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= 031274
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|I Chain I, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 224
Score = 258 bits (660), Expect = 7e-70, Method: Compositional matrix adjust.
Identities = 119/125 (95%), Positives = 121/125 (96%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
MGRRPARCYRQIKNKPYPKSR+CRGVPDPKIRIYDVGMKKKGVDEFP+CVHLVSWEKENV
Sbjct: 1 MGRRPARCYRQIKNKPYPKSRYCRGVPDPKIRIYDVGMKKKGVDEFPYCVHLVSWEKENV 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARIACNKYM K AGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG
Sbjct: 61 SSEALEAARIACNKYMTKNAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
Query: 121 KPQAI 125
KPQ
Sbjct: 121 KPQGT 125
>pdb|2ZKR|HH Chain h, 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 = 214
Score = 212 bits (539), Expect = 9e-56, Method: Compositional matrix adjust.
Identities = 100/126 (79%), Positives = 107/126 (84%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
MGRRPARCYR KNKPYPKSRFCRGVPD KIRI+D+G KK VDEFP C H+VS E E +
Sbjct: 1 MGRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQL 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARI NKYM K GKD FH+RVR+HPFHV+RINKMLSCAGADRLQTGMRGAFG
Sbjct: 61 SSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFG 120
Query: 121 KPQAIV 126
KPQ V
Sbjct: 121 KPQGTV 126
>pdb|1S1I|I Chain I, 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 = 168
Score = 207 bits (526), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 97/125 (77%), Positives = 104/125 (83%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
M RRPARCYR KNKPYPKSR+ R VPD KIRIYD+G KK VDEFP CVHLVS E E +
Sbjct: 1 MARRPARCYRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVHLVSNELEQL 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARI NKYM +G+DAFHLRVRVHPFHVLRINKMLSCAGADRLQ GMRGA+G
Sbjct: 61 SSEALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGADRLQQGMRGAWG 120
Query: 121 KPQAI 125
KP +
Sbjct: 121 KPHGL 125
>pdb|3IZS|I Chain I, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|J Chain J, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|J Chain J, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|I Chain I, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|I Chain I, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|I Chain I, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 221
Score = 206 bits (525), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 97/125 (77%), Positives = 104/125 (83%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
M RRPARCYR KNKPYPKSR+ R VPD KIRIYD+G KK VDEFP CVHLVS E E +
Sbjct: 1 MARRPARCYRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVHLVSNELEQL 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARI NKYM +G+DAFHLRVRVHPFHVLRINKMLSCAGADRLQ GMRGA+G
Sbjct: 61 SSEALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGADRLQQGMRGAWG 120
Query: 121 KPQAI 125
KP +
Sbjct: 121 KPHGL 125
>pdb|3J0L|J Chain J, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 9.8a Cryo-Em Map: Classic Pre State 1
pdb|3J0Q|J Chain J, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 10.6a Cryo-Em Map: Rotated Pre State 2
Length = 219
Score = 204 bits (519), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 96/123 (78%), Positives = 103/123 (83%)
Query: 3 RRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSS 62
RRPARCYR KNKPYPKSR+ R VPD KIRIYD+G KK VDEFP CVHLVS E E +SS
Sbjct: 1 RRPARCYRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVHLVSNELEQLSS 60
Query: 63 EALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKP 122
EALEAARI NKYM +G+DAFHLRVRVHPFHVLRINKMLSCAGADRLQ GMRGA+GKP
Sbjct: 61 EALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGADRLQQGMRGAWGKP 120
Query: 123 QAI 125
+
Sbjct: 121 HGL 123
>pdb|3JYW|I Chain I, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 165
Score = 202 bits (514), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 95/122 (77%), Positives = 102/122 (83%)
Query: 4 RPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSE 63
RPARCYR KNKPYPKSR+ R VPD KIRIYD+G KK VDEFP CVHLVS E E +SSE
Sbjct: 1 RPARCYRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVHLVSNELEQLSSE 60
Query: 64 ALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQ 123
ALEAARI NKYM +G+DAFHLRVRVHPFHVLRINKMLSCAGADRLQ GMRGA+GKP
Sbjct: 61 ALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGADRLQQGMRGAWGKPH 120
Query: 124 AI 125
+
Sbjct: 121 GL 122
>pdb|3ZF7|K Chain K, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 213
Score = 201 bits (510), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 91/124 (73%), Positives = 103/124 (83%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
M RRPARCYR KNKPYPKSRFCRGVPDP+IR +D+G ++ VDEFP CVH+VS E E +
Sbjct: 1 MARRPARCYRFCKNKPYPKSRFCRGVPDPRIRTFDIGKRRAPVDEFPVCVHVVSRELEQI 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARI NKYM K A K+ FH+R+R HPFHVLRINKMLSCAGADRLQTGMR ++G
Sbjct: 61 SSEALEAARIQANKYMVKRANKECFHMRIRAHPFHVLRINKMLSCAGADRLQTGMRQSYG 120
Query: 121 KPQA 124
KP
Sbjct: 121 KPNG 124
>pdb|4A17|H Chain H, 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|H Chain H, 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|H Chain H, 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|H Chain H, 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 = 215
