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= 031760
(153 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|P Chain P, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 204
Score = 186 bits (473), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 90/123 (73%), Positives = 99/123 (80%)
Query: 1 MGAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAY +VSELWR+KQSDVMRF+QRVRCWEYRQ P+IVR+TRPTRPDKARRLGYKAKQ
Sbjct: 1 MGAYKYVSELWRRKQSDVMRFVQRVRCWEYRQQPAIVRLTRPTRPDKARRLGYKAKQGYV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYW 120
IVYGKP +QG+TQLKFQR+KRSVAEERAGRKLGGLRVLNSYW
Sbjct: 61 VYRVRVRRGGRKRPVPKGIVYGKPKHQGITQLKFQRNKRSVAEERAGRKLGGLRVLNSYW 120
Query: 121 INE 123
+NE
Sbjct: 121 VNE 123
>pdb|2ZKR|MM Chain m, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 204
Score = 149 bits (377), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 75/123 (60%), Positives = 83/123 (67%)
Query: 1 MGAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAY ++ ELWRKKQSDVMRFL RVRCW+YRQ ++ R RPTRPDKARRLGYKAKQ
Sbjct: 1 MGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQGYV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYW 120
YGKP + GV QLKF RS +SVAEERAGR G LRVLNSYW
Sbjct: 61 IYRIRVRRGGRKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHCGALRVLNSYW 120
Query: 121 INE 123
+ E
Sbjct: 121 VGE 123
>pdb|3IZS|P Chain P, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|N Chain N, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|N Chain N, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|N Chain N, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 204
Score = 147 bits (371), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 74/126 (58%), Positives = 84/126 (66%)
Query: 1 MGAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAY ++ EL RKKQSDV+RFLQRVR WEYRQ I R RPTRPDKARRLGYKAKQ
Sbjct: 1 MGAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQGFV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYW 120
YGKPTNQGV +LK+QRS R+ AEER GR+ LRVLNSYW
Sbjct: 61 IYRVRVRRGNRKRPVPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNSYW 120
Query: 121 INEVCS 126
+N+ +
Sbjct: 121 VNQDST 126
>pdb|3JYW|L Chain L, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 192
Score = 145 bits (365), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 73/125 (58%), Positives = 83/125 (66%)
Query: 2 GAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXX 61
GAY ++ EL RKKQSDV+RFLQRVR WEYRQ I R RPTRPDKARRLGYKAKQ
Sbjct: 1 GAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQGFVI 60
Query: 62 XXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWI 121
YGKPTNQGV +LK+QRS R+ AEER GR+ LRVLNSYW+
Sbjct: 61 YRVRVRRGNRKRPVPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNSYWV 120
Query: 122 NEVCS 126
N+ +
Sbjct: 121 NQDST 125
>pdb|1S1I|L Chain L, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 203
Score = 145 bits (365), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 73/125 (58%), Positives = 83/125 (66%)
Query: 2 GAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXX 61
GAY ++ EL RKKQSDV+RFLQRVR WEYRQ I R RPTRPDKARRLGYKAKQ
Sbjct: 1 GAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQGFVI 60
Query: 62 XXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWI 121
YGKPTNQGV +LK+QRS R+ AEER GR+ LRVLNSYW+
Sbjct: 61 YRVRVRRGNRKRPVPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNSYWV 120
Query: 122 NEVCS 126
N+ +
Sbjct: 121 NQDST 125
>pdb|3ZF7|Q Chain Q, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 221
Score = 129 bits (323), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 61/128 (47%), Positives = 80/128 (62%)
Query: 1 MGAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MG++ +++ELW+KK SDVMRF+QRVR WE+R +IVR+ RPTRP+KAR +GYK KQ
Sbjct: 18 MGSFMYLNELWKKKSSDVMRFIQRVRAWEFRHQHTIVRLRRPTRPEKARMVGYKTKQGYV 77
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYW 120
I YGKP GV K ++ R VAE+R G+K G LRVLNSYW
Sbjct: 78 VFRVRVRRGGRKRPVHKGITYGKPNTAGVLGRKLNKNNRVVAEQRLGKKYGNLRVLNSYW 137
Query: 121 INEVCSLI 128
+N + +
Sbjct: 138 VNADSTFL 145
>pdb|4A17|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 204
Score = 128 bits (322), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 63/123 (51%), Positives = 81/123 (65%)
Query: 1 MGAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAY ++ ELWRKKQSD+M F+ R+R WEYRQ P I + +R +RPDKAR+LGYK K
Sbjct: 1 MGAYKYLEELWRKKQSDLMSFILRLRTWEYRQLPVIHKASRSSRPDKARKLGYKNKDGYA 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYW 120
IVYGKP++ G+ QLKF R+ RS AEER G+++ LRVLNSYW
Sbjct: 61 IWRVRVRRGGRKRPVSKGIVYGKPSSVGINQLKFARNLRSCAEERVGKRVPELRVLNSYW 120
Query: 121 INE 123
+ +
Sbjct: 121 VGQ 123
>pdb|3J21|M Chain M, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 194
Score = 69.7 bits (169), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 63/123 (51%), Gaps = 2/123 (1%)
Query: 1 MGAYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MG Y ++ E W+ + + L + R ++R+ P +VR+ RPTR D+AR LGY+AKQ
Sbjct: 1 MGMYKYIREAWKSPKKSYVGELLKQRMIKWRREPVVVRIERPTRLDRARALGYQAKQGYV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYW 120
KP+ G + ++S + +AEE+A RK L VLNSYW
Sbjct: 61 IVRVRVRKGGRKRPRWKGGR--KPSKMGQVKYSPKKSLQWIAEEKAARKFPNLEVLNSYW 118
Query: 121 INE 123
+ E
Sbjct: 119 VGE 121
>pdb|1JJ2|L Chain L, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|L Chain L, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|N Chain N, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|N Chain N, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|N Chain N, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|N Chain N, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|N Chain N, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|N Chain N, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|N Chain N, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|N Chain N, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|N Chain N, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|N Chain N, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|N Chain N, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|N Chain N, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|N Chain N, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
Simultaneously At Half Occupancy To Both The A-Site And
P- Site Of The The 50s Ribosomal Subunit.
