length = 483
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 51/200 (25%), Positives = 87/200 (43%), Gaps = 16/200 (8%)
Query: 69 DGPFLMPVVE-----KFKDMGTVVMGKVESGEAKKGQSLVLMPNRTPVIVDQLW------ 117
D PFL V+E K + +V GK+ESG + G+SL + P+ IVD++
Sbjct: 264 DDPFLFSVLEIIPSKKTSNDLALVSGKLESGSIQPGESLTIYPSEQSCIVDKIQVGSQQG 323
Query: 118 --SDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPA-RTARVFDAQIVILEHKS 174
++ EE G+ + +KL+ +D+ G + + + +A+ F ++ +
Sbjct: 324 QSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGDLAASVDYSSIHSAQCFVLELTTFDXNR 383
Query: 175 IICAGYSAVMHIHCVAEEVNVKALICLIDK-KTGEKSKTRPRFVKQDQ-IAIMRLEAAGV 232
+ G ++ I + +K LI IDK T K K R KQ + I +E
Sbjct: 384 PLLPGTPFILFIGVKEQPARIKRLISFIDKGNTASKKKIRHLGSKQRAFVEIELIEVKRW 443
Query: 233 ICLDQFKLFPQMGRFTLRDE 252
I L ++GR LR +
Sbjct: 444 IPLLTAHENDRLGRVVLRKD 463
>pdb|3P26|A Chain A, Crystal Structure Of S. Cerevisiae Hbs1 Protein
(Apo-Form), A Translational Gtpase Involved In Rna
Quality Control Pathways And Interacting With
Dom34PELOTA
pdb|3P26|B Chain B, Crystal Structure Of S. Cerevisiae Hbs1 Protein
(Apo-Form), A Translational Gtpase Involved In Rna
Quality Control Pathways And Interacting With
Dom34PELOTA
Length = 483
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 56/227 (24%), Positives = 97/227 (42%), Gaps = 19/227 (8%)
Query: 42 GPEICTWWKGGAFIPFIDALPSLNRKMDGPFLMPVVE-----KFKDMGTVVMGKVESGEA 96
GP + + + AF +N+ D PFL V+E K + +V GK+ESG
Sbjct: 240 GPNLMSTLENAAF-KISKENEGINK--DDPFLFSVLEIIPSKKTSNDLALVSGKLESGSI 296
Query: 97 KKGQSLVLMPNRTPVIVDQLW--------SDDEEVSSVGPGENIKVKLKGIEEDDVSPGF 148
+ G+SL + P+ IVD++ ++ EE G+ + +KL+ +D+ G
Sbjct: 297 QPGESLTIYPSEQSCIVDKIQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGD 356
Query: 149 VLCDPNNPA-RTARVFDAQIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDK-KT 206
+ + + +A+ F ++ + + G ++ I + +K LI IDK T
Sbjct: 357 LAASVDYSSIHSAQCFVLELTTFDMNRPLLPGTPFILFIGVKEQPARIKRLISFIDKGNT 416
Query: 207 GEKSKTRPRFVKQDQ-IAIMRLEAAGVICLDQFKLFPQMGRFTLRDE 252
K K R KQ + I +E I L ++GR LR +
Sbjct: 417 ASKKKIRHLGSKQRAFVEIELIEVKRWIPLLTAHENDRLGRVVLRKD 463
>pdb|3IZQ|1 Chain 1, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A
Translating Ribosome
Length = 611
Score = 50.4 bits (119), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 56/225 (24%), Positives = 96/225 (42%), Gaps = 19/225 (8%)
Query: 42 GPEICTWWKGGAFIPFIDALPSLNRKMDGPFLMPVVE-----KFKDMGTVVMGKVESGEA 96
GP + + + AF +N+ D PFL V+E K + +V GK+ESG
Sbjct: 374 GPNLMSTLENAAF-KISKENEGINK--DDPFLFSVLEIIPSKKTSNDLALVSGKLESGSI 430
Query: 97 KKGQSLVLMPNRTPVIVDQLW--------SDDEEVSSVGPGENIKVKLKGIEEDDVSPGF 148
+ G+SL + P+ IVD++ ++ EE G+ + +KL+ +D+ G
Sbjct: 431 QPGESLTIYPSEQSCIVDKIQVGSQQGQSTNHEETDVAIKGDFVTLKLRKAYPEDIQNGD 490
Query: 149 VLCDPNNPA-RTARVFDAQIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDK-KT 206
+ + + +A+ F ++ + + G ++ I + +K LI IDK T
Sbjct: 491 LAASVDYSSIHSAQCFVLELTTFDMNRPLLPGTPFILFIGVKEQPARIKRLISFIDKGNT 550
Query: 207 GEKSKTRPRFVKQDQ-IAIMRLEAAGVICLDQFKLFPQMGRFTLR 250
K K R KQ + I +E I L ++GR LR
Sbjct: 551 ASKKKIRHLGSKQRAFVEIELIEVKRWIPLLTAHENDRLGRVVLR 595
>pdb|1EXM|A Chain A, Crystal Structure Of Thermus Thermophilus Elongation
Factor Tu (Ef-Tu) In Complex With The Gtp Analogue
Gppnhp.
