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= 033447
(119 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 = 196 bits (499), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 94/118 (79%), Positives = 106/118 (89%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQTGMRGAFGKPQGTCARV IGQVLLSVRCK+SN+ HA+EALRRAKFKFPG
Sbjct: 102 MLSCAGADRLQTGMRGAFGKPQGTCARVDIGQVLLSVRCKESNAKHAEEALRRAKFKFPG 161
Query: 61 RQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPLAQRQPGRAFLEAT 118
RQKII SRKWGFTKF+R +Y++ K+E RI+ DGVNA+LLG HG LA+R PG+AFL T
Sbjct: 162 RQKIIHSRKWGFTKFTREEYVKLKAEGRIMSDGVNAQLLGSHGRLAKRAPGKAFLAET 219
>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 = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 68/105 (64%), Positives = 81/105 (77%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQTGMRGAFGKPQGT A+V IGQV++S+R K N H EALRRAKFKFPG
Sbjct: 102 MLSCAGADRLQTGMRGAFGKPQGTVAKVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPG 161
Query: 61 RQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPL 105
RQKI +S+KWGFTKF+ ++ +E R++PDG K + GPL
Sbjct: 162 RQKIHISKKWGFTKFNADEFENMVAEKRLIPDGCGVKYIPNRGPL 206
>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 = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 63/107 (58%), Positives = 82/107 (76%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQ+GMRGAFGK G ARV IG +L SVR K+ + +A +AL RAK KFPG
Sbjct: 102 MLSCAGADRLQSGMRGAFGKALGKAARVDIGSILFSVRVKEPHVKYAIDALTRAKAKFPG 161
Query: 61 RQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPLAQ 107
RQK++ S+KWGFTK +RA Y R +++ ++V DG N K++G GPL++
Sbjct: 162 RQKVVTSQKWGFTKLTRAQYSRLRNQKKLVTDGSNVKVIGERGPLSR 208
>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 = 128 bits (321), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 60/80 (75%), Positives = 68/80 (85%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQTGMRGAFGKPQGT ARV IGQV++S+R K N H EALRRAKFKFPG
Sbjct: 71 MLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPG 130
Query: 61 RQKIIVSRKWGFTKFSRADY 80
RQKI +S+KWGFTKF+ ++
Sbjct: 131 RQKIHISKKWGFTKFNADEF 150
>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 = 127 bits (320), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 61/105 (58%), Positives = 73/105 (69%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQ GMRGA+GKP G ARV IGQ++ SVR KDSN E LRRA++KFPG
Sbjct: 100 MLSCAGADRLQQGMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPG 159
Query: 61 RQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPL 105
+QKII+S+KWGFT R +YL+ + + DG K L G L
Sbjct: 160 QQKIILSKKWGFTNLDRPEYLKKREAGEVKDDGAFVKFLSKKGSL 204
>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 = 127 bits (320), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 61/105 (58%), Positives = 73/105 (69%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQ GMRGA+GKP G ARV IGQ++ SVR KDSN E LRRA++KFPG
Sbjct: 102 MLSCAGADRLQQGMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPG 161
Query: 61 RQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPL 105
+QKII+S+KWGFT R +YL+ + + DG K L G L
Sbjct: 162 QQKIILSKKWGFTNLDRPEYLKKREAGEVKDDGAFVKFLSKKGSL 206
>pdb|3ZF7|K Chain K, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 213
Score = 122 bits (306), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 58/106 (54%), Positives = 75/106 (70%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQTGMR ++GKP GTCARV IGQ+LLS+R KD+ A E+LRRAK KFPG
Sbjct: 102 MLSCAGADRLQTGMRQSYGKPNGTCARVRIGQILLSMRTKDTYVPQALESLRRAKMKFPG 161
Query: 61 RQKIIVSRKWGFTKFSRADYLRWKSENRIVPDGVNAKLLGCHGPLA 106
RQ I++S+ WGFT R +Y + ++ G++ KL+ G +
Sbjct: 162 RQIIVISKYWGFTNILRNEYEELRDAGKLQQRGLHVKLITPKGKIT 207
>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 = 98.6 bits (244), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 47/67 (70%), Positives = 54/67 (80%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQ GMRGA+GKP G ARV IGQ++ SVR KDSN E LRRA++KFPG
Sbjct: 99 MLSCAGADRLQQGMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPG 158
Query: 61 RQKIIVS 67
+QKII+S
Sbjct: 159 QQKIILS 165
>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 = 98.6 bits (244), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 47/67 (70%), Positives = 54/67 (80%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPG 60
MLSCAGADRLQ GMRGA+GKP G ARV IGQ++ SVR KDSN E LRRA++KFPG
Sbjct: 102 MLSCAGADRLQQGMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPG 161
Query: 61 RQKIIVS 67
+QKII+S
Sbjct: 162 QQKIILS 168
>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 = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/64 (46%), Positives = 37/64 (57%)
