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= 031693
(155 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FTC|G Chain G, Structural Model For The Large Subunit Of The Mammalian
Mitochondrial Ribosome
pdb|3IY9|G Chain G, Leishmania Tarentolae Mitochondrial Large Ribosomal
Subunit Model
Length = 145
Score = 108 bits (269), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 52/117 (44%), Positives = 75/117 (64%), Gaps = 2/117 (1%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
Q +++ FCK+FN RT+ K P+ I D TFE + P+V+++LK AAGIE G
Sbjct: 29 QRGVSINQFCKEFNERTKDIKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKG 88
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDP--YCQYMPLESICKSIIGTAATMGIKVVK 152
+ + G A VTLKH+YEIA++K D Q +PL S+ +SIIG+A ++GI+VVK
Sbjct: 89 ARQTGKEVAGLVTLKHVYEIARIKAQDEAFALQDVPLSSVVRSIIGSARSLGIRVVK 145
>pdb|1EG0|K Chain K, Fitting Of Components With Known Structure Into An 11.5 A
Cryo-Em Map Of The E.Coli 70s Ribosome
Length = 140
Score = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 58/139 (41%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
VAA I+L + Q+ +N+M FCK FNA T K + V IT ++D
Sbjct: 5 VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 63
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F +K+P ++ LKKAAGIE GSS P VT K I EIAK K D L
Sbjct: 64 KSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANS--L 121
Query: 133 ESICKSIIGTAATMGIKVV 151
E+ K I GTA +MGI+VV
Sbjct: 122 EAAMKIIEGTAKSMGIEVV 140
>pdb|1GIY|L Chain L, 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|1MJ1|L Chain L, Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIBOSOMAL
PROTEINS Into A 13 A Cryo-Em Map Of The Coli 70s
Ribosome
pdb|1ML5|LL Chain l, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|L Chain L, 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|K Chain K, 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|K Chain K, 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|K Chain K, 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.
pdb|2JQ7|A Chain A, Model For Thiostrepton Binding To The Ribosomal L11-Rna
pdb|2K3F|A Chain A, Ribosomal Protein L11 From Thermotoga Maritima
Length = 141
Score = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 58/139 (41%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
VAA I+L + Q+ +N+M FCK FNA T K + V IT ++D
Sbjct: 5 VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 63
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F +K+P ++ LKKAAGIE GSS P VT K I EIAK K D L
Sbjct: 64 KSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANS--L 121
Query: 133 ESICKSIIGTAATMGIKVV 151
E+ K I GTA +MGI+VV
Sbjct: 122 EAAMKIIEGTAKSMGIEVV 140
>pdb|1JQM|A Chain A, Fitting Of L11 Protein And Elongation Factor G (Ef-G) In
The Cryo-Em Map Of E. Coli 70s Ribosome Bound With Ef-G,
Gdp And Fusidic Acid
pdb|1JQS|A Chain A, Fitting Of L11 Protein And Elongation Factor G (Domain G'
And V) In The Cryo-Em Map Of E. Coli 70s Ribosome Bound
With Ef-G And Gmppcp, A Nonhydrolysable Gtp Analog
pdb|1JQT|A Chain A, Fitting Of L11 Protein In The Low Resolution Cryo-Em Map
Of E.Coli 70s Ribosome
Length = 139
Score = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 58/139 (41%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
VAA I+L + Q+ +N+M FCK FNA T K + V IT ++D
Sbjct: 4 VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 62
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F +K+P ++ LKKAAGIE GSS P VT K I EIAK K D L
Sbjct: 63 KSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANS--L 120
Query: 133 ESICKSIIGTAATMGIKVV 151
E+ K I GTA +MGI+VV
Sbjct: 121 EAAMKIIEGTAKSMGIEVV 139
>pdb|1MMS|A Chain A, Crystal Structure Of The Ribosomal Protein L11-Rna Complex
pdb|1MMS|B Chain B, Crystal Structure Of The Ribosomal Protein L11-Rna Complex
pdb|1MVR|L Chain L, Decoding Center & Peptidyl Transferase Center From The
X-Ray Structure Of The Thermus Thermophilus 70s
Ribosome, Aligned To The Low Resolution Cryo-Em Map Of
E.Coli 70s Ribosome
pdb|1OLN|A Chain A, Model For Thiostrepton Antibiotic Binding To L11 Substrate
From 50s Ribosomal Rna
Length = 140
Score = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 58/139 (41%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
VAA I+L + Q+ +N+M FCK FNA T K + V IT ++D
Sbjct: 4 VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 62
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F +K+P ++ LKKAAGIE GSS P VT K I EIAK K D L
Sbjct: 63 KSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPD--LNANSL 120
Query: 133 ESICKSIIGTAATMGIKVV 151
E+ K I GTA +MGI+VV
Sbjct: 121 EAAMKIIEGTAKSMGIEVV 139
>pdb|487D|L Chain L, Seven Ribosomal Proteins Fitted To A Cryo-Electron