pdb|1HA3|A Chain A, Elongation Factor Tu In Complex With Aurodox
pdb|1HA3|B Chain B, Elongation Factor Tu In Complex With Aurodox
pdb|3FIC|Z Chain Z, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 30s Subunit
And The Ligands
pdb|2XQD|Z Chain Z, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
Length = 405
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 6/118 (5%)
Query: 59 DALPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIV 113
+ +P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 208 EYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVV 267
Query: 114 DQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ V L+G+ ++V G VL P + + F+A + +L+
Sbjct: 268 TGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 324
>pdb|2C77|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic
Ge2270 A
Length = 405
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 6/118 (5%)
Query: 59 DALPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIV 113
+ +P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 208 EYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVV 267
Query: 114 DQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ V L+G+ ++V G VL P + + F+A + +L+
Sbjct: 268 TGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 324
>pdb|2Y0U|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0W|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
Length = 405
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 58/116 (50%), Gaps = 6/116 (5%)
Query: 61 LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIVDQ 115
+P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 210 IPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVVTG 269
Query: 116 LWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ V L+G+ ++V G VL P + + F+A + +L+
Sbjct: 270 VEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 324
>pdb|2C78|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic
Pulvomycin
Length = 405
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 58/116 (50%), Gaps = 6/116 (5%)
Query: 61 LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIVDQ 115
+P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 210 IPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVVTG 269
Query: 116 LWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ V L+G+ ++V G VL P + + F+A + +L+
Sbjct: 270 VEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 324
>pdb|2WRN|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 1 Of 4).
pdb|2WRQ|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 3 Of 4)
Length = 406
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 6/118 (5%)
Query: 59 DALPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIV 113
+ +P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 209 EYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRRTVV 268
Query: 114 DQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ V L+G+ ++V G VL P + + F+A + +L+
Sbjct: 269 TGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 325
>pdb|2Y0Y|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y10|Z Chain Z, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y12|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y14|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y16|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y18|Z Chain Z, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome
Length = 405
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 58/116 (50%), Gaps = 6/116 (5%)
Query: 61 LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIVDQ 115
+P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 210 IPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRRTVVTG 269
Query: 116 LWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ V L+G+ ++V G VL P + + F+A + +L+
Sbjct: 270 VEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 324
>pdb|1AIP|A Chain A, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|B Chain B, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|E Chain E, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|F Chain F, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
Length = 405
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 6/118 (5%)
Query: 59 DALPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIV 113
+ +P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 208 EYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRRTVV 267
