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= 028757
(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 = 343 bits (880), Expect = 4e-95, Method: Compositional matrix adjust.
Identities = 166/204 (81%), Positives = 179/204 (87%)
Query: 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAYKYVSELWR+KQSDVMRF+QRVRCWEYRQ P+IVR+TRPTRPDKARRLGYKAKQ
Sbjct: 1 MGAYKYVSELWRRKQSDVMRFVQRVRCWEYRQQPAIVRLTRPTRPDKARRLGYKAKQGYV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYW 120
IVYGKP +QG+TQLKFQR+KRSVAEERAGRKLGGL+VLNSYW
Sbjct: 61 VYRVRVRRGGRKRPVPKGIVYGKPKHQGITQLKFQRNKRSVAEERAGRKLGGLRVLNSYW 120
Query: 121 INEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+NEDSTYKYFE+ILVD AH+AIRNDPRINW+CKPVHKHRELRGLTSAGKKYRGLRGKGH
Sbjct: 121 VNEDSTYKYFEIILVDVAHSAIRNDPRINWLCKPVHKHRELRGLTSAGKKYRGLRGKGHT 180
Query: 181 HHKARPSRRATWKRNQTLSLRRYR 204
HHKARPSRRATWKRNQT+SLRRYR
Sbjct: 181 HHKARPSRRATWKRNQTVSLRRYR 204
>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 = 253 bits (647), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 131/205 (63%), Positives = 145/205 (70%), Gaps = 2/205 (0%)
Query: 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAYKY+ ELWRKKQSDVMRFL RVRCW+YRQ ++ R RPTRPDKARRLGYKAKQ
Sbjct: 1 MGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQGYV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYW 120
YGKP + GV QLKF RS +SVAEERAGR G L+VLNSYW
Sbjct: 61 IYRIRVRRGGRKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHCGALRVLNSYW 120
Query: 121 INEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGH- 179
+ EDSTYK+FEVIL+D H AIR +P WI KPVHKHRE+RGLTSAG+K RGL GKGH
Sbjct: 121 VGEDSTYKFFEVILIDPFHKAIRRNPDTQWITKPVHKHREMRGLTSAGRKSRGL-GKGHK 179
Query: 180 LHHKARPSRRATWKRNQTLSLRRYR 204
HH SRRA W+R TL L RYR
Sbjct: 180 FHHTIGGSRRAAWRRRNTLQLHRYR 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 = 252 bits (644), Expect = 8e-68, Method: Compositional matrix adjust.
Identities = 130/204 (63%), Positives = 143/204 (70%), Gaps = 1/204 (0%)
Query: 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAYKY+ EL RKKQSDV+RFLQRVR WEYRQ I R RPTRPDKARRLGYKAKQ
Sbjct: 1 MGAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQGFV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYW 120
YGKPTNQGV +LK+QRS R+ AEER GR+ L+VLNSYW
Sbjct: 61 IYRVRVRRGNRKRPVPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNSYW 120
Query: 121 INEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+N+DSTYKYFEVILVD H AIR D R NWIC PVHKHRE RGLT+ GKK RG+ KGH
Sbjct: 121 VNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGI-NKGHK 179
Query: 181 HHKARPSRRATWKRNQTLSLRRYR 204
+ + RR TWKR TLSL RYR
Sbjct: 180 FNNTKAGRRKTWKRQNTLSLWRYR 203
>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 = 250 bits (638), Expect = 5e-67, Method: Compositional matrix adjust.
Identities = 129/203 (63%), Positives = 142/203 (69%), Gaps = 1/203 (0%)
Query: 2 GAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXX 61
GAYKY+ EL RKKQSDV+RFLQRVR WEYRQ I R RPTRPDKARRLGYKAKQ
Sbjct: 1 GAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQGFVI 60
Query: 62 XXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWI 121
YGKPTNQGV +LK+QRS R+ AEER GR+ L+VLNSYW+
Sbjct: 61 YRVRVRRGNRKRPVPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNSYWV 120
Query: 122 NEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLH 181
N+DSTYKYFEVILVD H AIR D R NWIC PVHKHRE RGLT+ GKK RG+ KGH
Sbjct: 121 NQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGI-NKGHKF 179
Query: 182 HKARPSRRATWKRNQTLSLRRYR 204
+ + RR TWKR TLSL RYR
Sbjct: 180 NNTKAGRRKTWKRQNTLSLWRYR 202
>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 = 242 bits (617), Expect = 1e-64, Method: Compositional matrix adjust.