Microscopic Map Of The Large 50s Subunit At 7.5
Angstroms Resolution
pdb|1PN7|L Chain L, Coordinates Of S12, L11 Proteins And P-Trna, From The 70s
X- Ray Structure Aligned To The 70s Cryo-Em Map Of
E.Coli Ribosome
pdb|1PN8|L Chain L, Coordinates Of S12, L11 Proteins And E-Site Trna From 70s
Crystal Structure Separately Fitted Into The Cryo-Em Map
Of E.Coli 70s.Ef-G.Gdpnp Complex. The Atomic Coordinates
Originally From The E-Site Trna Were Fitted In The
Position Of The Hybrid PE-Site Trna
Length = 133
Score = 91.7 bits (226), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/114 (46%), Positives = 67/114 (58%), Gaps = 3/114 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
Q+ +N+M FCK FNA T K + V IT ++D +F F +K+P ++ LKKAAGIE G
Sbjct: 23 QHGVNIMEFCKRFNAETAD-KAGMILPVVITVYEDKSFTFIIKTPPASFLLKKAAGIEKG 81
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
SS P VT K I EIAK K D LE+ K I GTA +MGI+VV
Sbjct: 82 SSEPKRKIVGKVTRKQIEEIAKTKMPD--LNANSLEAAMKIIEGTAKSMGIEVV 133
>pdb|1R2W|A Chain A, Coordinates Of L11 With 58nts Of 23s Rrna Fitted Into The
Cryo-Em Map Of The 70s Ribosome
pdb|1R2X|A Chain A, Coordinates Of L11 With 58nts Of 23s Rrna Fitted Into The
Cryo-Em Map Of Ef-Tu Ternary Complex (Gdp.Kirromycin)
Bound 70s Ribosome
Length = 141
Score = 89.4 bits (220), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 58/140 (41%), Positives = 74/140 (52%), Gaps = 4/140 (2%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
VAA I+L + Q+ +N+M FCK FNA T K + V IT ++D
Sbjct: 4 VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 62
Query: 73 NTFEFTVKS-PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMP 131
+F F +K+ P ++ LKKAAGIE GSS P VT K I EIAK K D
Sbjct: 63 KSFTFIIKTEPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPD--LNANS 120
Query: 132 LESICKSIIGTAATMGIKVV 151
LE+ K I GTA +MGI+VV
Sbjct: 121 LEAAMKIIEGTAKSMGIEVV 140
>pdb|1P85|G Chain G, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P86|G Chain G, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AW4|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AWB|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|2I2T|I Chain I, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2V|I Chain I, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2J28|I Chain I, Model Of E. Coli Srp Bound To 70s Rncs
pdb|2QOV|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The First 70s Ribosome.
The Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|2QOX|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOZ|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
First 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QP1|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QAM|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAO|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBA|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBC|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBE|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBG|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBI|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The First 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBK|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The Second 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4L|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2VHM|I Chain I, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|I Chain I, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|I Chain I, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|3DEG|H Chain H, Complex Of Elongating Escherichia Coli 70s Ribosome And
Ef4(Lepa)- Gmppnp
pdb|3DF2|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The First 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3DF4|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The Second 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3EP2|I Chain I, Model Of Phe-Trna(Phe) In The Ribosomal Pre-Accommodated
State Revealed By Cryo-Em
pdb|3EQ3|I Chain I, Model Of Trna(Trp)-Ef-Tu In The Ribosomal Pre-Accommodated
State Revealed By Cryo-Em
pdb|3EQ4|I Chain I, Model Of Trna(Leu)-Ef-Tu In The Ribosomal Pre-Accommodated
State Revealed By Cryo-Em
pdb|3FIK|I Chain I, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|2WWQ|I Chain I, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|3OFQ|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Erthromycin Bound.
pdb|3OFC|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The First 70s Ribosome With Chloramphenicol Bound.
pdb|3OFD|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Clindamycin.
pdb|3OG0|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAT|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Telithromycin Bound.
