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= psy11837
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FN5|A Chain A, Elongation Factor G 1 (Pseudomonas Aeruginosa) In Complex
With Argyrin B
Length = 709
Score = 85.5 bits (210), Expect = 2e-17, Method: Composition-based stats.
Identities = 43/102 (42%), Positives = 62/102 (60%), Gaps = 4/102 (3%)
Query: 24 MCIATGASMALKE----AGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M ASMA K+ G +LEP M +E+++ E Y+ ++ DL+RRR I+ +ED S
Sbjct: 597 MAFKIAASMATKQLAQKGGGKVLEPIMKVEVVTPEDYMGDVMGDLNRRRGLIQGMEDTVS 656
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSS 121
KVI AE PL E+ GY VR++S GR+ +SMEF + + S
Sbjct: 657 GKVIRAEVPLGEMFGYATDVRSMSQGRASYSMEFSKYAEAPS 698
>pdb|3J0E|H Chain H, Models For The T. Thermophilus Ribosome Recycling Factor
And The E. Coli Elongation Factor G Bound To The E. Coli
Post-Termination Complex
Length = 702
Score = 78.2 bits (191), Expect = 2e-15, Method: Composition-based stats.
Identities = 43/104 (41%), Positives = 64/104 (61%), Gaps = 5/104 (4%)
Query: 29 GASMALKE----AGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVII 84
AS+A KE A +LLEP M +E+ + E+ ++ DLSRRR ++ E + I
Sbjct: 595 AASIAFKEGFKKAKPVLLEPIMKVEVETPEENTGDVIGDLSRRRGMLKGQESEVTGVKIH 654
Query: 85 AEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAV 128
AE PLSE+ GY ++R+L+ GR+ ++MEFL + + S N AQAV
Sbjct: 655 AEVPLSEMFGYATQLRSLTKGRASYTMEFLKYDEAPS-NVAQAV 697
>pdb|2RDO|7 Chain 7, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
Length = 704
Score = 78.2 bits (191), Expect = 2e-15, Method: Composition-based stats.
Identities = 43/104 (41%), Positives = 64/104 (61%), Gaps = 5/104 (4%)
Query: 29 GASMALKE----AGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVII 84
AS+A KE A +LLEP M +E+ + E+ ++ DLSRRR ++ E + I
Sbjct: 596 AASIAFKEGFKKAKPVLLEPIMKVEVETPEENTGDVIGDLSRRRGMLKGQESEVTGVKIH 655
Query: 85 AEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAV 128
AE PLSE+ GY ++R+L+ GR+ ++MEFL + + S N AQAV
Sbjct: 656 AEVPLSEMFGYATQLRSLTKGRASYTMEFLKYDEAPS-NVAQAV 698
>pdb|2BV3|A Chain A, Crystal Structure Of A Mutant Elongation Factor G Trapped
With A Gtp Analogue
Length = 691
Score = 76.6 bits (187), Expect = 7e-15, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 65/110 (59%), Gaps = 4/110 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAVR 129
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + ++
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 689
>pdb|2BM1|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant G16v
Length = 691
Score = 76.6 bits (187), Expect = 7e-15, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 65/110 (59%), Gaps = 4/110 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAVR 129
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + ++
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 689
>pdb|2BM0|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant T84a
Length = 691
Score = 76.6 bits (187), Expect = 7e-15, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 65/110 (59%), Gaps = 4/110 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAVR 129
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + ++
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 689
>pdb|1KTV|A Chain A, Crystal Structure Of Elongation Factor G Dimer Without
Nucleotide
pdb|1KTV|B Chain B, Crystal Structure Of Elongation Factor G Dimer Without
Nucleotide
pdb|1DAR|A Chain A, Elongation Factor G In Complex With Gdp
pdb|1ELO|A Chain A, Elongation Factor G Without Nucleotide
pdb|2OM7|L Chain L, Structural Basis For Interaction Of The Ribosome With The
Switch Regions Of Gtp-Bound Elongation Factors
pdb|2WRI|Y Chain Y, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 1 Of 4).