Query: 114 DQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ V L+G+ ++V G VL P + + F+A + +L+
Sbjct: 268 TGVEMHRKTLQEGIAGDNVGVLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 324
>pdb|4ABR|Z Chain Z, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
Length = 405
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 6/118 (5%)
Query: 59 DALPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIV 113
+ +P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 208 EYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVV 267
Query: 114 DQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ + L+G+ ++V G VL P + + F+A + IL+
Sbjct: 268 TGVEMHRKTLQEGIAGDNVGLLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYILK 324
>pdb|1TTT|A Chain A, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex
pdb|1TTT|B Chain B, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex
pdb|1TTT|C Chain C, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex
pdb|1TUI|A Chain A, Intact Elongation Factor Tu In Complex With Gdp
pdb|1TUI|B Chain B, Intact Elongation Factor Tu In Complex With Gdp
pdb|1TUI|C Chain C, Intact Elongation Factor Tu In Complex With Gdp
pdb|1B23|P Chain P, E. Coli Cysteinyl-Trna And T. Aquaticus Elongation Factor
Ef-Tu:gtp Ternary Complex
pdb|1ZC8|Y Chain Y, Coordinates Of Tmrna, Smpb, Ef-tu And H44 Fitted Into
Cryo- Em Map Of The 70s Ribosome And Tmrna Complex
pdb|1OB5|A Chain A, T. Aquaticus Elongation Factor Ef-Tu Complexed With The
Antibiotic Enacyloxin Iia, A Gtp Analog, And Phe-Trna
pdb|1OB5|C Chain C, T. Aquaticus Elongation Factor Ef-Tu Complexed With The
Antibiotic Enacyloxin Iia, A Gtp Analog, And Phe-Trna
pdb|1OB5|E Chain E, T. Aquaticus Elongation Factor Ef-Tu Complexed With The
Antibiotic Enacyloxin Iia, A Gtp Analog, And Phe-Trna
Length = 405
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 6/118 (5%)
Query: 59 DALPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIV 113
+ +P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 208 EYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVV 267
Query: 114 DQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ + L+G+ ++V G VL P + + F+A + IL+
Sbjct: 268 TGVEMHRKTLQEGIAGDNVGLLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYILK 324
>pdb|1EFT|A Chain A, The Crystal Structure Of Elongation Factor Ef-Tu From
Thermus Aquaticus In The Gtp Conformation
Length = 405
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 33/118 (27%), Positives = 59/118 (50%), Gaps = 6/118 (5%)
Query: 59 DALPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLV---LMPNRTPVIV 113
+ +P+ R +D PFLMPV + F GTV G++E G+ K G + L P +V
Sbjct: 208 EYIPTPVRDVDKPFLMPVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLAPETRKTVV 267
Query: 114 DQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ + + G+N+ + L+G+ ++V G VL P + + F+A + +L+
Sbjct: 268 TGVEMHRKTLQEGIAGDNVGLLLRGVSREEVERGQVLAKPGSITPHTK-FEASVYVLK 324
>pdb|1EFM|A Chain A, Structure Of The Gdp Domain Of Ef-Tu And Location Of The
Amino Acids Homologous To Ras Oncogene Proteins
Length = 379
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 180 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 239
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 240 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGTIKPHTK-FESEVY 295
Query: 169 IL 170
IL
Sbjct: 296 IL 297
>pdb|1EFC|A Chain A, Intact Elongation Factor From E.Coli
pdb|1EFC|B Chain B, Intact Elongation Factor From E.Coli
pdb|1LS2|A Chain A, Fitting Of Ef-Tu And Trna In The Low Resolution Cryo-Em
Map Of An Ef-Tu Ternary Complex (Gdp And Kirromycin)
Bound To E. Coli 70s Ribosome
pdb|1QZD|A Chain A, Ef-Tu.Kirromycin Coordinates Fitted Into The Cryo-Em Map
Of Ef-Tu Ternary Complex (Gdp.Kirromycin) Bound 70s
Ribosome
pdb|2BVN|A Chain A, E. Coli Ef-Tu:gdpnp In Complex With The Antibiotic
Enacyloxin Iia
pdb|2BVN|B Chain B, E. Coli Ef-Tu:gdpnp In Complex With The Antibiotic
Enacyloxin Iia
pdb|3EP2|X Chain X, Model Of Phe-Trna(Phe) In The Ribosomal Pre-Accommodated
State Revealed By Cryo-Em
pdb|3EQ3|X Chain X, Model Of Trna(Trp)-Ef-Tu In The Ribosomal Pre-Accommodated
State Revealed By Cryo-Em
pdb|3EQ4|X Chain X, Model Of Trna(Leu)-Ef-Tu In The Ribosomal Pre-Accommodated
State Revealed By Cryo-Em
pdb|3FIH|Z Chain Z, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 30s Subunit, Trnas And The Ternary
Complex.