pdb|3J01|I Chain I, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3R8S|I Chain I, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|I Chain I, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J0T|K Chain K, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|K Chain K, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|K Chain K, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|K Chain K, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|K Chain K, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|K Chain K, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J0D|G Chain G, Models For The T. Thermophilus Ribosome Recycling Factor
Bound To The E. Coli Post-Termination Complex
pdb|3J19|I Chain I, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(50s Subunit)
Length = 141
Score = 85.5 bits (210), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 48/138 (34%), Positives = 71/138 (51%), Gaps = 2/138 (1%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
V A ++L V Q +N+M FCK FNA+T + P+ V IT + D
Sbjct: 4 VQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYAD 63
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F K+P LKKAAGI+SGS +P ++ + EIA+ K +D +
Sbjct: 64 RSFTFVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAAD--MTGADI 121
Query: 133 ESICKSIIGTAATMGIKV 150
E++ +SI GTA +MG+ V
Sbjct: 122 EAMTRSIEGTARSMGLVV 139
>pdb|1VS6|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS8|I Chain I, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|3E1B|5 Chain 5, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|5 Chain 5, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
pdb|3I1N|I Chain I, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|I Chain I, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|I Chain I, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|I Chain I, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|I Chain I, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|I Chain I, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|I Chain I, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|1VT2|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|I Chain I, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The First
70s Ribosome Bound To Cem-101.
pdb|3IZT|J Chain J, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|J Chain J, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3SGF|I Chain I, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|I Chain I, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAR|I Chain I, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|I Chain I, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 142
Score = 85.5 bits (210), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 48/138 (34%), Positives = 71/138 (51%), Gaps = 2/138 (1%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
V A ++L V Q +N+M FCK FNA+T + P+ V IT + D
Sbjct: 5 VQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYAD 64
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F K+P LKKAAGI+SGS +P ++ + EIA+ K +D +
Sbjct: 65 RSFTFVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAAD--MTGADI 122
Query: 133 ESICKSIIGTAATMGIKV 150
E++ +SI GTA +MG+ V
Sbjct: 123 EAMTRSIEGTARSMGLVV 140
>pdb|2GYA|G Chain G, Structure Of The 50s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYC|G Chain G, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 139
Score = 85.5 bits (210), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 48/138 (34%), Positives = 71/138 (51%), Gaps = 2/138 (1%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
V A ++L V Q +N+M FCK FNA+T + P+ V IT + D
Sbjct: 3 VQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYAD 62
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F K+P LKKAAGI+SGS +P ++ + EIA+ K +D +
Sbjct: 63 RSFTFVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAAD--MTGADI 120
Query: 133 ESICKSIIGTAATMGIKV 150
E++ +SI GTA +MG+ V
Sbjct: 121 EAMTRSIEGTARSMGLVV 138
>pdb|3BBO|K Chain K, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 224
Score = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 46/110 (41%), Positives = 61/110 (55%), Gaps = 3/110 (2%)
Query: 41 LNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSR 100
+N+MAFCKD+NART KP + V IT F D +F F +K+P + L KA+G E GS
Sbjct: 104 VNIMAFCKDYNARTAD-KPGFVIPVEITVFDDKSFTFILKTPPASVLLLKASGAEKGSKD 162
Query: 101 PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKV 150
P +T+ + IA K D C +ES + I GTAA MGI +
Sbjct: 163 PQMEKVGKITIDQLRGIATEKLPDLNCTT--IESAMRIIAGTAANMGIDI 210
>pdb|2J01|K Chain K, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
This File Contains The 50s Subunit From Molecule I.
pdb|2J03|K Chain K, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
This File Contains The 50s Subunit From Molecule Ii.
pdb|2HGJ|L Chain L, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgi.
pdb|2HGQ|L Chain L, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgq Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgp.
pdb|2HGU|L Chain L, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr.
pdb|2NXN|B Chain B, T. Thermophilus Ribosomal Protein L11 Methyltransferase
(Prma) In Complex With Ribosomal Protein L11
pdb|2H8W|A Chain A, Solution Structure Of Ribosomal Protein L11
pdb|2E34|A Chain A, L11 Structure With Rdc And Rg Refinement
pdb|2E35|A Chain A, The Minimized Average Structure Of L11 With Rg Refinement
pdb|2E36|A Chain A, L11 With Sans Refinement
pdb|3CJT|B Chain B, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|D Chain D, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|F Chain F, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|H Chain H, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|J Chain J, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|L Chain L, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|N Chain N, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3CJT|P Chain P, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Dimethylated Ribosomal Protein L11
pdb|3F1F|K Chain K, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes As Described In
Remark 400.