pdb|2WRK|Y Chain Y, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 3 Of 4).
pdb|2XSY|Y Chain Y, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUY|Y Chain Y, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|3J18|Y Chain Y, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(30s Subunit)
Length = 691
Score = 76.6 bits (187), Expect = 7e-15, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 65/110 (59%), Gaps = 4/110 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAVR 129
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + ++
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 689
>pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G H573a
pdb|1PN6|A Chain A, Domain-Wise Fitting Of The Crystal Structure Of
T.Thermophilus Ef-G Into The Low Resolution Map Of The
Release Complex.Puromycin.Efg.Gdpnp Of E.Coli 70s
Ribosome
Length = 691
Score = 76.6 bits (187), Expect = 7e-15, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 65/110 (59%), Gaps = 4/110 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAVR 129
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + ++
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 689
>pdb|2J7K|A Chain A, Crystal Structure Of The T84a Mutant Ef-G:gdpcp Complex
Length = 691
Score = 76.6 bits (187), Expect = 7e-15, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 65/110 (59%), Gaps = 4/110 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAVR 129
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + ++
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 689
>pdb|1EFG|A Chain A, The Crystal Structure Of Elongation Factor G Complexed
With Gdp, At 2.7 Angstroms Resolution
pdb|2EFG|A Chain A, Translational Elongation Factor G Complexed With Gdp
pdb|1JQM|B Chain B, Fitting Of L11 Protein And Elongation Factor G (Ef-G) In
The Cryo-Em Map Of E. Coli 70s Ribosome Bound With Ef-G,
Gdp And Fusidic Acid
Length = 691
Score = 76.6 bits (187), Expect = 7e-15, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 65/110 (59%), Gaps = 4/110 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAVR 129
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + ++
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 689
>pdb|1ZN0|B Chain B, Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map Of The
50s Subunit Bound With Both Ef-G (Gdpnp) And Rrf
Length = 655
Score = 75.9 bits (185), Expect = 1e-14, Method: Composition-based stats.
Identities = 38/109 (34%), Positives = 64/109 (58%), Gaps = 4/109 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 547 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 606
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAV 128
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + +
Sbjct: 607 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLI 655
>pdb|3IZP|E Chain E, Conformation Of Ef-G During Translocation
Length = 688
Score = 75.9 bits (185), Expect = 1e-14, Method: Composition-based stats.
Identities = 38/109 (34%), Positives = 64/109 (58%), Gaps = 4/109 (3%)
Query: 24 MCIATGASMALKEA----GCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M SMA+KEA ++LEP M +E+ + E+Y+ ++ DL+ RR I +E RG+
Sbjct: 580 MAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGN 639
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAV 128
++VI A PL+E+ GY +R+ + GR F M F +++V Q + + +
Sbjct: 640 AQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLI 688
>pdb|2XEX|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G
pdb|2XEX|B Chain B, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G
Length = 693
Score = 71.2 bits (173), Expect = 4e-13, Method: Composition-based stats.
Identities = 37/100 (37%), Positives = 60/100 (60%), Gaps = 4/100 (4%)
Query: 24 MCIATGASMALKEAG--C--ILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M AS+ALKEA C ++LEP M + I E+Y+ I+ D++ RR + +E RG+
Sbjct: 579 MAFKIAASLALKEAAKKCDPVILEPMMKVTIEMPEEYMGDIMGDVTSRRGRVDGMEPRGN 638
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 119
++V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 639 AQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
Score = 33.1 bits (74), Expect = 0.097, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 131 ITGFDP-----VIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 174
+ G +P V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 630 VDGMEPRGNAQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
>pdb|3ZZU|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With Mutations M16i And F88l
pdb|3ZZU|B Chain B, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With Mutations M16i And F88l
Length = 693
Score = 71.2 bits (173), Expect = 4e-13, Method: Composition-based stats.