pdb|3IZV|C Chain C, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Small Subunit Of A Ribosome Programmed With A
Near-Cognate Codon, AT-Site Trna, P-Site Trna, Mrna And
Ef-Tu
pdb|3IZW|C Chain C, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding.This Entry Contains The
Small Subunit Of A Ribosome Programmed With A Cognate
Codon, AT-Site Trna, P-Site Trna, Mrna And Ef-Tu
Length = 393
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 194 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 253
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 254 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 309
Query: 169 IL 170
IL
Sbjct: 310 IL 311
>pdb|3U6B|A Chain A, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028
pdb|3U6B|B Chain B, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028
pdb|3U6K|A Chain A, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldk733
pdb|3U6K|B Chain B, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldk733
pdb|3U2Q|A Chain A, Ef-Tu (Escherichia Coli) In Complex With Nvp-Lff571
pdb|4G5G|A Chain A, Ef-Tu (Escherichia Coli) Complexed With Nvp-Ldu796
Length = 394
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 195 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 254
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 255 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 310
Query: 169 IL 170
IL
Sbjct: 311 IL 312
>pdb|1DG1|G Chain G, Whole, Unmodified, Ef-Tu(Elongation Factor Tu).
pdb|1DG1|H Chain H, Whole, Unmodified, Ef-Tu(Elongation Factor Tu)
Length = 394
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 195 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 254
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 255 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 310
Query: 169 IL 170
IL
Sbjct: 311 IL 312
>pdb|1OB2|A Chain A, E. Coli Elongation Factor Ef-Tu Complexed With The
Antibiotic Kirromycin, A Gtp Analog, And Phe-Trna
Length = 393
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 194 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 253
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 254 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 309
Query: 169 IL 170
IL
Sbjct: 310 IL 311
>pdb|1D8T|A Chain A, Crystal Structure Of Elongation Factor, Tu (Ef-Tu-Mggdp)
Complexed With Ge2270a, A Thiazolyl Peptide Antibiotic
pdb|1D8T|B Chain B, Crystal Structure Of Elongation Factor, Tu (Ef-Tu-Mggdp)
Complexed With Ge2270a, A Thiazolyl Peptide Antibiotic
pdb|2FX3|A Chain A, Crystal Structure Determination Of E. Coli Elongation
Factor, Tu Using A Twinned Data Set
pdb|1ETU|A Chain A, Structural Details Of The Binding Of Guanosine Diphosphate
To Elongation Factor Tu From E. Coli As Studied By X-Ray
Crystallography
Length = 393
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 194 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 253
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 254 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 309
Query: 169 IL 170
IL
Sbjct: 310 IL 311
>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
pdb|3MMP|C Chain C, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
Length = 678
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 479 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 538
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 539 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGTIKPHTK-FESEVY 594
Query: 169 IL 170
IL
Sbjct: 595 IL 596