Score = 201 bits (510), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 94/121 (77%), Positives = 104/121 (85%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
MGRRPARCYRQ K KPYPKSR+ RGVPD +IRIYD G KK V+EFP+ VH+VS EKE +
Sbjct: 1 MGRRPARCYRQPKGKPYPKSRYNRGVPDARIRIYDSGRKKATVEEFPYVVHIVSDEKEQI 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
+SEALEAARIA NK + KF KDAFHLR RVHP+HVLRINKMLSCAGADRLQ+GMRGAFG
Sbjct: 61 TSEALEAARIAANKNLIKFISKDAFHLRCRVHPWHVLRINKMLSCAGADRLQSGMRGAFG 120
Query: 121 K 121
K
Sbjct: 121 K 121
>pdb|2PA2|A Chain A, Crystal Structure Of Human Ribosomal Protein L10 Core
Domain
pdb|2PA2|B Chain B, Crystal Structure Of Human Ribosomal Protein L10 Core
Domain
Length = 151
Score = 150 bits (378), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 70/93 (75%), Positives = 77/93 (82%)
Query: 34 YDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHP 93
+D+G KK VDEFP C H+VS E E +SSEALEAARI NKYM K GKD FH+RVR+HP
Sbjct: 3 FDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHP 62
Query: 94 FHVLRINKMLSCAGADRLQTGMRGAFGKPQAIV 126
FHV+RINKMLSCAGADRLQTGMRGAFGKPQ V
Sbjct: 63 FHVIRINKMLSCAGADRLQTGMRGAFGKPQGTV 95
>pdb|3J21|N Chain N, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 181
Score = 98.2 bits (243), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 52/131 (39%), Positives = 71/131 (54%), Gaps = 3/131 (2%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
M RPA+ R + Y + + RG P PKI I+D+G +F F V L + E +
Sbjct: 1 MALRPAKIDRYVDKPAYTRREYIRGAPGPKITIFDMG---NPAGDFEFEVSLHTAEPVQI 57
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
ALEAAR N+Y+ K G+ +H ++RV+PF VLR N M + ADR GMR FG
Sbjct: 58 RQNALEAARQQVNRYLQKNVGRSNYHFKIRVYPFQVLRENPMATGRKADRYGNGMRRPFG 117
Query: 121 KPQAIVFMLKR 131
KP + LK+
Sbjct: 118 KPIGLAARLKK 128
>pdb|1YHQ|H Chain H, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|H Chain H, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|H Chain H, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|H Chain H, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|H Chain H, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|H Chain H, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|H Chain H, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CC2|H Chain H, 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|H Chain H, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|H Chain H, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|H Chain H, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|H Chain H, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|H Chain H, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|H Chain H, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|3G4S|H Chain H, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|H Chain H, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|H Chain H, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|4ADX|H Chain H, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 177
Score = 89.7 bits (221), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 44/122 (36%), Positives = 70/122 (57%), Gaps = 1/122 (0%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
M +PA YR I Y + + G+P KI + +G K+K D++P + L+ E +
Sbjct: 1 MSDKPASMYRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQL 60
Query: 61 SSEALEAARIACNKYMAKFAGKDA-FHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAF 119
+LEA+R++ N+++ K G++ + + +R P VLR NK + AGADR+ GMR AF
Sbjct: 61 RHGSLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGADRVSDGMRAAF 120
Query: 120 GK 121
GK
Sbjct: 121 GK 122
>pdb|2QEX|H Chain H, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
Length = 174
Score = 89.7 bits (221), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 44/122 (36%), Positives = 70/122 (57%), Gaps = 1/122 (0%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
M +PA YR I Y + + G+P KI + +G K+K D++P + L+ E +
Sbjct: 1 MSDKPASMYRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQL 60
Query: 61 SSEALEAARIACNKYMAKFAGKDA-FHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAF 119
+LEA+R++ N+++ K G++ + + +R P VLR NK + AGADR+ GMR AF
Sbjct: 61 RHGSLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGADRVSDGMRAAF 120
Query: 120 GK 121
GK
Sbjct: 121 GK 122
>pdb|3I55|H Chain H, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|H Chain H, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
Length = 174
Score = 89.7 bits (221), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 44/122 (36%), Positives = 70/122 (57%), Gaps = 1/122 (0%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
M +PA YR I Y + + G+P KI + +G K+K D++P + L+ E +
Sbjct: 1 MSDKPASMYRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQL 60
Query: 61 SSEALEAARIACNKYMAKFAGKDA-FHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAF 119
+LEA+R++ N+++ K G++ + + +R P VLR NK + AGADR+ GMR AF
Sbjct: 61 RHGSLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGADRVSDGMRAAF 120
Query: 120 GK 121
GK
Sbjct: 121 GK 122
>pdb|1S72|H Chain H, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1VQ4|H Chain H, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|H Chain H, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|H Chain H, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|H Chain H, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|H Chain H, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|H Chain H, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|H Chain H, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|H Chain H, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|H Chain H, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|H Chain H, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|H Chain H, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|H Chain H, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|H Chain H, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|H Chain H, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|H Chain H, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