pdb|1QVF|L Chain L, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|L Chain L, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|L Chain L, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|L Chain L, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3OW2|L Chain L, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 194
Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 62/121 (51%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ E W++ + + L R E+R P++VR+ RPTR D+AR LGYKAKQ
Sbjct: 4 AYSYIREAWKRPKEGQIAELMWHRMQEWRNEPAVVRIERPTRLDRARSLGYKAKQGIIVV 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K V ++ +++ + +AEERA RK LRVLNSY +
Sbjct: 64 RVAIRKGSSRRTRFNKGRRSK--RMMVNRITRKKNIQRIAEERANRKFPNLRVLNSYSVG 121
Query: 123 E 123
E
Sbjct: 122 E 122
>pdb|3CC2|M Chain M, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|M Chain M, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|M Chain M, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|L Chain L, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|M Chain M, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|M Chain M, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|4ADX|M Chain M, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 196
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ + W+ + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWKNPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K QGVT++ ++ + VAEERA R LRVLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 E 123
+
Sbjct: 123 Q 123
>pdb|3G4S|M Chain M, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|M Chain M, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|M Chain M, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3I55|M Chain M, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|M Chain M, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
Length = 194
Score = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 59/121 (48%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ + W+ + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 4 AYSYIRDAWKNPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K QGVT++ ++ + VAEERA R LRVLNSY +
Sbjct: 64 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 121
Query: 123 E 123
+
Sbjct: 122 Q 122
>pdb|1VQ9|M Chain M, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|M Chain M, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|M Chain M, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|M Chain M, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|M Chain M, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|M Chain M, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
Length = 195
Score = 61.6 bits (148), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 58/121 (47%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K QGVT++ ++ + VAEERA R LRVLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 E 123
+
Sbjct: 123 Q 123
>pdb|2QA4|M Chain M, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|2QEX|M Chain M, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
Length = 196
Score = 61.6 bits (148), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 58/121 (47%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K QGVT++ ++ + VAEERA R LRVLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 E 123
+
Sbjct: 123 Q 123
>pdb|1YI2|M Chain M, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|M Chain M, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|M Chain M, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|M Chain M, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|M Chain M, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|M Chain M, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
Length = 195
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 58/121 (47%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K QGVT++ ++ + VAEERA R LRVLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 E 123
+
Sbjct: 123 Q 123
>pdb|1S72|M Chain M, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1VQ4|M Chain M, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|M Chain M, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|M Chain M, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|M Chain M, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|M Chain M, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQN|M Chain M, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|M Chain M, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|M Chain M, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
Length = 194
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 58/121 (47%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 4 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K QGVT++ ++ + VAEERA R LRVLNSY +
Sbjct: 64 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 121
Query: 123 E 123
+
Sbjct: 122 Q 122
>pdb|1YHQ|M Chain M, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
Length = 194
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 58/121 (47%), Gaps = 2/121 (1%)
Query: 3 AYTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY+++ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 4 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLRVLNSYWIN 122
K QGVT++ ++ + VAEERA R LRVLNSY +
Sbjct: 64 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 121
Query: 123 E 123
+
Sbjct: 122 Q 122
>pdb|1FFK|I Chain I, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 194
Score = 59.7 bits (143), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 59/127 (46%), Gaps = 16/127 (12%)
Query: 4 YTFVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXXX 63
Y ++ E W++ + L R ++R+ P++VR+ RPTR D+AR LGYKAK+
Sbjct: 5 YAYIREAWKRPYEGYVGELMWHRLQKWRREPAVVRIPRPTRLDRARALGYKAKKGIIVVR 64
Query: 64 XXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRS-------VAEERAGRKLGGLRVL 116
N+G K ++R +AEERA RK + VL
Sbjct: 65 VRIRRGGRRATR---------PNKGRKSKKMMVNRRPRKKNLQWIAEERANRKYPNMEVL 115
Query: 117 NSYWINE 123
NSYW+ E
Sbjct: 116 NSYWVGE 122
>pdb|2JY9|A Chain A, Nmr Structure Of Putative Trna Hydrolase Domain From
Salmonella Typhimurium. Northeast Structural Genomics
Consortium Target Str220
Length = 148
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 38 RVTRPTRPDKARRLGYKAKQ 57
R TRPTR K RRL KA++
Sbjct: 106 RATRPTRASKERRLSSKAQK 125
>pdb|4DH9|Y Chain Y, Crystal Structure Of Yaej Bound To The 70s Ribosome
Length = 140
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 38 RVTRPTRPDKARRLGYKAKQ 57
R TRPTR K RRL KA++
Sbjct: 106 RPTRPTRASKERRLASKAQK 125
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
0.327 0.137 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,391,594
Number of Sequences: 62578
Number of extensions: 92642
Number of successful extensions: 267
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 231
Number of HSP's gapped (non-prelim): 21
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)