Identities = 37/100 (37%), Positives = 60/100 (60%), Gaps = 4/100 (4%)
Query: 24 MCIATGASMALKEAG--C--ILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M AS+ALKEA C ++LEP M + I E+Y+ I+ D++ RR + +E RG+
Sbjct: 579 MAFKIAASLALKEAAKKCDPVILEPMMKVTIEMPEEYMGDIMGDVTSRRGRVDGMEPRGN 638
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 119
++V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 639 AQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
Score = 33.1 bits (74), Expect = 0.097, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 131 ITGFDP-----VIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 174
+ G +P V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 630 VDGMEPRGNAQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
>pdb|3ZZT|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With A Fusidic-Acid-Resistant Mutation F88l
pdb|3ZZT|B Chain B, Crystal Structure Of Staphylococcus Aureus Elongation
Factor G With A Fusidic-Acid-Resistant Mutation F88l
Length = 693
Score = 71.2 bits (173), Expect = 4e-13, Method: Composition-based stats.
Identities = 37/100 (37%), Positives = 60/100 (60%), Gaps = 4/100 (4%)
Query: 24 MCIATGASMALKEAG--C--ILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M AS+ALKEA C ++LEP M + I E+Y+ I+ D++ RR + +E RG+
Sbjct: 579 MAFKIAASLALKEAAKKCDPVILEPMMKVTIEMPEEYMGDIMGDVTSRRGRVDGMEPRGN 638
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 119
++V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 639 AQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
Score = 33.1 bits (74), Expect = 0.097, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 131 ITGFDP-----VIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 174
+ G +P V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 630 VDGMEPRGNAQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
>pdb|3ZZ0|A Chain A, Crystal Structure Of Ribosomal Elongation Factor (Ef)-G
From Staphylococcus Aureus With A Fusidic Acid
Hyper-Sensitivity Mutation M16i
pdb|3ZZ0|B Chain B, Crystal Structure Of Ribosomal Elongation Factor (Ef)-G
From Staphylococcus Aureus With A Fusidic Acid
Hyper-Sensitivity Mutation M16i
Length = 693
Score = 71.2 bits (173), Expect = 4e-13, Method: Composition-based stats.
Identities = 37/100 (37%), Positives = 60/100 (60%), Gaps = 4/100 (4%)
Query: 24 MCIATGASMALKEAG--C--ILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGS 79
M AS+ALKEA C ++LEP M + I E+Y+ I+ D++ RR + +E RG+
Sbjct: 579 MAFKIAASLALKEAAKKCDPVILEPMMKVTIEMPEEYMGDIMGDVTSRRGRVDGMEPRGN 638
Query: 80 SKVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 119
++V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 639 AQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
Score = 33.1 bits (74), Expect = 0.097, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 131 ITGFDP-----VIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 174
+ G +P V+ A PLSE+ GY +R+ + GR ++M F + +V
Sbjct: 630 VDGMEPRGNAQVVNAYVPLSEMFGYATSLRSNTQGRGTYTMYFDHYAEV 678
>pdb|1WDT|A Chain A, Crystal Structure Of Ttk003000868 From Thermus
Thermophilus Hb8
pdb|2DY1|A Chain A, Crystal Structure Of Ef-G-2 From Thermus Thermophilus
Length = 665
Score = 60.1 bits (144), Expect = 7e-10, Method: Composition-based stats.