pdb|3F1H|K Chain K, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes As
Described In Remark 400.
pdb|2WH2|K Chain K, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH4|K Chain K, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2KLM|A Chain A, Solution Structure Of L11 With Saxs And Rdc
pdb|2WRJ|K Chain K, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 2 Of 4).
pdb|2WRL|K Chain K, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State. (Part 4 Of
4).
pdb|3I8I|L Chain L, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|2X9S|K Chain K, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|K Chain K, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XTG|K Chain K, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|K Chain K, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
Length = 147
Score = 78.6 bits (192), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 65/118 (55%), Gaps = 3/118 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
Q+ N+M F K FNA T + + V IT + D +F F K+P ++ ++KAAG+E G
Sbjct: 29 QHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 87
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
+ +PG +T + + EIAK K D LE+ + I G+A +MG++VV E
Sbjct: 88 AHKPGREKVGRITWEQVLEIAKQKMPD--LNTTDLEAAARMIAGSARSMGVEVVGAPE 143
>pdb|3EGV|B Chain B, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Trimethylated Ribosomal Protein L11
Length = 146
Score = 78.6 bits (192), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 41/114 (35%), Positives = 64/114 (56%), Gaps = 3/114 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
Q+ N+M F K FNA T + + V IT + D +F F K+P ++ ++KAAG+E G
Sbjct: 28 QHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 86
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
+ +PG +T + + EIA KQ P LE+ + I G+A +MG++VV
Sbjct: 87 AHKPGREKVGRITWEQVLEIA--KQKMPDLNTTDLEAAARMIAGSARSMGVEVV 138
>pdb|3FIN|L Chain L, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit
Length = 138
Score = 78.2 bits (191), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 41/114 (35%), Positives = 64/114 (56%), Gaps = 3/114 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
Q+ N+M F K FNA T + + V IT + D +F F K+P ++ ++KAAG+E G
Sbjct: 28 QHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 86
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
+ +PG +T + + EIAK K D LE+ + I G+A +MG++VV
Sbjct: 87 AHKPGREKVGRITWEQVLEIAKQKMPD--LNTTDLEAAARMIAGSARSMGVEVV 138
>pdb|3CJR|B Chain B, Ribosomal Protein L11 Methyltransferase (prma) In Complex
With Ribosomal Protein L11 (k39a) And Inhibitor
Sinefungin
Length = 147
Score = 76.6 bits (187), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 41/118 (34%), Positives = 64/118 (54%), Gaps = 3/118 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
Q+ N+M F FNA T + + V IT + D +F F K+P ++ ++KAAG+E G
Sbjct: 29 QHGANIMEFVAAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 87
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
+ +PG +T + + EIAK K D LE+ + I G+A +MG++VV E
Sbjct: 88 AHKPGREKVGRITWEQVLEIAKQKMPD--LNTTDLEAAARMIAGSARSMGVEVVGAPE 143
>pdb|3CJQ|B Chain B, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Dimethylated Ribosomal Protein L11 In Space Group
P212121
pdb|3CJQ|E Chain E, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Dimethylated Ribosomal Protein L11 In Space Group
P212121
pdb|3CJQ|H Chain H, Ribosomal Protein L11 Methyltransferase (Prma) In Complex
With Dimethylated Ribosomal Protein L11 In Space Group
P212121
Length = 146
Score = 76.6 bits (187), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 41/118 (34%), Positives = 64/118 (54%), Gaps = 3/118 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
Q+ N+M F FNA T + + V IT + D +F F K+P ++ ++KAAG+E G
Sbjct: 28 QHGANIMEFVAAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 86
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
+ +PG +T + + EIAK K D LE+ + I G+A +MG++VV E
Sbjct: 87 AHKPGREKVGRITWEQVLEIAKQKMPD--LNTTDLEAAARMIAGSARSMGVEVVGAPE 142
>pdb|1PNU|G Chain G, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome. This
File, 1pnu, Contains Only Molecules Of The 50s Ribosomal
Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site
Trna Are In The Pdb File 1pns.
pdb|1PNY|G Chain G, Crystal Structure Of The Wild Type Ribosome From E. Coli,
50s Subunit Of 70s Ribosome. This File, 1pny, Contains
Only Molecules Of The 50s Ribosomal Subunit. The 30s
Subunit Is In The Pdb File 1pnx.
