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= psy15138
(320 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PMD|A Chain A, The Structures Of Aif2gamma Subunit From The Archaeon
Sulfolobus Solfataricus In The Gdp-Bound Form.
pdb|2PMD|B Chain B, The Structures Of Aif2gamma Subunit From The Archaeon
Sulfolobus Solfataricus In The Gdp-Bound Form.
pdb|3CW2|A Chain A, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|B Chain B, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|E Chain E, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|F Chain F, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3I1F|A Chain A, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus In Complex With Gpp(Ch2)p
pdb|3I1F|B Chain B, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus In Complex With Gpp(Ch2)p
pdb|3P3M|A Chain A, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|B Chain B, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|C Chain C, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|D Chain D, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|E Chain E, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|F Chain F, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3QSY|A Chain A, Recognition Of The Methionylated Initiator Trna By The
Translation Initiation Factor 2 In Archaea
Length = 415
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 48/115 (41%), Gaps = 26/115 (22%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFD 261
E+ + VVG+VD GK+TL+ +T G K H E++ G T +G
Sbjct: 9 EVNIGVVGHVDHGKTTLVQAIT--------GIWTSK---HSEELKRGMTIKLGYAETNI- 56
Query: 262 SVGNVVNKPEH----------GSLDWVKICERSAKVITFIDLAGHERYLKTTVFG 306
V KPE GS D K R I+FID GHE + T + G
Sbjct: 57 GVCESCKKPEAYVTEPSCKSCGSDDEPKFLRR----ISFIDAPGHEVLMATMLSG 107
>pdb|2AHO|A Chain A, Structure Of The Archaeal Initiation Factor Eif2 Alpha-
Gamma Heterodimer From Sulfolobus Solfataricus Complexed
With Gdpnp
pdb|2PLF|A Chain A, The Structure Of Aif2gamma Subunit From The Archaeon
Sulfolobus Solfataricus In The Nucleotide-Free Form.
pdb|2QMU|A Chain A, Structure Of An Archaeal Heterotrimeric Initiation Factor
2 Reveals A Nucleotide State Between The Gtp And The Gdp
States
pdb|2QN6|A Chain A, Structure Of An Archaeal Heterotrimeric Initiation Factor
2 Reveals A Nucleotide State Between The Gtp And The Gdp
States
pdb|3V11|A Chain A, Structure Of The Ternary Initiation Complex
Aif2:gdpnp:methionylated Initiator Trna
Length = 414
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 48/115 (41%), Gaps = 26/115 (22%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFD 261
E+ + VVG+VD GK+TL+ +T G K H E++ G T +G
Sbjct: 8 EVNIGVVGHVDHGKTTLVQAIT--------GIWTSK---HSEELKRGMTIKLGYAETNI- 55
Query: 262 SVGNVVNKPEH----------GSLDWVKICERSAKVITFIDLAGHERYLKTTVFG 306
V KPE GS D K R I+FID GHE + T + G
Sbjct: 56 GVCESCKKPEAYVTEPSCKSCGSDDEPKFLRR----ISFIDAPGHEVLMATMLSG 106
>pdb|1KJZ|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi-G235d Mutant
pdb|1KK1|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi-G235d Mutant Complexed With
Gdpnp-Mg2+
pdb|1KK2|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi-G235d Mutant Complexed With
Gdp-Mg2+
Length = 410
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 44/113 (38%), Gaps = 23/113 (20%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFD 261
E+ + +VG+VD GK+TL LT D H E+ G T +G
Sbjct: 10 EVNIGMVGHVDHGKTTLTKALTGVWTDT-----------HSEELRRGITIKIGF------ 52
Query: 262 SVGNVVNKPEHGSLDWVKICERSA------KVITFIDLAGHERYLKTTVFGMT 308
+ + P G +C + ++FID GHE + T + G +
Sbjct: 53 ADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTTMLAGAS 105
>pdb|1KK3|A Chain A, Structure Of The Wild-Type Large Gamma Subunit Of
Initiation Factor Eif2 From Pyrococcus Abyssi Complexed
With Gdp-Mg2+
Length = 410
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 44/113 (38%), Gaps = 23/113 (20%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFD 261
E+ + +VG+VD GK+TL LT D H E+ G T +G
Sbjct: 10 EVNIGMVGHVDHGKTTLTKALTGVWTDT-----------HSEELRRGITIKIGF------ 52
Query: 262 SVGNVVNKPEHGSLDWVKICERSA------KVITFIDLAGHERYLKTTVFGMT 308
