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= 032796
(133 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 223 bits (567), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 108/133 (81%), Positives = 111/133 (83%)
Query: 1 MAVPXXXXXXXXXXXXXXXRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGS 60
MAVP RP SDR I +K +WRRPKGIDSRVRRKFKGCTLMPNIGYGS
Sbjct: 1 MAVPLLTKKIVKKRVKQFKRPHSDRYIGLKTSWRRPKGIDSRVRRKFKGCTLMPNIGYGS 60
Query: 61 DKKTRHYLPNGFKKFVVHNTKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVV 120
DKKTRHYLPN FKKFVVHN ELELLMMHNRTYCAEIAH+VSTRKRKEIVERAAQLDIVV
Sbjct: 61 DKKTRHYLPNKFKKFVVHNVSELELLMMHNRTYCAEIAHNVSTRKRKEIVERAAQLDIVV 120
Query: 121 TNKLARLRSQEDE 133
TNKLARLRSQEDE
Sbjct: 121 TNKLARLRSQEDE 133
>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 = 172 bits (435), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 79/114 (69%), Positives = 99/114 (86%)
Query: 20 RPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHN 79
R QSDR + +K NWR+P+GID+RVRR+FKG LMPNIGYGS+KKT+H LP+GF+KF+VHN
Sbjct: 22 RHQSDRYVKIKRNWRKPRGIDNRVRRRFKGQILMPNIGYGSNKKTKHMLPSGFRKFLVHN 81
Query: 80 TKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARLRSQEDE 133
KELE+L+M N++YCAEIAH+VS++ RK IVERAAQL I VTN ARLRS+E+E
Sbjct: 82 VKELEVLLMCNKSYCAEIAHNVSSKNRKAIVERAAQLAIRVTNPNARLRSEENE 135
>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 = 117 bits (292), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 59/108 (54%), Positives = 72/108 (66%)
Query: 20 RPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHN 79
R SDR V ENWR+ KGIDS VRR+F+G P IGYGS+KKT+ P+G K F+V N
Sbjct: 19 RHHSDRYHRVAENWRKQKGIDSVVRRRFRGNISQPKIGYGSNKKTKFLSPSGHKTFLVAN 78
Query: 80 TKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARL 127
K+LE L MH +TY AEIAH++S + R I+ RA L I VTN RL
Sbjct: 79 VKDLETLTMHTKTYAAEIAHNISAKNRVVILARAKALGIKVTNPKGRL 126
>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 = 115 bits (287), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 57/103 (55%), Positives = 70/103 (67%)
Query: 20 RPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHN 79
R SDR V ENWR+ KGIDS VRR+F+G P IGYGS+KKT+ P+G K F+V N
Sbjct: 6 RHHSDRYHRVAENWRKQKGIDSVVRRRFRGNISQPKIGYGSNKKTKFLSPSGHKTFLVAN 65
Query: 80 TKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
K+LE L MH +TY AEIAH++S + R I+ RA L I VTN
Sbjct: 66 VKDLETLTMHTKTYAAEIAHNISAKNRVVILARAKALGIKVTN 108
>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 = 112 bits (279), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 55/112 (49%), Positives = 83/112 (74%)
Query: 20 RPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHN 79
R +S+ + +WRRP+GID+RVRR+F+G M IG+ SD T+H LPNGFKKF++ N
Sbjct: 21 RFESEDFAKLDSSWRRPRGIDNRVRRRFRGQRRMAKIGFASDAATKHLLPNGFKKFLIRN 80
Query: 80 TKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARLRSQE 131
+LE+L+M+NRTYC EIAH++S + + +V+RAA+L + +TN A+++ QE
Sbjct: 81 PADLEILLMNNRTYCGEIAHNISAQVKAALVKRAAELGVRLTNANAKVKVQE 132
>pdb|3ZF7|II Chain i, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 132
Score = 105 bits (262), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 47/100 (47%), Positives = 70/100 (70%)
Query: 29 VKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLMM 88
+ +WR+P+G DS VRR++KG MPN GYGSD++T++ P+GFK F V+N ++L +L+M
Sbjct: 29 LSSSWRKPRGEDSPVRRRYKGQKAMPNKGYGSDRRTKYITPSGFKNFPVNNVQDLYMLLM 88
Query: 89 HNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARLR 128
NR Y I+H V + RK IV +A +LD+ + N A+LR
Sbjct: 89 QNRKYAGVISHTVGAKARKAIVRKAHELDVRLINGNAKLR 128
>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 = 89.4 bits (220), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 40/57 (70%), Positives = 50/57 (87%)
Query: 66 HYLPNGFKKFVVHNTKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
H LP+GF+KF+VHN KELE+L+M N++YCAEIAH+VS++ RK IVERAAQL I VTN