>pdb|2HDN|B Chain B, Trypsin-Modified Elongation Factor Tu In Complex With
Tetracycline At 2.8 Angstrom Resolution
pdb|2HDN|D Chain D, Trypsin-Modified Elongation Factor Tu In Complex With
Tetracycline At 2.8 Angstrom Resolution
pdb|2HDN|F Chain F, Trypsin-Modified Elongation Factor Tu In Complex With
Tetracycline At 2.8 Angstrom Resolution
pdb|2HDN|H Chain H, Trypsin-Modified Elongation Factor Tu In Complex With
Tetracycline At 2.8 Angstrom Resolution
pdb|2HDN|J Chain J, Trypsin-Modified Elongation Factor Tu In Complex With
Tetracycline At 2.8 Angstrom Resolution
pdb|2HDN|L Chain L, Trypsin-Modified Elongation Factor Tu In Complex With
Tetracycline At 2.8 Angstrom Resolution
Length = 335
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 136 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 195
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 196 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 251
Query: 169 IL 170
IL
Sbjct: 252 IL 253
>pdb|1EFU|A Chain A, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
pdb|1EFU|C Chain C, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
Length = 385
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 186 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 245
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 246 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 301
Query: 169 IL 170
IL
Sbjct: 302 IL 303
>pdb|2HCJ|B Chain B, "trypsin-Modified Elongation Factor Tu In Complex With
Tetracycline"
Length = 335
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 136 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 195
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 196 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGT-IKPHTKFESEVY 251
Query: 169 IL 170
IL
Sbjct: 252 IL 253
>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I
pdb|3AGQ|A Chain A, Structure Of Viral Polymerase Form Ii
pdb|3AVT|A Chain A, Structure Of Viral Rna Polymerase Complex 1
pdb|3AVU|A Chain A, Structure Of Viral Rna Polymerase Complex 2
pdb|3AVV|A Chain A, Structure Of Viral Rna Polymerase Complex 3
pdb|3AVW|A Chain A, Structure Of Viral Rna Polymerase Complex 4
pdb|3AVX|A Chain A, Structure Of Viral Rna Polymerase Complex 5
pdb|3AVY|A Chain A, Structure Of Viral Rna Polymerase Complex 6
pdb|3VNU|A Chain A, Complex Structure Of Viral Rna Polymerase I
pdb|3VNV|A Chain A, Complex Structure Of Viral Rna Polymerase Ii
pdb|4FWT|A Chain A, Complex Structure Of Viral Rna Polymerase Form Iii
Length = 1289
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 12/122 (9%)
Query: 57 FIDA-LPSLNRKMDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQSLVLM-----PNR 108
F+D+ +P R +D PFL+P+ + F GTVV G+VE G K G+ + ++
Sbjct: 479 FLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKS 538
Query: 109 TPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIV 168
T V+ +E + GEN+ V L+GI+ +++ G VL P + F++++
Sbjct: 539 TCTGVEMFRKLLDEGRA---GENVGVLLRGIKREEIERGQVLAKPGTIKPHTK-FESEVY 594
Query: 169 IL 170
IL
Sbjct: 595 IL 596
>pdb|1D2E|A Chain A, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
pdb|1D2E|B Chain B, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
pdb|1D2E|C Chain C, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
pdb|1D2E|D Chain D, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
Length = 397
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 56/114 (49%), Gaps = 5/114 (4%)
Query: 61 LPSLNRKMDGPFLMPV--VEKFKDMGTVVMGKVESGEAKKGQSLVLMPNRTPV--IVDQL 116