Identities = 33/95 (34%), Positives = 56/95 (58%), Gaps = 4/95 (4%)
Query: 29 GASMALK----EAGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVII 84
AS+A K EA +LLEP L++++ ++ V +L+DL RR I +E G+ V+
Sbjct: 555 AASLAFKKVMAEAHPVLLEPIYRLKVLAPQERVGDVLSDLQARRGRILGMEQEGALSVVH 614
Query: 85 AEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQV 119
AE PL+E+L Y + + L+ G +++EF + +V
Sbjct: 615 AEVPLAEVLEYYKALPGLTGGAGAYTLEFSHYAEV 649
>pdb|1JQS|C Chain C, Fitting Of L11 Protein And Elongation Factor G (Domain G'
And V) In The Cryo-Em Map Of E. Coli 70s Ribosome Bound
With Ef-G And Gmppcp, A Nonhydrolysable Gtp Analog
Length = 68
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 43/68 (63%)
Query: 46 MYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVIIAEAPLSELLGYCQRVRTLSSG 105
M +E+ + E+Y+ ++ DL+ RR I +E RG+++VI A PL+E+ GY +R+ + G
Sbjct: 1 MRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGNAQVIRAFVPLAEMFGYATDLRSKTQG 60
Query: 106 RSHFSMEF 113
R F M F
Sbjct: 61 RGSFVMFF 68
Score = 32.0 bits (71), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 5/43 (11%)
Query: 131 ITGFDP-----VIIAEAPLSELLGYCQRVRTLSSGRSHFSMEF 168
I G +P VI A PL+E+ GY +R+ + GR F M F
Sbjct: 26 ILGMEPRGNAQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFF 68
>pdb|3J25|A Chain A, Structural Basis For Tetm-Mediated Tetracycline Resistance
Length = 638
Score = 37.0 bits (84), Expect = 0.006, Method: Composition-based stats.
Identities = 25/104 (24%), Positives = 49/104 (47%), Gaps = 2/104 (1%)
Query: 4 CHQHGSQGGRLYSPRTYVILMCIATGASMALKEAGCILLEPYMYLEIISDEQYVHGILAD 63
C ++G + +P + +L I LK+AG LLEPY+ +I + ++Y+ D
Sbjct: 499 CFKYGLYYSPVSTPADFRMLAPIVL--EQVLKKAGTELLEPYLSFKIYAPQEYLSRAYND 556
Query: 64 LSRRRADIRSVEDRGSSKVIIAEAPLSELLGYCQRVRTLSSGRS 107
+ A+I + + + ++ E P + Y + ++GRS
Sbjct: 557 APKYCANIVDTQLKNNEVILSGEIPARCIQEYRSDLTFFTNGRS 600
>pdb|1MI5|D Chain D, The Crystal Structure Of Lc13 Tcr In Complex With
Hlab8-Ebv Peptide Complex
pdb|3KPR|D Chain D, Crystal Structure Of The Lc13 Tcr In Complex With Hla
B4405 Bound To Eeylkawtf A Mimotope
pdb|3KPR|I Chain I, Crystal Structure Of The Lc13 Tcr In Complex With Hla
B4405 Bound To Eeylkawtf A Mimotope
pdb|3KPS|D Chain D, Crystal Structure Of The Lc13 Tcr In Complex With Hla
B4405 Bound To Eeylqafty A Self Peptide From The Abcd3
Protein
Length = 201
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 37 AGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVIIAEAPLSE-LLGY 95
+G + Y L E +HG+ ++++ R A + EDR SS +I+ A L + + Y
Sbjct: 26 SGTDYIHWYRQLPSQGPEYVIHGLTSNVNNRMASLAIAEDRKSSTLILHRATLRDAAVYY 85
Query: 96 CQRVRTLSSGRSHFSMEF 113
C + L+ G S+ + F
Sbjct: 86 C--ILPLAGGTSYGKLTF 101
>pdb|1KGC|D Chain D, Immune Receptor
Length = 206
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 37 AGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVIIAEAPLSE-LLGY 95
+G + Y L E +HG+ ++++ R A + EDR SS +I+ A L + + Y
Sbjct: 27 SGTDYIHWYRQLPSQGPEYVIHGLTSNVNNRMASLAIAEDRKSSTLILHRATLRDAAVYY 86
Query: 96 CQRVRTLSSGRSHFSMEF 113
C + L+ G S+ + F
Sbjct: 87 C--ILPLAGGTSYGKLTF 102
>pdb|3O6F|C Chain C, Crystal Structure Of A Human Autoimmune Tcr Ms2-3c8 Bound
To Mhc Class Ii Self-Ligand MbpHLA-Dr4
pdb|3O6F|G Chain G, Crystal Structure Of A Human Autoimmune Tcr Ms2-3c8 Bound
To Mhc Class Ii Self-Ligand MbpHLA-Dr4
pdb|3T0E|C Chain C, Crystal Structure Of A Complete Ternary Complex Of T Cell
Receptor, Peptide-Mhc And Cd4
Length = 206
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%)
Query: 37 AGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVIIAEAPLSELLGYC 96
+G + Y L E +HG+ ++++ R A + EDR SS +I+ A L + Y
Sbjct: 29 SGTDYIHWYRQLPSQGPEYVIHGLTSNVNNRMASLAIAEDRKSSTLILHRATLRDAAVYY 88
Query: 97 QRVRTLSSGRSHFSMEFLCFKQVSSQNEAQAV 128
V ++ + F L Q + QN AV
Sbjct: 89 CTVYGGATNKLIFGTGTLLAVQPNIQNPDPAV 120
>pdb|2ESV|D Chain D, Structure Of The Hla-E-VmaprtlilKK50.4 TCR COMPLEX
Length = 199
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 45 YMYLEIISD-EQYV-HGILADLSRRRADIRSVEDRGSSKVIIAEAPLSEL-LGYCQRVRT 101
Y Y +I S QY+ HG+ + + A + EDR SS +I+ A L + + YC VR+
Sbjct: 32 YWYRQIHSQGPQYIIHGLKNNETNEMASLIITEDRKSSTLILPHATLRDTAVYYCIVVRS 91
Query: 102 LSSGR 106
++G+
Sbjct: 92 SNTGK 96
>pdb|4GG6|E Chain E, Protein Complex
pdb|4GG6|G Chain G, Protein Complex
pdb|4GG8|E Chain E, Immune Receptor