+ + P G +C + ++FID GHE + T + G +
Sbjct: 53 ADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTTMLAGAS 105
>pdb|3SJZ|A Chain A, The Structure Of Aif2gamma Subunit Delta 41-45 From
Archaeon Sulfolobus Solfataricus Complexed With Gdp And
Gdpnp
Length = 409
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 47/115 (40%), Gaps = 31/115 (26%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFD 261
E+ + VVG+VD GK+TL+ +T ++ KH E+ + +I
Sbjct: 8 EVNIGVVGHVDHGKTTLVQAITG-------------IWTSKHSEETIKLGYAETNI---- 50
Query: 262 SVGNVVNKPEH----------GSLDWVKICERSAKVITFIDLAGHERYLKTTVFG 306
V KPE GS D K R I+FID GHE + T + G
Sbjct: 51 GVCESCKKPEAYVTEPSCKSCGSDDEPKFLRR----ISFIDAPGHEVLMATMLSG 101
>pdb|1S0U|A Chain A, Eif2gamma Apo
Length = 408
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 46/111 (41%), Gaps = 19/111 (17%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGN---DIL 258
E+ + +VG+VD GK++L LT D RH E+ G + +G +I
Sbjct: 8 EVNIGMVGHVDHGKTSLTKALTGVWTD-----------RHSEELRRGISIRLGYADCEIR 56
Query: 259 GFDSVGNVVNKPE-HGSLDWVKICERSAKVITFIDLAGHERYLKTTVFGMT 308
G KP L + R ++F+D GHE + T + G +
Sbjct: 57 KCPQCGTYTTKPRCPNCLAETEFLRR----VSFVDSPGHETLMATMLSGAS 103
>pdb|2D74|A Chain A, Crystal Structure Of Translation Initiation Factor
Aif2betagamma Heterodimer
pdb|2DCU|A Chain A, Crystal Structure Of Translation Initiation Factor
Aif2betagamma Heterodimer With Gdp
Length = 419
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 45/116 (38%), Gaps = 29/116 (25%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVG---NDIL 258
E+ + +VG+VD GK+TL LT D H E+ G T +G +I
Sbjct: 11 EVNIGMVGHVDHGKTTLTKALTGVWTDT-----------HSEELRRGITIKIGFADAEIR 59
Query: 259 GFDSVGNVVNKPEHGSLDWVKICERSA------KVITFIDLAGHERYLKTTVFGMT 308
+ G P IC + ++FID GHE + T + G +
Sbjct: 60 RCSNCGRYSTSP---------ICPYCGHETEFIRRVSFIDSPGHEALMTTMLAGAS 106
>pdb|3IZQ|1 Chain 1, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A
Translating Ribosome
Length = 611
Score = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 49/110 (44%), Gaps = 14/110 (12%)
Query: 203 IRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFDS 262
+ V+G+VDAGKSTL+G L + +L+ +KL R M G++S F
Sbjct: 168 LSFVVLGHVDAGKSTLMGRLLY-DLNIVNQSQLRKLQRESETM--GKSS------FKFAW 218
Query: 263 VGNVVNKPEHGSLDWVKICERSAKV----ITFIDLAGHERYLKTTVFGMT 308
+ + N+ + V IC T +D GH ++ + G++
Sbjct: 219 IMDQTNEERERGVT-VSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGIS 267
>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 = 31.2 bits (69), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 46/110 (41%), Gaps = 14/110 (12%)
Query: 203 IRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFDS 262
+ V+G+VDAGKSTL+G L + +L+ +KL R M G F
Sbjct: 34 LSFVVLGHVDAGKSTLMGRLLY-DLNIVNQSQLRKLQRESETM--------GKSSFKFAW 84
Query: 263 VGNVVNKPEHGSLDWVKICERSAKV----ITFIDLAGHERYLKTTVFGMT 308
+ + N+ + V IC T +D GH ++ + G++
Sbjct: 85 IMDQTNEERERGVT-VSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGIS 133
>pdb|1KK0|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi
Length = 410
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 42/113 (37%), Gaps = 23/113 (20%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFD 261
E+ + VG+VD GK+TL LT D H E+ G T +G
Sbjct: 10 EVNIGXVGHVDHGKTTLTKALTGVWTDT-----------HSEELRRGITIKIGF------ 52
Query: 262 SVGNVVNKPEHGSLDWVKICERSA------KVITFIDLAGHERYLKTTVFGMT 308
+ + P G +C + ++FID GHE T + G +
Sbjct: 53 ADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALXTTXLAGAS 105
>pdb|2IWH|A Chain A, Structure Of Yeast Elongation Factor 3 In Complex With
Adpnp
pdb|2IWH|B Chain B, Structure Of Yeast Elongation Factor 3 In Complex With
Adpnp
pdb|2IX3|A Chain A, Structure Of Yeast Elongation Factor 3
pdb|2IX3|B Chain B, Structure Of Yeast Elongation Factor 3
Length = 986
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/27 (62%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 201 LEIRVAVVGNVDAGKSTLLGVLTHGEL 227
L R+AV+G AGKSTL+ VLT GEL
Sbjct: 698 LSSRIAVIGPNGAGKSTLINVLT-GEL 723
>pdb|2IW3|A Chain A, Elongation Factor 3 In Complex With Adp