pdb|1VOR|J Chain J, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|J Chain J, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|J Chain J, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|J Chain J, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|J Chain J, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 143
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 44/138 (31%), Positives = 67/138 (48%), Gaps = 3/138 (2%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
VA ++L + QY N+M F K FNA+T K + + V IT + D
Sbjct: 4 VAGIVKLQLPAGKATPAPPVGPALGQYGANIMEFTKAFNAQTAD-KGDAIIPVEITIYAD 62
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F K+P +++ ++KAAGI GSS P + + EIAK K D +
Sbjct: 63 RSFTFITKTPPMSYLIRKAAGIGKGSSTPNKAKVGKLNWDQVLEIAKTKMPD--LNAGSV 120
Query: 133 ESICKSIIGTAATMGIKV 150
E+ ++ GTA +MG+ V
Sbjct: 121 EAAANTVAGTARSMGVTV 138
>pdb|1NKW|G Chain G, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1NWX|G Chain G, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Abt-773
pdb|1NWY|G Chain G, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Azithromycin
pdb|1SM1|G Chain G, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
pdb|1XBP|G Chain G, Inhibition Of Peptide Bond Formation By Pleuromutilins:
The Structure Of The 50s Ribosomal Subunit From
Deinococcus Radiodurans In Complex With Tiamulin
pdb|2ZJP|F Chain F, Thiopeptide Antibiotic Nosiheptide Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|2ZJQ|F Chain F, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
pdb|2ZJR|F Chain F, Refined Native Structure Of The Large Ribosomal Subunit
(50s) From Deinococcus Radiodurans
pdb|3CF5|F Chain F, Thiopeptide Antibiotic Thiostrepton Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|3DLL|F Chain F, The Oxazolidinone Antibiotics Perturb The Ribosomal
Peptidyl-Transferase Center And Effect Trna Positioning
pdb|3PIO|F Chain F, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
pdb|3PIP|F Chain F, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
Length = 144
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 44/138 (31%), Positives = 67/138 (48%), Gaps = 3/138 (2%)
Query: 13 VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
VA ++L + QY N+M F K FNA+T K + + V IT + D
Sbjct: 4 VAGIVKLQLPAGKATPAPPVGPALGQYGANIMEFTKAFNAQTAD-KGDAIIPVEITIYAD 62
Query: 73 NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
+F F K+P +++ ++KAAGI GSS P + + EIAK K D +
Sbjct: 63 RSFTFITKTPPMSYLIRKAAGIGKGSSTPNKAKVGKLNWDQVLEIAKTKMPD--LNAGSV 120
Query: 133 ESICKSIIGTAATMGIKV 150
E+ ++ GTA +MG+ V
Sbjct: 121 EAAANTVAGTARSMGVTV 138
>pdb|1HC8|A Chain A, Crystal Structure Of A Conserved Ribosomal Protein-Rna
Complex
pdb|1HC8|B Chain B, Crystal Structure Of A Conserved Ribosomal Protein-Rna
Complex
Length = 76
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 41/76 (53%), Gaps = 2/76 (2%)
Query: 75 FEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLES 134
F F K+P LKKAAGIESGS P +T+ + EIA++K P +E+
Sbjct: 1 FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEA 58
Query: 135 ICKSIIGTAATMGIKV 150
+ I GTA +MGI V
Sbjct: 59 AMRMIEGTARSMGIVV 74
>pdb|1Y39|A Chain A, Co-Evolution Of Protein And Rna Structures Within A Highly
Conserved Ribosomal Domain
pdb|1Y39|B Chain B, Co-Evolution Of Protein And Rna Structures Within A Highly
Conserved Ribosomal Domain
Length = 76
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 75 FEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLES 134
F F K+P LKKAAGIESGS P +T+ + EIA++K P +E+
Sbjct: 1 FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEA 58
Query: 135 ICKSIIGTAATMGIKV 150
+ I GTA MGI V
Sbjct: 59 AMRMIEGTARNMGIVV 74
>pdb|3J21|H Chain H, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 164
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 53/113 (46%), Gaps = 8/113 (7%)
Query: 41 LNLMAFCKDFNARTQKYKPETPMSVTITAFKD---NTFEFTVKSPSVTWYLKKAAGIESG 97
LN+ N T+ + M V + D FE V P + +KK G+E G
Sbjct: 30 LNVKQVVDKINEATKDF---AGMQVPVKIIVDPVTKQFEIEVGVPPTSQLIKKELGLEKG 86
Query: 98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKV 150
S P H +T++ + +IAK+K+ + L++ K +IGTA +MG+ V
Sbjct: 87 SGEPKHNIVGNLTMEQVIKIAKMKKDQMLA--LTLKAAAKEVIGTALSMGVTV 137
>pdb|1ACI|A Chain A, L11 Ribosomal Protein Rna Binding Domain, Nmr, 20
Structures
pdb|1FOW|A Chain A, Nmr Structure Of L11-C76, The C-Terminal Domain Of 50s