+P R ++ PFL+PV V GTVV G +E G KKG + + + +V +
Sbjct: 193 IPVPTRDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLGHSKNIRTVVTGI 252
Query: 117 WSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVIL 170
+ + G+N+ ++G++ +D+ G V+ P + +V +AQ+ IL
Sbjct: 253 EMFHKSLDRAEAGDNLGALVRGLKREDLRRGLVMAKPGSIQPHQKV-EAQVYIL 305
>pdb|1XB2|A Chain A, Crystal Structure Of Bos Taurus Mitochondrial Elongation
Factor TuTS COMPLEX
Length = 409
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 55/114 (48%), Gaps = 5/114 (4%)
Query: 61 LPSLNRKMDGPFLMPV--VEKFKDMGTVVMGKVESGEAKKGQSLVLMPNRTPV--IVDQL 116
+P R ++ PFL+PV V GTVV G +E G KKG + + + +V +
Sbjct: 204 IPVPTRDLEKPFLLPVESVYSIPGRGTVVTGTLERGILKKGDECEFLGHSKNIRTVVTGI 263
Query: 117 WSDDEEVSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVIL 170
+ + G+N+ ++G++ +D+ G V P + +V +AQ+ IL
Sbjct: 264 EXFHKSLDRAEAGDNLGALVRGLKREDLRRGLVXAKPGSIQPHQKV-EAQVYIL 316
>pdb|1MJ1|A Chain A, Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIBOSOMAL
PROTEINS Into A 13 A Cryo-Em Map Of The Coli 70s
Ribosome
Length = 405
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/169 (24%), Positives = 76/169 (44%), Gaps = 15/169 (8%)
Query: 11 FWQPKLWTVRQEILLIISPSGQMGQNLKEPVGPE--ICTWWKGGAFIPFIDA-LPSLNRK 67
F ++ +R LL + +M +N K G + W+ + ID + + R
Sbjct: 163 FRGDEVRVIRGSALLALE---EMHKNRKTKRGENEWVDKIWE---LLDAIDEYIRTRVRD 216
Query: 68 MDGPFLMPVVEKFK--DMGTVVMGKVESGEAKKGQ--SLVLMPNRT-PVIVDQLWSDDEE 122
+D FLM V + F GTV G++E G+ K G +V + T +V + +
Sbjct: 217 VDKRFLMRVEDVFTITGRGTVATGRIERGKVKVGDEVEIVGLARETRKTVVTGVEMHRKT 276
Query: 123 VSSVGPGENIKVKLKGIEEDDVSPGFVLCDPNNPARTARVFDAQIVILE 171
+ G+N+ + L+G+ ++V G VL + R + F+A + IL+
Sbjct: 277 LQEGIAGDNVGLLLRGVSREEVERGQVLAKRGSITRHTK-FEASVYILK 324
>pdb|1ZUN|B Chain B, Crystal Structure Of A Gtp-Regulated Atp Sulfurylase
Heterodimer From Pseudomonas Syringae
Length = 434
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 41/80 (51%), Gaps = 2/80 (2%)
Query: 89 GKVESGEAKKGQSLVLMPNRTPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDDVSPGF 148
G + SG KG +V++P+ V + + + E+ GPG+ V L +E D+S G
Sbjct: 263 GTLASGIVHKGDEIVVLPSGKSSRVKSIVTFEGELEQAGPGQ--AVTLTXEDEIDISRGD 320
Query: 149 VLCDPNNPARTARVFDAQIV 168
+L +N + + FDA +V
Sbjct: 321 LLVHADNVPQVSDAFDAXLV 340
>pdb|2ELF|A Chain A, Crystal Structure Of The Selb-Like Elongation Factor
Ef-Pyl From Methanosarcina Mazei
Length = 370
Score = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 34/69 (49%)
Query: 84 GTVVMGKVESGEAKKGQSLVLMPNRTPVIVDQLWSDDEEVSSVGPGENIKVKLKGIEEDD 143
G VV+G V+ G +K + P + + + S D ++ S G + +LK ++ D
Sbjct: 207 GCVVLGVVKQGISKDKDKTKIFPLDRDIEIRSIQSHDVDIDSAPAGTRVGXRLKNVQAKD 266
Query: 144 VSPGFVLCD 152
+ GF++ D
Sbjct: 267 IERGFIISD 275
>pdb|2PN1|A Chain A, Crystal Structure Of Carbamoylphosphate Synthase Large
Subunit (Split Gene In Mj) (Zp_00538348.1) From
Exiguobacterium Sp. 255-15 At 2.00 A Resolution
Length = 331
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 185 HIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLF 241
H+ + ++ V AL+ LID + G ++ RF I+ AA +C D++ +
Sbjct: 63 HLLTLCQDEGVTALLTLIDPELGLLAQATERFQAIGVTVIVSPYAACELCFDKYTXY 119
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.138 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,637,735
Number of Sequences: 62578
Number of extensions: 315820
Number of successful extensions: 663
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 575
Number of HSP's gapped (non-prelim): 46
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)