pdb|2IW3|B Chain B, Elongation Factor 3 In Complex With Adp
Length = 986
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/27 (62%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 201 LEIRVAVVGNVDAGKSTLLGVLTHGEL 227
L R+AV+G AGKSTL+ VLT GEL
Sbjct: 698 LSSRIAVIGPNGAGKSTLINVLT-GEL 723
>pdb|2IX8|A Chain A, Model For Eef3 Bound To An 80s Ribosome
Length = 976
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/27 (62%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 201 LEIRVAVVGNVDAGKSTLLGVLTHGEL 227
L R+AV+G AGKSTL+ VLT GEL
Sbjct: 692 LSSRIAVIGPNGAGKSTLINVLT-GEL 717
>pdb|2C77|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic
Ge2270 A
Length = 405
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>pdb|1EFT|A Chain A, The Crystal Structure Of Elongation Factor Ef-Tu From
Thermus Aquaticus In The Gtp Conformation
Length = 405
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>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 = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>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 = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>pdb|4ABR|Z Chain Z, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
Length = 405
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>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 = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>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 = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>pdb|1ZUN|B Chain B, Crystal Structure Of A Gtp-Regulated Atp Sulfurylase
Heterodimer From Pseudomonas Syringae
Length = 434
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 49/108 (45%), Gaps = 8/108 (7%)
Query: 203 IRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFDS 262
+R GNVD GKSTL+G L H H + + R +S ++ + G+D+
Sbjct: 25 LRFLTCGNVDDGKSTLIGRLLHDSKXIYEDHL-EAITR-----DSKKSGTTGDDVDLALL 78
Query: 263 VGNVVNKPEHG-SLDWVKICERSAKVITFI-DLAGHERYLKTTVFGMT 308
V + + E G ++D +AK I D GHE+Y + G +
Sbjct: 79 VDGLQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNXATGAS 126
>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 = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL 95
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L
Sbjct: 107 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDL 158
>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 = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>pdb|2C78|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic
Pulvomycin
Length = 405
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 45 VGANAGIVGMTKEHLGLALALSVPVFVV-VTKIDMCPPNVLQDTLKLLVRIL----KSPG 99
V A G + T+EH+ LA + VP VV + K+DM L D +++ VR L + PG
Sbjct: 106 VSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG 165
Query: 100 CRKVPVM 106
+VPV+
Sbjct: 166 -DEVPVI 171
>pdb|3MCA|A Chain A, Structure Of The Dom34-Hbs1 Complex And Implications For
Its Role In No-Go Decay
Length = 592
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 203 IRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTS 251
+ + V G+VD+GKST+LG + EL + QKL H SG+ S
Sbjct: 178 VHLVVTGHVDSGKSTMLGRIMF-ELGEINSRSMQKL--HNEAANSGKGS 223
>pdb|2CBZ|A Chain A, Structure Of The Human Multidrug Resistance Protein 1
Nucleotide Binding Domain 1
Length = 237
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 205 VAVVGNVDAGKSTLLGVLTHGELDNGRGHARQK 237
VAVVG V GKS+LL L E+D GH K
Sbjct: 34 VAVVGQVGCGKSSLLSALL-AEMDKVEGHVAIK 65
>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 = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 46/110 (41%), Gaps = 14/110 (12%)
Query: 203 IRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFDS 262
+ V+G+VDAGKSTL G L + +L+ +KL R + + G F
Sbjct: 34 LSFVVLGHVDAGKSTLXGRLLY-DLNIVNQSQLRKLQRE--------SETXGKSSFKFAW 84
Query: 263 VGNVVNKPEHGSLDWVKICERSAKV----ITFIDLAGHERYLKTTVFGMT 308
+ + N+ + V IC T +D GH ++ + G++
Sbjct: 85 IXDQTNEERERGVT-VSICTSHFSTHRANFTIVDAPGHRDFVPNAIXGIS 133
>pdb|3PEN|A Chain A, Structure Of Archaeal Initiation Factor Aif2gamma Subunit
Delta 37-47 From Sulfolobus Solfataricus In The
Gdp-Bound Form.