Length = 171
Score = 88.2 bits (217), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 43/119 (36%), Positives = 69/119 (57%), Gaps = 1/119 (0%)
Query: 4 RPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSE 63
+PA YR I Y + + G+P KI + +G K+K D++P + L+ E +
Sbjct: 1 KPASMYRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQLRHG 60
Query: 64 ALEAARIACNKYMAKFAGKDA-FHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGK 121
+LEA+R++ N+++ K G++ + + +R P VLR NK + AGADR+ GMR AFGK
Sbjct: 61 SLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGADRVSDGMRAAFGK 119
>pdb|1JJ2|H Chain H, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|H Chain H, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|J Chain J, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|J Chain J, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|J Chain J, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|J Chain J, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|J Chain J, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|J Chain J, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|J Chain J, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|J Chain J, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|J Chain J, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|J Chain J, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|J Chain J, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|J Chain J, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|J Chain J, 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|H Chain H, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|H Chain H, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|H Chain H, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|H Chain H, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3OW2|H Chain H, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 167
Score = 72.8 bits (177), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 58/119 (48%), Gaps = 1/119 (0%)
Query: 4 RPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSE 63
+P YR Y + + G+P KI +D+G G +P V LV + +
Sbjct: 1 KPGAMYRNSSKPAYTRREYISGIPGKKIAQFDMGNNGAG-PTYPAQVELVVEKPVQIRHN 59
Query: 64 ALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKP 122
ALEAAR+A N+Y+ + R+R PFHV+R NK + A A GMR FGKP
Sbjct: 60 ALEAARVAANRYVQNSGAAANYKFRIRKFPFHVIRENKAAAAAAAAAAADGMRAPFGKP 118
>pdb|1FFK|F Chain F, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 157
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 50/118 (42%), Gaps = 11/118 (9%)
Query: 4 RPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSE 63
+P +R Y + + G+P I + +G G +P V V + +
Sbjct: 1 KPGAHFRNSIKPAYTRREYISGIPGKGIAQFKMGNNGAG-PTYPAQVENVVEKPVQIRHN 59
Query: 64 ALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGK 121
ALEAAR A N+++ + R+R PFHV+R ++ GMR FGK
Sbjct: 60 ALEAARNAANRFVQNSGAAANYKFRIRKFPFHVIR----------EQDGDGMRAPFGK 107
>pdb|1GIY|P Chain P, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
pdb|1ML5|PP Chain p, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|P Chain P, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. Large Subunit. The Coordinates For The Small
Subunit Are In The Pdb Entry 1yl4.
pdb|2B66|Q Chain Q, 50s Ribosomal Subunit From A Crystal Structure Of Release
Factor Rf1, Trnas And Mrna Bound To The Ribosome. This
File Contains The 50s Subunit From A Crystal Structure
Of Release Factor Rf1, Trnas And Mrna Bound To The
Ribosome And Is Described In Remark 400
pdb|2B9N|Q Chain Q, 50s Ribosomal Subunit From A Crystal Structure Of Release
Factor Rf2, Trnas And Mrna Bound To The Ribosome. This
File Contains The 50s Subunit From A Crystal Structure
Of Release Factor Rf1, Trnas And Mrna Bound To The
Ribosome And Is Described In Remark 400.
pdb|2B9P|Q Chain Q, 50s Ribosomal Subunit From A Crystal Structure Of The
Ribosome In Complex With Trnas And Mrna With A Stop
Codon In The A-Site. This File Contains The 50s Subunit
From A Crystal Structure Of The Ribosome In Complex With
Trnas And Mrna With A Stop Codon In The A-Site And Is
Described In Remark 400
Length = 138
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 47/100 (47%), Gaps = 22/100 (22%)
Query: 29 PKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSE-------ALEAARIACNKYMAKFAG 81
P R Y G+ KG+ +F + + ENV + ALEAAR A N+++
Sbjct: 4 PTRREYISGIPGKGIAQFKMGNNTYPAQVENVVEKPVQIRHNALEAARNAANRFV----- 58
Query: 82 KDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGK 121
+++ R+R PFHV+R ++ GMR FGK
Sbjct: 59 QNSGKFRIRKFPFHVIR----------EQDGDGMRAPFGK 88
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
0.326 0.137 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,474,537
Number of Sequences: 62578
Number of extensions: 163704
Number of successful extensions: 390
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 367
Number of HSP's gapped (non-prelim): 17
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)