Query: 5 AGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKI 64
AGADR+ GMR AFGK GT ARV G+ L + C ++ H +EA RRA K +I
Sbjct: 107 AGADRVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRI 166
Query: 65 IVSR 68
V R
Sbjct: 167 KVER 170
>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 = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 30/64 (46%), Positives = 37/64 (57%)
Query: 5 AGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFPGRQKI 64
AGADR+ GMR AFGK GT ARV G+ L + C ++ H +EA RRA K +I
Sbjct: 107 AGADRVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRI 166
Query: 65 IVSR 68
V R
Sbjct: 167 KVER 170
>pdb|2QEX|H Chain H, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
Length = 174
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/54 (50%), Positives = 33/54 (61%)
Query: 5 AGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKF 58
AGADR+ GMR AFGK GT ARV G+ L + C ++ H +EA RRA K
Sbjct: 107 AGADRVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKI 160
>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 = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/54 (50%), Positives = 33/54 (61%)
Query: 5 AGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKF 58
AGADR+ GMR AFGK GT ARV G+ L + C ++ H +EA RRA K
Sbjct: 104 AGADRVSDGMRAAFGKIVGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKI 157
>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 = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/59 (44%), Positives = 31/59 (52%)
Query: 1 MLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSHHAQEALRRAKFKFP 59
M + ADR GMR FGKP G AR+ Q +LS+R + A E RRA KFP
Sbjct: 99 MATGRKADRYGNGMRRPFGKPIGLAARLKKDQKILSIRVNRQHLKFAIEGARRAAMKFP 157
>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 = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 13 GMRGAFGKPQGTCARV-AIGQVLLSVRCKDSNSHHAQEALRRAKFK 57
GMR FGKP GT ARV + ++ D N +EA RRAK K
Sbjct: 110 GMRAPFGKPVGTAARVHGANHIFIAWVNPDPN---VEEAWRRAKMK 152
>pdb|3R0O|A Chain A, Crystal Structure Of Carnitinyl-Coa Hydratase From
Mycobacterium Avium
pdb|3R0O|B Chain B, Crystal Structure Of Carnitinyl-Coa Hydratase From
Mycobacterium Avium
pdb|3R0O|C Chain C, Crystal Structure Of Carnitinyl-Coa Hydratase From
Mycobacterium Avium
Length = 273
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 7/39 (17%)
Query: 75 FSRADYLRWKSENRIVPDG--VNAKL-----LGCHGPLA 106
+ +D LRW N +VPDG V A L + C+ PL+
Sbjct: 178 MTASDALRWGLINEVVPDGTVVEAALALAERITCNAPLS 216
>pdb|3A9F|A Chain A, Crystal Structure Of The C-Terminal Domain Of Cytochrome
Cz From Chlorobium Tepidum
pdb|3A9F|B Chain B, Crystal Structure Of The C-Terminal Domain Of Cytochrome
Cz From Chlorobium Tepidum
Length = 92
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 34 LLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGF 72
L+ VRC ++ + L R K+K G+ +IV R GF
Sbjct: 33 LVDVRCNKCHTLDSVADLFRTKYKKTGQVNLIVKRMQGF 71
>pdb|1HVX|A Chain A, Bacillus Stearothermophilus Alpha-Amylase
Length = 515
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 55 KFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRI 89
KF FPGR S KW + F D+ + +RI
Sbjct: 141 KFDFPGRGNTYSSFKWRWYHFDGVDWDESRKLSRI 175
>pdb|2CR2|A Chain A, Solution Structure Of N-Terminal Domain Of Speckle-Type
Poz Protein
Length = 159
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 12/59 (20%)
Query: 34 LLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPD 92
+L+ + +++ + +Q A R + + WGF KF R D+L N ++PD
Sbjct: 86 ILNAKGEETKAMESQRAYR-----------FVQGKDWGFKKFIRRDFLL-DEANGLLPD 132
>pdb|3IVB|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Architectures Of Btb-Cul3 Ubiquitin Ligases: Spopmath-
Macroh2asbcpep1
pdb|3IVQ|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVQ|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Cisbc2
pdb|3IVV|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Spopmath-Pucsbc1_pep1
Length = 145
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 12/59 (20%)
Query: 34 LLSVRCKDSNSHHAQEALRRAKFKFPGRQKIIVSRKWGFTKFSRADYLRWKSENRIVPD 92
+L+ + +++ + +Q A R + + WGF KF R D+L N ++PD
Sbjct: 85 ILNAKGEETKAMESQRAYR-----------FVQGKDWGFKKFIRRDFLL-DEANGLLPD 131
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
0.324 0.136 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,478,364
Number of Sequences: 62578
Number of extensions: 118016
Number of successful extensions: 293
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 276
Number of HSP's gapped (non-prelim): 20
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)