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= 028730
(204 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 = 338 bits (866), Expect = 1e-93, Method: Compositional matrix adjust.
Identities = 164/204 (80%), Positives = 176/204 (86%)
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 INEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+NEDSTYKYFE+ILVD AH+AIRNDPRINWLC PVHKHRELRGLTSAGKKYRGLRGKGH
Sbjct: 121 VNEDSTYKYFEIILVDVAHSAIRNDPRINWLCKPVHKHRELRGLTSAGKKYRGLRGKGHT 180
Query: 181 HHKARPSRRATWKRNNTLSLRRYR 204
HHKARPSRRATWKRN T+SLRRYR
Sbjct: 181 HHKARPSRRATWKRNQTVSLRRYR 204
>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 = 255 bits (652), Expect = 9e-69, Method: Compositional matrix adjust.
Identities = 130/204 (63%), Positives = 145/204 (71%), Gaps = 1/204 (0%)
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 INEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+N+DSTYKYFEVILVDP H AIR D R NW+C+PVHKHRE RGLT+ GKK RG+ KGH
Sbjct: 121 VNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGI-NKGHK 179
Query: 181 HHKARPSRRATWKRNNTLSLRRYR 204
+ + RR TWKR NTLSL RYR
Sbjct: 180 FNNTKAGRRKTWKRQNTLSLWRYR 203
>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 = 254 bits (649), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 130/205 (63%), Positives = 145/205 (70%), Gaps = 2/205 (0%)
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 INEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGH- 179
+ EDSTYK+FEVIL+DP H AIR +P W+ PVHKHRE+RGLTSAG+K RGL GKGH
Sbjct: 121 VGEDSTYKFFEVILIDPFHKAIRRNPDTQWITKPVHKHREMRGLTSAGRKSRGL-GKGHK 179
Query: 180 LHHKARPSRRATWKRNNTLSLRRYR 204
HH SRRA W+R NTL L RYR
Sbjct: 180 FHHTIGGSRRAAWRRRNTLQLHRYR 204
>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 = 253 bits (646), Expect = 5e-68, Method: Compositional matrix adjust.
Identities = 129/203 (63%), Positives = 144/203 (70%), Gaps = 1/203 (0%)
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 NEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLH 181
N+DSTYKYFEVILVDP H AIR D R NW+C+PVHKHRE RGLT+ GKK RG+ KGH
Sbjct: 121 NQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGI-NKGHKF 179
Query: 182 HKARPSRRATWKRNNTLSLRRYR 204
+ + RR TWKR NTLSL RYR
Sbjct: 180 NNTKAGRRKTWKRQNTLSLWRYR 202
>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 = 240 bits (613), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 121/193 (62%), Positives = 136/193 (70%), Gaps = 1/193 (0%)
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 NEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLH 181
N+DSTYKYFEVILVDP H AIR D R NW+C+PVHKHRE RGLT+ GKK RG+ KGH
Sbjct: 121 NQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGI-NKGHKF 179
Query: 182 HKARPSRRATWKR 194
+ + RR TWKR
Sbjct: 180 NNTKAGRRKTWKR 192
>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 = 240 bits (612), Expect = 5e-64, Method: Compositional matrix adjust.