Ribosomal Protein L11, Minimized Average Structure
pdb|1FOX|A Chain A, Nmr Structure Of L11-C76, The C-Terminal Domain Of 50s
Ribosomal Protein L11, 33 Structures
pdb|1FOY|A Chain A, The Rna Binding Domain Of Ribosomal Protein L11: Three-
Dimensional Structure Of The Rna-Bound Form Of The
Protein, Nmr, Minimized Average Structure
pdb|2FOW|A Chain A, The Rna Binding Domain Of Ribosomal Protein L11: Three-
Dimensional Structure Of The Rna-Bound Form Of The
Protein, Nmr, 26 Structures
Length = 76
Score = 53.1 bits (126), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
F K+P LKKAAGIESGS P +T+ + EIA++K P +E+
Sbjct: 3 FITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEAAM 60
Query: 137 KSIIGTAATMGIKV 150
+ I GTA +MGI V
Sbjct: 61 RMIEGTARSMGIVV 74
>pdb|1QA6|A Chain A, Crystal Structure Of A Conserved Ribosomal Protein-Rna
Complex
pdb|1QA6|B Chain B, Crystal Structure Of A Conserved Ribosomal Protein-Rna
Complex
pdb|1C04|C Chain C, Identification Of Known Protein And Rna Structures In A 5
A Map Of The Large Ribosomal Subunit From Haloarcula
Marismortui
Length = 67
Score = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 80 KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSI 139
K+P LKKAAGIESGS P +T+ + EIA++K P +E+ + I
Sbjct: 1 KTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEAAMRMI 58
Query: 140 IGTAATMGI 148
GTA +MGI
Sbjct: 59 EGTARSMGI 67
>pdb|2OTJ|I Chain I, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
Length = 161
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 3/113 (2%)
Query: 41 LNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSR 100
+++ A ++ N +T + T + VT+ D +FE V P +K AG E+GS
Sbjct: 28 VDVQAVVQEINDQTAAFD-GTEVPVTVKYDDDGSFEIEVGVPPTAELIKDEAGFETGSGE 86
Query: 101 PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE 153
P + +++ + +IA+ K D Y L + K ++GT ++G+ + E
Sbjct: 87 PQEDFVADLSVDQVKQIAEQKHPD-LLSYD-LTNAAKEVVGTCTSLGVTIEGE 137
>pdb|1S72|I Chain I, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|I Chain I, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|I Chain I, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|I Chain I, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|I Chain I, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|I Chain I, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|I Chain I, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|I Chain I, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|I Chain I, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|I Chain I, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|I Chain I, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|I Chain I, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|I Chain I, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|I Chain I, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|I Chain I, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|I Chain I, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|I Chain I, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|I Chain I, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|I Chain I, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|I Chain I, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTL|I Chain I, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|I Chain I, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|I Chain I, 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|I Chain I, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|I Chain I, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|I Chain I, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CMA|I Chain I, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|I Chain I, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|I Chain I, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|I Chain I, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|I Chain I, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
Length = 162
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 3/113 (2%)
Query: 41 LNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSR 100
+++ A ++ N +T + T + VT+ D +FE V P +K AG E+GS
Sbjct: 29 VDVQAVVQEINDQTAAFD-GTEVPVTVKYDDDGSFEIEVGVPPTAELIKDEAGFETGSGE 87
Query: 101 PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE 153
P + +++ + +IA+ K D Y L + K ++GT ++G+ + E
