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= psy14535
(155 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|YY Chain y, 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 = 135
Score = 180 bits (456), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 84/113 (74%), Positives = 98/113 (86%)
Query: 43 HQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNV 102
HQSDRY K+ R+WRKP+GIDNRVRRRFKGQ LMPNIGYGS KKT+HMLP+ F K +VHNV
Sbjct: 23 HQSDRYVKIKRNWRKPRGIDNRVRRRFKGQILMPNIGYGSNKKTKHMLPSGFRKFLVHNV 82
Query: 103 KELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNARIRTEENE 155
KELEVL+M N+ YCAEI H VSSK R+ IV+RA QL+IR+TN NAR+R+EENE
Sbjct: 83 KELEVLLMCNKSYCAEIAHNVSSKNRKAIVERAAQLAIRVTNPNARLRSEENE 135
>pdb|3IZR|HH Chain h, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 133
Score = 160 bits (404), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 76/111 (68%), Positives = 90/111 (81%)
Query: 45 SDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKE 104
SDRY L SWR+PKGID+RVRR+FKG LMPNIGYGS KKTRH LPN F K VVHNV E
Sbjct: 23 SDRYIGLKTSWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNKFKKFVVHNVSE 82
Query: 105 LEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNARIRTEENE 155
LE+LMM NR YCAEI H VS++KR++IV+RA QL I +TN AR+R++E+E
Sbjct: 83 LELLMMHNRTYCAEIAHNVSTRKRKEIVERAAQLDIVVTNKLARLRSQEDE 133
>pdb|3ZF7|II Chain i, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 132
Score = 117 bits (292), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 53/108 (49%), Positives = 79/108 (73%)
Query: 43 HQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNV 102
H+ + + +L SWRKP+G D+ VRRR+KGQ MPN GYGS ++T+++ P+ F V+NV
Sbjct: 21 HRCELFPQLSSSWRKPRGEDSPVRRRYKGQKAMPNKGYGSDRRTKYITPSGFKNFPVNNV 80
Query: 103 KELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNARIR 150
++L +L+MQNRKY I H V +K R+ IV++A +L +RL NGNA++R
Sbjct: 81 QDLYMLLMQNRKYAGVISHTVGAKARKAIVRKAHELDVRLINGNAKLR 128
>pdb|4A17|X Chain X, 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|X Chain X, 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|X Chain X, 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|X Chain X, 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 = 134
Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 54/111 (48%), Positives = 81/111 (72%)
Query: 44 QSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVK 103
+S+ + KL SWR+P+GIDNRVRRRF+GQ M IG+ S T+H+LPN F K ++ N
Sbjct: 23 ESEDFAKLDSSWRRPRGIDNRVRRRFRGQRRMAKIGFASDAATKHLLPNGFKKFLIRNPA 82
Query: 104 ELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNARIRTEEN 154
+LE+L+M NR YC EI H +S++ + +V+RA +L +RLTN NA+++ +E+
Sbjct: 83 DLEILLMNNRTYCGEIAHNISAQVKAALVKRAAELGVRLTNANAKVKVQES 133
>pdb|1S1I|0 Chain 0, 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.
pdb|3IZS|HH Chain h, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|BB Chain b, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|BB Chain b, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|EE Chain e, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|EE Chain e, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|EE Chain e, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 130
Score = 107 bits (268), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 53/110 (48%), Positives = 71/110 (64%)
Query: 43 HQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNV 102
H SDRY ++ +WRK KGID+ VRRRF+G P IGYGS KKT+ + P+ +V NV
Sbjct: 20 HHSDRYHRVAENWRKQKGIDSVVRRRFRGNISQPKIGYGSNKKTKFLSPSGHKTFLVANV 79
Query: 103 KELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTNGNARIRTE 152
K+LE L M + Y AEI H +S+K R I+ RA+ L I++TN R+ E
Sbjct: 80 KDLETLTMHTKTYAAEIAHNISAKNRVVILARAKALGIKVTNPKGRLALE 129
>pdb|3JYW|0 Chain 0, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 109
Score = 105 bits (262), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 51/102 (50%), Positives = 68/102 (66%)
Query: 43 HQSDRYKKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNV 102
H SDRY ++ +WRK KGID+ VRRRF+G P IGYGS KKT+ + P+ +V NV
Sbjct: 7 HHSDRYHRVAENWRKQKGIDSVVRRRFRGNISQPKIGYGSNKKTKFLSPSGHKTFLVANV 66
Query: 103 KELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
K+LE L M + Y AEI H +S+K R I+ RA+ L I++TN
Sbjct: 67 KDLETLTMHTKTYAAEIAHNISAKNRVVILARAKALGIKVTN 108
>pdb|2ZKR|9 Chain 9, 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 = 58
Score = 84.0 bits (206), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 39/57 (68%), Positives = 47/57 (82%)
Query: 88 HMLPNHFLKVVVHNVKELEVLMMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
HMLP+ F K +VHNVKELEVL+M N+ YCAEI H VSSK R+ IV+RA QL+IR+TN
Sbjct: 1 HMLPSGFRKFLVHNVKELEVLLMCNKSYCAEIAHNVSSKNRKAIVERAAQLAIRVTN 57
>pdb|3J21|BB Chain b, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 130
Score = 82.8 bits (203), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 40/90 (44%), Positives = 62/90 (68%), Gaps = 2/90 (2%)
Query: 55 WRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVLMMQNRK 114
WR+PKGID+++R + KG+ P+IG+ S K R + P+ + +V+VHNVKELE L ++
Sbjct: 40 WRRPKGIDSKMRLKLKGKPRSPSIGWSSPKLVRGLHPSGYEEVLVHNVKELEAL--DPKR 97
Query: 115 YCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
A I H V KKR +I++RA++L I++ N
Sbjct: 98 QAARIAHTVGKKKRIEIIKRAEELGIKVLN 127
>pdb|1JJ2|X Chain X, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|X Chain X, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|Z Chain Z, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|Z Chain Z, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|Z Chain Z, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|Z Chain Z, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|Z Chain Z, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|Z Chain Z, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|Z Chain Z, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|Z Chain Z, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|Z Chain Z, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|Z Chain Z, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|Z Chain Z, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|Z Chain Z, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|Z Chain Z, 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|X Chain X, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|X Chain X, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|X Chain X, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|X Chain X, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