Identities = 117/204 (57%), Positives = 142/204 (69%)
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 INEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+ +D TYK++EVIL DP+HNAIRNDPRINW+C HKHRELRGLTSAG+K RGLR KGH
Sbjct: 121 VGQDGTYKFYEVILADPSHNAIRNDPRINWICESAHKHRELRGLTSAGRKGRGLRVKGHR 180
Query: 181 HHKARPSRRATWKRNNTLSLRRYR 204
R SR+ W+ L LRRYR
Sbjct: 181 AKSLRTSRKGNWRARQMLKLRRYR 204
>pdb|3ZF7|Q Chain Q, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 221
Score = 216 bits (551), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 105/187 (56%), Positives = 129/187 (68%)
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 INEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+N DST+ ++EV+ VDP H AIR DPRINW+ N VHKHRE RGLTSAG+K+RGLR KGH
Sbjct: 138 VNADSTFLWYEVVAVDPMHRAIRRDPRINWIVNAVHKHREQRGLTSAGRKHRGLRQKGHK 197
Query: 181 HHKARPS 187
K RPS
Sbjct: 198 ASKLRPS 204
>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 = 147 bits (370), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 82/191 (42%), Positives = 109/191 (57%), Gaps = 2/191 (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 IVRVRVRKGGRKRPRWKG--GRKPSKMGQVKYSPKKSLQWIAEEKAARKFPNLEVLNSYW 118
Query: 121 INEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+ ED YK+FEVI+VDP H I++DP+I W+ HK R RGLTSAGKK RGLR KG
Sbjct: 119 VGEDGMYKWFEVIMVDPHHPVIKSDPKIAWIALKHHKGRVFRGLTSAGKKGRGLRNKGKG 178
Query: 181 HHKARPSRRAT 191
K RPS RA
Sbjct: 179 AEKVRPSIRAN 189
>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 = 132 bits (332), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 108/189 (57%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
ED +K+ EVIL+DP H AI++D +++W+ H+ R RGLTSAG++ RGLRG+G
Sbjct: 122 EDGRHKWHEVILIDPDHPAIKSDDQLSWISRTRHRLRTFRGLTSAGRRCRGLRGQGKGSE 181
Query: 183 KARPSRRAT 191
K RPS R
Sbjct: 182 KVRPSLRVN 190
>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 = 128 bits (321), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 101/189 (53%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+DP H AI+ND ++W+C R RGLT AG++ RGL GKG
Sbjct: 123 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 182
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 183 KTRPSLRSN 191
>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 = 128 bits (321), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 101/189 (53%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+DP H AI+ND ++W+C R RGLT AG++ RGL GKG
Sbjct: 122 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 181
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 182 KTRPSLRSN 190
>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 = 127 bits (320), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 100/189 (52%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+DP H AI+ND ++W+C R RGLT AG++ RGL GKG
Sbjct: 123 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 182
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 183 KTRPSLRSN 191
>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 = 127 bits (320), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 100/189 (52%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+DP H AI+ND ++W+C R RGLT AG++ RGL GKG
Sbjct: 123 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 182
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 183 KTRPSLRSN 191
>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 = 127 bits (319), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 100/189 (52%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+DP H AI+ND ++W+C R RGLT AG++ RGL GKG
Sbjct: 123 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 182
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 183 KTRPSLRSN 191
>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 = 127 bits (319), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 100/189 (52%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+DP H AI+ND ++W+C R RGLT AG++ RGL GKG
Sbjct: 122 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 181
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 182 KTRPSLRSN 190
>pdb|1YHQ|M Chain M, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
Length = 194
Score = 127 bits (319), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 100/189 (52%), Gaps = 2/189 (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 EDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+DP H AI+ND ++W+C R RGLT AG++ RGL GKG
Sbjct: 122 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 181
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 182 KTRPSLRSN 190
>pdb|1FFK|I Chain I, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 194
Score = 123 bits (308), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 77/198 (38%), Positives = 108/198 (54%), Gaps = 18/198 (9%)
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 NSYWINEDSTYKYFEVILVDPAHNAIRNDPRINWLCNPVHKHRELRGLTSAGKKYRGLRG 176
NSYW+ ED YK+FEVILVD H AI++DP+++W+ + R RGLTSAG+K RGLR
Sbjct: 116 NSYWVGEDGRYKWFEVILVDRDHPAIKSDPQLSWVSR--TRGRVYRGLTSAGRKARGLRR 173
Query: 177 KGHLHHKARPSRRATWKR 194
KG K RPS RA +++
Sbjct: 174 KGRGAEKVRPSLRANFRK 191
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
0.322 0.136 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,748,330
Number of Sequences: 62578
Number of extensions: 204658
Number of successful extensions: 450
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 411
Number of HSP's gapped (non-prelim): 21
length of query: 204
length of database: 14,973,337
effective HSP length: 94
effective length of query: 110
effective length of database: 9,091,005
effective search space: 1000010550
effective search space used: 1000010550
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)