Sbjct: 88 PQEDFVADLSVDQVKQIAEQKHPD-LLSYD-LTNAAKEVVGTCTSLGVTIEGE 138
>pdb|2BCW|A Chain A, Coordinates Of The N-Terminal Domain Of Ribosomal
Protein L11,C-Terminal Domain Of Ribosomal Protein
L7L12 AND A Portion Of The G' Domain Of Elongation
Factor G, As Fitted Into Cryo-Em Map Of An Escherichia
Coli 70sEf- GGdpFusidic Acid Complex
Length = 65
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKS 81
Q+ +N+M FCK FNA T K + V IT ++D +F F +K+
Sbjct: 23 QHGVNIMEFCKRFNAETAD-KAGMILPVVITVYEDKSFTFIIKT 65
>pdb|3CJS|B Chain B, Minimal Recognition Complex Between Prma And Ribosomal
Protein L11
pdb|3CJS|C Chain C, Minimal Recognition Complex Between Prma And Ribosomal
Protein L11
Length = 72
Score = 33.5 bits (75), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSP 82
Q+ N+M F K FNA T + + V IT + D +F F K+P
Sbjct: 29 QHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTP 72
>pdb|3G4S|I Chain I, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|I Chain I, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|I Chain I, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
Length = 70
Score = 33.5 bits (75), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 2/69 (2%)
Query: 82 PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIG 141
P +K AG E+GS P + +++ + +IA+ K D Y L + K ++G
Sbjct: 3 PPTAELIKDEAGFETGSGEPQEDFVADLSVDQVKQIAEQKHPD-LLSY-DLTNAAKEVVG 60
Query: 142 TAATMGIKV 150
T ++G+ +
Sbjct: 61 TCTSLGVTI 69
>pdb|3EIN|A Chain A, Delta Class Gst
pdb|3MAK|A Chain A, Crystal Structure Of Glutathione Transferase Dmgstd1 From
Drosophila Melanogaster, In Complex With Glutathione
Length = 209
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 19/26 (73%)
Query: 129 YMPLESICKSIIGTAATMGIKVVKEL 154
Y+P S C+S+I TA +G+++ K+L
Sbjct: 6 YLPGSSPCRSVIMTAKAVGVELNKKL 31
>pdb|1M3U|A Chain A, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|B Chain B, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|C Chain C, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|D Chain D, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|E Chain E, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|F Chain F, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|G Chain G, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|H Chain H, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|I Chain I, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
pdb|1M3U|J Chain J, Crystal Structure Of Ketopantoate Hydroxymethyltransferase
Complexed The Product Ketopantoate
Length = 264
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 32/74 (43%), Gaps = 5/74 (6%)
Query: 55 QKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHI 114
QKYK E TITA+ D +F + L G G + GH + VT+ I
Sbjct: 10 QKYKQEKKRFATITAY-DYSFAKLFADEGLNVML---VGDSLGMTVQGHDSTLPVTVADI 65
Query: 115 -YEIAKVKQSDPYC 127
Y A V++ P C
Sbjct: 66 AYHTAAVRRGAPNC 79
>pdb|1XDV|A Chain A, Experimentally Phased Structure Of Human The Son Of
Sevenless Protein At 4.1 Ang.
pdb|1XDV|B Chain B, Experimentally Phased Structure Of Human The Son Of
Sevenless Protein At 4.1 Ang
Length = 847
Score = 27.3 bits (59), Expect = 3.9, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAK---VKQSDPYCQYMPLE 133
F P+V W++ SRPGH+ + H EIA+ + +SD Y P E
Sbjct: 557 FQSSPPTVEWHI----------SRPGHIETFDLLTLHPIEIARQLTLLESDLYRAVQPSE 606
Query: 134 SI 135
+
Sbjct: 607 LV 608
>pdb|3KSY|A Chain A, Crystal Structure Of The Histone Domain, Dh-Ph Unit, And
Catalytic Unit Of The Ras Activator Son Of Sevenless
(Sos)
Length = 1049
Score = 27.3 bits (59), Expect = 3.9, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAK---VKQSDPYCQYMPLE 133
F P+V W++ SRPGH+ + H EIA+ + +SD Y P E
Sbjct: 754 FQSSPPTVEWHI----------SRPGHIETFDLLTLHPIEIARQLTLLESDLYRAVQPSE 803
Query: 134 SI 135
+
Sbjct: 804 LV 805
>pdb|1XD4|A Chain A, Crystal Structure Of The Dh-Ph-Cat Module Of Son Of
Sevenless (Sos)
pdb|1XD4|B Chain B, Crystal Structure Of The Dh-Ph-Cat Module Of Son Of
Sevenless (Sos)
Length = 852
Score = 26.9 bits (58), Expect = 4.0, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAK---VKQSDPYCQYMPLE 133
F P+V W++ SRPGH+ + H EIA+ + +SD Y P E
Sbjct: 557 FQSSPPTVEWHI----------SRPGHIETFDLLTLHPIEIARQLTLLESDLYRAVQPSE 606
Query: 134 SI 135
+
Sbjct: 607 LV 608
>pdb|2PGW|A Chain A, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