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 = 83.6 bits (205), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 44/90 (48%), Positives = 58/90 (64%), Gaps = 2/90 (2%)
Query: 33 WRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHNRT 92
WRRPKGIDS++R K KG P+IG+ S K R P+G+++ +VHN KELE L +
Sbjct: 40 WRRPKGIDSKMRLKLKGKPRSPSIGWSSPKLVRGLHPSGYEEVLVHNVKELEAL--DPKR 97
Query: 93 YCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
A IAH V +KR EI++RA +L I V N
Sbjct: 98 QAARIAHTVGKKKRIEIIKRAEELGIKVLN 127
>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 = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 47/98 (47%), Gaps = 2/98 (2%)
Query: 25 RKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELE 84
+K V +WR+P+G S+ RR KG G+ S R P+GF++ VHN +LE
Sbjct: 136 KKKRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE 195
Query: 85 LLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
+ T IA V RKR+ I E A I V N
Sbjct: 196 --GVDGDTEAVRIASKVGARKRERIEEEAEDAGIRVLN 231
>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 = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 47/98 (47%), Gaps = 2/98 (2%)
Query: 25 RKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELE 84
+K V +WR+P+G S+ RR KG G+ S R P+GF++ VHN +LE
Sbjct: 135 KKKRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE 194
Query: 85 LLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
+ T IA V RKR+ I E A I V 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 = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 47/98 (47%), Gaps = 2/98 (2%)
Query: 25 RKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELE 84
+K V +WR+P+G S+ RR KG G+ S R P+GF++ VHN +LE
Sbjct: 136 KKKRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE 195
Query: 85 LLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
+ T IA V RKR+ I E A I V 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 = 52.8 bits (125), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 47/98 (47%), Gaps = 2/98 (2%)
Query: 25 RKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELE 84
+K V +WR+P+G S+ RR KG G+ S R P+GF++ VHN +LE
Sbjct: 41 KKKRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE 100
Query: 85 LLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
+ T IA V RKR+ I E A I V 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 = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/98 (34%), Positives = 46/98 (46%), Gaps = 2/98 (2%)
Query: 25 RKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELE 84
+K V +WR+P+G S+ RR KG G+ S R P+GF++ VHN +LE
Sbjct: 38 KKKRVSTSWRKPRGQLSKQRRGIKGKGDTVEAGFRSPTAVRGKHPSGFEEVRVHNVDDLE 97
Query: 85 LLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122
+ T I V RKR+ I E A I V N
Sbjct: 98 --GVDGDTEAVRINSKVGARKRERIEEEAEDAGIRVLN 133
>pdb|3R4T|A Chain A, Crystal Structure Of 4-Aminobutyrate Aminotransferase Gabt
From Mycobacterium Marinum Covalently Bound To Pyridoxal
Phosphate
Length = 467
Score = 32.3 bits (72), Expect = 0.078, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 90 NRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARLRSQED 132
N CA + T +R +VERA Q++ +V ++L RL++ +D
Sbjct: 346 NPVACAAALATIETIERDGMVERARQIERLVMDRLLRLQAADD 388
>pdb|1SZH|A Chain A, Crystal Structure Of C. Elegans Her-1
pdb|1SZH|B Chain B, Crystal Structure Of C. Elegans Her-1
Length = 161
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 1/63 (1%)
Query: 32 NWRRPKGIDSRVR-RKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHN 90
N ID+ R K C+L+ N+ Y +K R +G K V+ + E +
Sbjct: 96 NLMTSPSIDAATRLDSIKSCSLLDNVLYKCFEKCRSLRKDGIKIEVLQFEEYCEATFIQK 155
Query: 91 RTY 93
RT+
Sbjct: 156 RTF 158
>pdb|3OO2|A Chain A, 2.37 Angstrom Resolution Crystal Structure Of An Alanine
Racemase (Alr) From Staphylococcus Aureus Subsp. Aureus
Col
pdb|3OO2|B Chain B, 2.37 Angstrom Resolution Crystal Structure Of An Alanine
Racemase (Alr) From Staphylococcus Aureus Subsp. Aureus
Col