Identities = 119/204 (58%), Positives = 144/204 (70%)
Query: 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MGAYKY+ ELWRKKQSD+M F+ R+R WEYRQ P I + +R +RPDKAR+LGYK K
Sbjct: 1 MGAYKYLEELWRKKQSDLMSFILRLRTWEYRQLPVIHKASRSSRPDKARKLGYKNKDGYA 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYW 120
IVYGKP++ G+ QLKF R+ RS AEER G+++ L+VLNSYW
Sbjct: 61 IWRVRVRRGGRKRPVSKGIVYGKPSSVGINQLKFARNLRSCAEERVGKRVPELRVLNSYW 120
Query: 121 INEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+ +D TYK++EVIL D +HNAIRNDPRINWIC+ HKHRELRGLTSAG+K RGLR KGH
Sbjct: 121 VGQDGTYKFYEVILADPSHNAIRNDPRINWICESAHKHRELRGLTSAGRKGRGLRVKGHR 180
Query: 181 HHKARPSRRATWKRNQTLSLRRYR 204
R SR+ W+ Q L LRRYR
Sbjct: 181 AKSLRTSRKGNWRARQMLKLRRYR 204
>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 = 239 bits (610), Expect = 8e-64, Method: Compositional matrix adjust.
Identities = 122/193 (63%), Positives = 135/193 (69%), Gaps = 1/193 (0%)
Query: 2 GAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXX 61
GAYKY+ EL RKKQSDV+RFLQRVR WEYRQ I R RPTRPDKARRLGYKAKQ
Sbjct: 1 GAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQGFVI 60
Query: 62 XXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWI 121
YGKPTNQGV +LK+QRS R+ AEER GR+ L+VLNSYW+
Sbjct: 61 YRVRVRRGNRKRPVPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNSYWV 120
Query: 122 NEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLH 181
N+DSTYKYFEVILVD H AIR D R NWIC PVHKHRE RGLT+ GKK RG+ KGH
Sbjct: 121 NQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGI-NKGHKF 179
Query: 182 HKARPSRRATWKR 194
+ + RR TWKR
Sbjct: 180 NNTKAGRRKTWKR 192
>pdb|3ZF7|Q Chain Q, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 221
Score = 212 bits (540), Expect = 9e-56, Method: Compositional matrix adjust.
Identities = 104/187 (55%), Positives = 127/187 (67%)
Query: 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MG++ Y++ELW+KK SDVMRF+QRVR WE+R +IVR+ RPTRP+KAR +GYK KQ
Sbjct: 18 MGSFMYLNELWKKKSSDVMRFIQRVRAWEFRHQHTIVRLRRPTRPEKARMVGYKTKQGYV 77
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYW 120
I YGKP GV K ++ R VAE+R G+K G L+VLNSYW
Sbjct: 78 VFRVRVRRGGRKRPVHKGITYGKPNTAGVLGRKLNKNNRVVAEQRLGKKYGNLRVLNSYW 137
Query: 121 INEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+N DST+ ++EV+ VD H AIR DPRINWI 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 = 148 bits (373), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 84/191 (43%), Positives = 110/191 (57%), Gaps = 2/191 (1%)
Query: 1 MGAYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXX 60
MG YKY+ E W+ + + L + R ++R+ P +VR+ RPTR D+AR LGY+AKQ
Sbjct: 1 MGMYKYIREAWKSPKKSYVGELLKQRMIKWRREPVVVRIERPTRLDRARALGYQAKQGYV 60
Query: 61 XXXXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYW 120
KP+ G + ++S + +AEE+A RK L+VLNSYW
Sbjct: 61 IVRVRVRKGGRKRPRWKG--GRKPSKMGQVKYSPKKSLQWIAEEKAARKFPNLEVLNSYW 118
Query: 121 INEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHL 180
+ ED YK+FEVI+VD H I++DP+I WI 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 = 130 bits (327), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 107/189 (56%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ E W++ + + L R E+R P++VR+ RPTR D+AR LGYKAKQ
Sbjct: 4 AYSYIREAWKRPKEGQIAELMWHRMQEWRNEPAVVRIERPTRLDRARSLGYKAKQGIIVV 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K V ++ +++ + +AEERA RK L+VLNSY +
Sbjct: 64 RVAIRKGSSRRTRFNKGRRSK--RMMVNRITRKKNIQRIAEERANRKFPNLRVLNSYSVG 121
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
ED +K+ EVIL+D H AI++D +++WI + H+ R RGLTSAG++ RGLRG+G
Sbjct: 122 EDGRHKWHEVILIDPDHPAIKSDDQLSWISRTRHRLRTFRGLTSAGRRCRGLRGQGKGSE 181
Query: 183 KARPSRRAT 191
K RPS R
Sbjct: 182 KVRPSLRVN 190
>pdb|1FFK|I Chain I, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 194
Score = 126 bits (317), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 78/198 (39%), Positives = 110/198 (55%), Gaps = 18/198 (9%)
Query: 4 YKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXXX 63
Y Y+ E W++ + L R ++R+ P++VR+ RPTR D+AR LGYKAK+
Sbjct: 5 YAYIREAWKRPYEGYVGELMWHRLQKWRREPAVVRIPRPTRLDRARALGYKAKKGIIVVR 64
Query: 64 XXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRS-------VAEERAGRKLGGLKVL 116
N+G K ++R +AEERA RK ++VL
Sbjct: 65 VRIRRGGRRATR---------PNKGRKSKKMMVNRRPRKKNLQWIAEERANRKYPNMEVL 115