pdb|2PGW|B Chain B, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
pdb|2PGW|C Chain C, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
pdb|2PGW|D Chain D, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
pdb|2PGW|E Chain E, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
pdb|2PGW|F Chain F, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
pdb|2PGW|G Chain G, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
pdb|2PGW|H Chain H, Crystal Structure Of A Putative Muconate Cycloisomerase
From Sinorhizobium Meliloti 1021
Length = 384
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 75 FEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYC 127
EF ++ P+V+W + A + P + TL +YEI + + +D C
Sbjct: 218 IEF-IEQPTVSWSIPAXAHVREKVGIPIVADQAAFTLYDVYEICRQRAADXIC 269
>pdb|1BKD|S Chain S, Complex Of Human H-Ras With Human Sos-1
Length = 477
Score = 26.6 bits (57), Expect = 5.8, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAK---VKQSDPYCQYMPLE 133
F P+V W++ SRPGH+ + H EIA+ + +SD Y P E
Sbjct: 187 FQSSPPTVEWHI----------SRPGHIETFDLLTLHPIEIARQLTLLESDLYRAVQPSE 236
Query: 134 SI 135
+
Sbjct: 237 LV 238
>pdb|2II0|A Chain A, Crystal Structure Of Catalytic Domain Of Son Of Sevenless
(Rem-Cdc25) In The Absence Of Ras
Length = 490
Score = 26.6 bits (57), Expect = 6.0, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAK---VKQSDPYCQYMPLE 133
F P+V W++ SRPGH+ + H EIA+ + +SD Y P E
Sbjct: 195 FQSSPPTVEWHI----------SRPGHIETFDLLTLHPIEIARQLTLLESDLYRAVQPSE 244
Query: 134 SI 135
+
Sbjct: 245 LV 246
>pdb|1NVU|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
pdb|1NVV|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-specific Nucleotide Exchange Factor Sos
pdb|1NVW|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-specific Nucleotide Exchange Factor Sos
pdb|1NVX|S Chain S, Structural Evidence For Feedback Activation By Rasgtp Of
The Ras-Specific Nucleotide Exchange Factor Sos
Length = 481
Score = 26.6 bits (57), Expect = 6.0, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAK---VKQSDPYCQYMPLE 133
F P+V W++ SRPGH+ + H EIA+ + +SD Y P E
Sbjct: 189 FQSSPPTVEWHI----------SRPGHIETFDLLTLHPIEIARQLTLLESDLYRAVQPSE 238
Query: 134 SI 135
+
Sbjct: 239 LV 240
>pdb|1XD2|C Chain C, Crystal Structure Of A Ternary Ras:sos:ras*gdp Complex
Length = 484
Score = 26.6 bits (57), Expect = 6.1, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 77 FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAK---VKQSDPYCQYMPLE 133
F P+V W++ SRPGH+ + H EIA+ + +SD Y P E
Sbjct: 189 FQSSPPTVEWHI----------SRPGHIETFDLLTLHPIEIARQLTLLESDLYRAVQPSE 238
Query: 134 SI 135
+
Sbjct: 239 LV 240
>pdb|2WYS|A Chain A, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
pdb|2WYS|B Chain B, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
pdb|2WZE|A Chain A, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D
Xylanas Xylohexaose
pdb|2WZE|B Chain B, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D
Xylanas Xylohexaose
Length = 540
Score = 26.2 bits (56), Expect = 7.6, Method: Composition-based stats.
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 23/99 (23%)
Query: 54 TQKYK-PETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLK 112
+ KYK P+T +++T++ D+T +F ++T G + V A+ LK
Sbjct: 135 SAKYKAPKTAVNITLSITTDSTVDFIFDDVTIT---------RKGXAEANTVYAANAVLK 185
Query: 113 HIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
D Y Y + S+ S GT IK +
Sbjct: 186 -----------DXYANYFRVGSVLNS--GTVNNSSIKAL 211
>pdb|2W5F|A Chain A, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
pdb|2W5F|B Chain B, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
Length = 540
Score = 25.8 bits (55), Expect = 9.2, Method: Composition-based stats.
Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 10/63 (15%)
Query: 54 TQKYK-PETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLK 112
+ KYK P+T +++T++ D+T +F ++T G + V A+ LK
Sbjct: 135 SAKYKAPKTAVNITLSITTDSTVDFIFDDVTIT---------RKGMAEANTVYAANAVLK 185
Query: 113 HIY 115
+Y
Sbjct: 186 DMY 188
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
0.318 0.130 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,682,159
Number of Sequences: 62578
Number of extensions: 121064
Number of successful extensions: 290
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 227
Number of HSP's gapped (non-prelim): 40
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)