Length = 240
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 48/96 (50%), Gaps = 2/96 (2%)
Query: 49 KKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVL 108
K++ SWRKP+G ++ RR KG+ G+ S R P+ F +V VHNV +LE
Sbjct: 137 KRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE-- 194
Query: 109 MMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
+ I V ++KR I + A+ IR+ N
Sbjct: 195 GVDGDTEAVRIASKVGARKRERIEEEAEDAGIRVLN 230
>pdb|1S72|Y Chain Y, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|Y Chain Y, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|Y Chain Y, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|Y Chain Y, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|Y Chain Y, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|Y Chain Y, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|Y Chain Y, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|Y Chain Y, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|Y Chain Y, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|Y Chain Y, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|Y Chain Y, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|Y Chain Y, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|Y Chain Y, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|Y Chain Y, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|Y Chain Y, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|Y Chain Y, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|Y Chain Y, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|Y Chain Y, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|Y Chain Y, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|Y Chain Y, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|Y Chain Y, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|Y Chain Y, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|Y Chain Y, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|Y Chain Y, 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|Y Chain Y, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|Y Chain Y, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|Y Chain Y, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|X Chain X, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|Y Chain Y, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|Y Chain Y, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|Y Chain Y, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|Y Chain Y, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 241
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 48/96 (50%), Gaps = 2/96 (2%)
Query: 49 KKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVL 108
K++ SWRKP+G ++ RR KG+ G+ S R P+ F +V VHNV +LE
Sbjct: 138 KRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE-- 195
Query: 109 MMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
+ I V ++KR I + A+ IR+ N
Sbjct: 196 GVDGDTEAVRIASKVGARKRERIEEEAEDAGIRVLN 231
>pdb|3CMA|Y Chain Y, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|Y Chain Y, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
Length = 240
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 48/96 (50%), Gaps = 2/96 (2%)
Query: 49 KKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVL 108
K++ SWRKP+G ++ RR KG+ G+ S R P+ F +V VHNV +LE
Sbjct: 138 KRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE-- 195
Query: 109 MMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
+ I V ++KR I + A+ IR+ N
Sbjct: 196 GVDGDTEAVRIASKVGARKRERIEEEAEDAGIRVLN 231
>pdb|3G4S|Y Chain Y, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|Y Chain Y, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|Y Chain Y, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|X Chain X, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 142
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 48/96 (50%), Gaps = 2/96 (2%)
Query: 49 KKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVL 108
K++ SWRKP+G ++ RR KG+ G+ S R P+ F +V VHNV +LE
Sbjct: 43 KRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE-- 100
Query: 109 MMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
+ I V ++KR I + A+ IR+ N
Sbjct: 101 GVDGDTEAVRIASKVGARKRERIEEEAEDAGIRVLN 136
>pdb|1FFK|V Chain V, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 143
Score = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 32/96 (33%), Positives = 48/96 (50%), Gaps = 2/96 (2%)
Query: 49 KKLHRSWRKPKGIDNRVRRRFKGQYLMPNIGYGSAKKTRHMLPNHFLKVVVHNVKELEVL 108
K++ SWRKP+G ++ RR KG+ G+ S R P+ F +V VHNV +LE
Sbjct: 40 KRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE-- 97
Query: 109 MMQNRKYCAEIGHAVSSKKRRDIVQRAQQLSIRLTN 144
+ I V ++KR I + A+ IR+ N
Sbjct: 98 GVDGDTEAVRINSKVGARKRERIEEEAEDAGIRVLN 133
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
0.319 0.133 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,875,417
Number of Sequences: 62578
Number of extensions: 126386
Number of successful extensions: 368
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 354
Number of HSP's gapped (non-prelim): 17
length of query: 155
length of database: 14,973,337
effective HSP length: 91
effective length of query: 64
effective length of database: 9,278,739
effective search space: 593839296
effective search space used: 593839296
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)