pdb|3SJY|A Chain A, The Structure Of Initiation Factor Aif2 Gamma Subunit
Delta 37-47 From Archaeon Sulfolobus Solfataricus
Complexed With Gdpcp
Length = 403
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 42/115 (36%), Gaps = 37/115 (32%)
Query: 202 EIRVAVVGNVDAGKSTLLGVLTHGELDNGRGHARQKLFRHKHEMESGRTSSVGNDILGFD 261
E+ + VVG+VD GK+TL+ +T G+A +
Sbjct: 8 EVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNI----------------------- 44
Query: 262 SVGNVVNKPEH----------GSLDWVKICERSAKVITFIDLAGHERYLKTTVFG 306
V KPE GS D K R I+FID GHE + T + G
Sbjct: 45 GVCESCKKPEAYVTEPSCKSCGSDDEPKFLRR----ISFIDAPGHEVLMATMLSG 95
>pdb|3VQT|A Chain A, Crystal Structure Analysis Of The Translation Factor Rf3
pdb|3VQT|B Chain B, Crystal Structure Analysis Of The Translation Factor Rf3
pdb|3VQT|C Chain C, Crystal Structure Analysis Of The Translation Factor Rf3
pdb|3VQT|D Chain D, Crystal Structure Analysis Of The Translation Factor Rf3
pdb|3VR1|A Chain A, Crystal Structure Analysis Of The Translation Factor Rf3
pdb|3VR1|B Chain B, Crystal Structure Analysis Of The Translation Factor Rf3
pdb|3VR1|C Chain C, Crystal Structure Analysis Of The Translation Factor Rf3
pdb|3VR1|D Chain D, Crystal Structure Analysis Of The Translation Factor Rf3
Length = 548
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 44/98 (44%), Gaps = 14/98 (14%)
Query: 206 AVVGNVDAGKSTLLG--VLTHGELDNGRGHARQKLFRHKHE----MESGRTSSVGNDILG 259
A++ + DAGK+TL +L G + +K RH ME R SV ++
Sbjct: 35 AIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQ 94
Query: 260 F---DSVGNVVNKPEHGSLDWVKICERSAKVITFIDLA 294
F D V N+++ P H E + +V+T +D A
Sbjct: 95 FPYRDRVVNLLDTPGHQDF-----SEDTYRVLTAVDSA 127
>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue
Length = 201
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 192 RKRVESQDFLEIRVAVVGNVDAGKSTLLGVLTHGELDNGRG 232
R +E DFL ++ ++GN GK+ L+ T G G+G
Sbjct: 17 RGSMEDYDFL-FKIVLIGNAGVGKTCLVRRFTQGLFPPGQG 56
>pdb|3J25|A Chain A, Structural Basis For Tetm-Mediated Tetracycline Resistance
Length = 638
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 42/95 (44%), Gaps = 15/95 (15%)
Query: 203 IRVAVVGNVDAGKSTLLGVLTH--------GELDNGRGHARQKLFRHKHEMESGRTSSVG 254
I + V+ +VDAGK+TL L + G +D G L E + G T G
Sbjct: 3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLL----ERQRGITIQTG 58
Query: 255 NDILGFDSVG-NVVNKPEHGSLDWVKICERSAKVI 288
+++ N+++ P H +D++ RS V+
Sbjct: 59 ITSFQWENTKVNIIDTPGH--MDFLAEVYRSLSVL 91
>pdb|3U0O|A Chain A, The Crystal Structure Of Selenophosphate Synthetase From
E. Coli
pdb|3U0O|B Chain B, The Crystal Structure Of Selenophosphate Synthetase From
E. Coli
Length = 347
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 269 KPEHGSLDWVKICERSAKVITFIDLAGHERYLKTTVFGMTGHVPDF 314
KPEH L +C + +F ++ G + T FG+ GH+ +
Sbjct: 195 KPEHQGLATEVMCRMNIAGASFANIEGVKAMTDVTGFGLLGHLSEM 240
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
0.318 0.136 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,477,592
Number of Sequences: 62578
Number of extensions: 391957
Number of successful extensions: 1222
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 1190
Number of HSP's gapped (non-prelim): 82
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)