Query: 117 NSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRG 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
>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 = 125 bits (314), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 99/189 (52%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ + W+ + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWKNPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K QGVT++ ++ + VAEERA R L+VLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+D H AI+ND ++WIC 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 = 125 bits (313), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 99/189 (52%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ + W+ + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 4 AYSYIRDAWKNPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K QGVT++ ++ + VAEERA R L+VLNSY +
Sbjct: 64 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 121
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+D H AI+ND ++WIC 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 = 124 bits (312), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 98/189 (51%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K QGVT++ ++ + VAEERA R L+VLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+D H AI+ND ++WIC 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 = 124 bits (312), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 98/189 (51%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K QGVT++ ++ + VAEERA R L+VLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+D H AI+ND ++WIC 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 = 124 bits (312), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 98/189 (51%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 4 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K QGVT++ ++ + VAEERA R L+VLNSY +
Sbjct: 64 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 121
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+D H AI+ND ++WIC 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 = 124 bits (312), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 98/189 (51%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 4 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K QGVT++ ++ + VAEERA R L+VLNSY +
Sbjct: 64 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 121
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+D H AI+ND ++WIC R RGLT AG++ RGL GKG
Sbjct: 122 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 181
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 182 KTRPSLRSN 190
>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 = 124 bits (312), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 98/189 (51%), Gaps = 2/189 (1%)
Query: 3 AYKYVSELWRKKQSDVMRFLQRVRCWEYRQHPSIVRVTRPTRPDKARRLGYKAKQXXXXX 62
AY Y+ + W + LQ R E+R ++ R+ RPTR DKAR GYKAKQ
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 63 XXXXXXXXXXXXXXXXIVYGKPTNQGVTQLKFQRSKRSVAEERAGRKLGGLKVLNSYWIN 122
K QGVT++ ++ + VAEERA R L+VLNSY +
Sbjct: 65 RVSVRKGSARKRRHKAGRRSK--RQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVG 122
Query: 123 EDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKYRGLRGKGHLHH 182
+D K+ EVIL+D H AI+ND ++WIC R RGLT AG++ RGL GKG
Sbjct: 123 QDGRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSE 182
Query: 183 KARPSRRAT 191
K RPS R+
Sbjct: 183 KTRPSLRSN 191
>pdb|3N71|A Chain A, Crystal Structure Of Cardiac Specific Histone
Methyltransferase Smyd1
Length = 490
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/94 (23%), Positives = 42/94 (44%), Gaps = 19/94 (20%)
Query: 112 GLKVLNSYWINEDSTYKYFEVILVDAAHNAIRNDPRINWICKPVHKHRELRGLTSAGKKY 171
GLK +W + VI + A++A+ D IN++C K +E K +
Sbjct: 20 GLKATKEFWAAD--------VIFAERAYSAVVFDSLINFVCHTCFKRQE--------KLH 63
Query: 172 RGLRGKGHLHHKARPSRRATW--KRNQTLSLRRY 203
R + K H+ R ++ W +N+ ++++Y
Sbjct: 64 RCGQCK-FAHYCDRTCQKDAWLNHKNECAAIKKY 96
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 0.135 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,674,008
Number of Sequences: 62578
Number of extensions: 198096
Number of successful extensions: 466
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 427
Number of HSP's gapped (non-prelim): 22
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)