pdb|4GG8|A Chain A, Immune Receptor
Length = 207
Score = 30.0 bits (66), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 29/59 (49%)
Query: 37 AGCILLEPYMYLEIISDEQYVHGILADLSRRRADIRSVEDRGSSKVIIAEAPLSELLGY 95
+G + Y L E +HG+ ++++ R A + EDR SS +I+ A L + Y
Sbjct: 29 SGTDYIHWYRQLPSQGPEYVIHGLTSNVNNRMASLAIAEDRKSSTLILHRATLRDAAVY 87
>pdb|2BO2|A Chain A, Egf Domains 1,2,5 Of Human Emr2, A 7-Tm Immune System
Molecule, In Complex With Calcium.
pdb|2BO2|B Chain B, Egf Domains 1,2,5 Of Human Emr2, A 7-Tm Immune System
Molecule, In Complex With Calcium.
pdb|2BOU|A Chain A, Egf Domains 1,2,5 Of Human Emr2, A 7-Tm Immune System
Molecule, In Complex With Barium.
pdb|2BOX|A Chain A, Egf Domains 1,2,5 Of Human Emr2, A 7-Tm Immune System
Molecule, In Complex With Strontium
Length = 143
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 133 GFDPVIIAEAPLSELLGYCQRVRTLSSGRSHFSMEFLCFKQVSS 176
G++PV A+ +E CQ V SSG+ +CF V S
Sbjct: 75 GYEPVSGAKTFKNESENTCQDVDECSSGQHQCDSSTVCFNTVGS 118
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 27.3 bits (59), Expect = 5.4, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 90 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNI 131
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 370 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNI 412
Score = 27.3 bits (59), Expect = 5.4, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 145 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNI 186
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 370 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNI 412
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 90 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNI 131
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 370 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNI 412
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 145 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNI 186
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 370 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNI 412
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 90 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNIT 132
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 115 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIV 158
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 145 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNIT 187
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 115 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIV 158
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 90 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNI 131
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 421 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNI 463
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 145 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNI 186
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 421 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNI 463
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 90 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNIT 132
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 115 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIV 158
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 145 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNIT 187
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 115 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIV 158
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 90 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNIT 132
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 115 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIV 158
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 145 SELLGYCQRV-RTLSSGRSHFSMEFLCFKQVSSQNEAQAVRNIT 187
SEL Y R+ RT SG+ S+ F+C ++ E + +NI
Sbjct: 115 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIV 158
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
0.323 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,850,561
Number of Sequences: 62578
Number of extensions: 163642
Number of successful extensions: 482
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 429
Number of HSP's gapped (non-prelim): 61
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)