Length = 385
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 16/36 (44%)
Query: 57 GYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHNRT 92
G GS K RH + NG F V E L MH T
Sbjct: 47 GLGSVKVARHLMENGATFFAVATLDEAIELRMHGIT 82
>pdb|4A3Q|A Chain A, The 2.15 Angstrom Resolution Crystal Structure Of
Staphylococcus Aureus Alanine Racemase
pdb|4A3Q|B Chain B, The 2.15 Angstrom Resolution Crystal Structure Of
Staphylococcus Aureus Alanine Racemase
Length = 382
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 16/36 (44%)
Query: 57 GYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHNRT 92
G GS K RH + NG F V E L MH T
Sbjct: 44 GLGSVKVARHLMENGATFFAVATLDEAIELRMHGIT 79
>pdb|1IVH|A Chain A, Structure Of Human Isovaleryl-coa Dehydrogenase At 2.6
Angstroms Resolution: Structural Basis For Substrate
Specificity
pdb|1IVH|B Chain B, Structure Of Human Isovaleryl-coa Dehydrogenase At 2.6
Angstroms Resolution: Structural Basis For Substrate
Specificity
pdb|1IVH|C Chain C, Structure Of Human Isovaleryl-coa Dehydrogenase At 2.6
Angstroms Resolution: Structural Basis For Substrate
Specificity
pdb|1IVH|D Chain D, Structure Of Human Isovaleryl-coa Dehydrogenase At 2.6
Angstroms Resolution: Structural Basis For Substrate
Specificity
Length = 394
Score = 26.6 bits (57), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 60 SDKKTRHYLPNGFKKFVVHNTKELELLMMHNRTYCAEI 97
++KK HY+ NG KF + N + ++L+++ +T A +
Sbjct: 151 AEKKGNHYILNG-NKFWITNGPDADVLIVYAKTDLAAV 187
>pdb|2FUG|4 Chain 4, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|D Chain D, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|M Chain M, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|V Chain V, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|4 Chain 4, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|D Chain D, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|4 Chain 4, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|D Chain D, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|4 Chain 4, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|D Chain D, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|M Chain M, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|V Chain V, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|4 Chain 4, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|D Chain D, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|4 Chain 4, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|4 Chain 4, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|E Chain E, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 409
Score = 25.8 bits (55), Expect = 7.7, Method: Composition-based stats.
Identities = 23/84 (27%), Positives = 36/84 (42%), Gaps = 14/84 (16%)
Query: 52 LMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHNRTYCAEIAHDVSTRKRKE--- 108
++P+IGY L GF+K + H T + Y AHD++ E
Sbjct: 55 VVPHIGY---------LHTGFEKTMEHRTYLQNITYTPRMDYLHSFAHDLAYALAVEKLL 105
Query: 109 --IVERAAQLDIVVTNKLARLRSQ 130
+V A+ V+ N+L+RL S
Sbjct: 106 GAVVPPRAETIRVILNELSRLASH 129
>pdb|1VHX|A Chain A, Crystal Structure Of Putative Holliday Junction Resolvase
pdb|1VHX|B Chain B, Crystal Structure Of Putative Holliday Junction Resolvase
Length = 150
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 5/49 (10%)
Query: 76 VVHNTKELELLMMHNR--TYCAE---IAHDVSTRKRKEIVERAAQLDIV 119
V+ T + +++ R T AE IA DVS +KRK+++++ A + I+
Sbjct: 84 VLETTYNVPVVLWDERLTTXAAEKXLIAADVSRQKRKKVIDKXAAVXIL 132
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
0.320 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,203,963
Number of Sequences: 62578
Number of extensions: 116126
Number of successful extensions: 374
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 357
Number of HSP's gapped (non-prelim): 22
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
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: 46 (22.3 bits)