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= 033267
(123 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|VV Chain v, 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 = 123
Score = 129 bits (323), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 69/122 (56%), Positives = 90/122 (73%)
Query: 1 MARIKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTV 60
MA+IK +LR K K + RVAKVTGGA +KLSKI+VVR SIA+VLTV
Sbjct: 1 MAKIKARDLRGKKKEELLKQLDDLKVELSQLRVAKVTGGAASKLSKIRVVRKSIARVLTV 60
Query: 61 ISQKQKAALREAYKNKKFLPLDLRPKKTRAIRRRLTKHQASLKTEREKKREMYFPMRKYA 120
I+Q QK LR+ YK KK+ PLDLRPKKTRA+RRRL KH+ +LKT++++++E +P+RKYA
Sbjct: 61 INQTQKENLRKFYKGKKYKPLDLRPKKTRAMRRRLNKHEENLKTKKQQRKERLYPLRKYA 120
Query: 121 IK 122
+K
Sbjct: 121 VK 122
>pdb|2GO5|5 Chain 5, Structure Of Signal Recognition Particle Receptor (Sr) In
Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
pdb|2J37|5 Chain 5, Model Of Mammalian Srp Bound To 80s Rncs
pdb|3IZR|CC Chain c, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 124
Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 58/122 (47%), Positives = 76/122 (62%), Gaps = 1/122 (0%)
Query: 2 ARIKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTVI 61
++K EL KSK D R+ KV +KL++I +R SIA+VLTVI
Sbjct: 4 GKVKAGELWNKSKDDLTKQLAELKTELGQLRIQKVASSG-SKLNRIHDIRKSIARVLTVI 62
Query: 62 SQKQKAALREAYKNKKFLPLDLRPKKTRAIRRRLTKHQASLKTEREKKREMYFPMRKYAI 121
+ KQ+A LR YKNKK+ PLDLR K+TRAIRRRL+ + S E+ KKR ++FP RK+AI
Sbjct: 63 NAKQRAQLRLFYKNKKYAPLDLRAKQTRAIRRRLSPDEKSRVLEKTKKRTVHFPQRKFAI 122
Query: 122 KV 123
K
Sbjct: 123 KA 124
>pdb|1S1I|X Chain X, 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|2WW9|N Chain N, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound
To The Yeast 80s Ribosome
pdb|2WWA|N Chain N, Cryo-Em Structure Of Idle Yeast Ssh1 Complex Bound To The
Yeast 80s Ribosome
pdb|2WWB|N Chain N, Cryo-Em Structure Of The Mammalian Sec61 Complex Bound To
The Actively Translating Wheat Germ 80s Ribosome
pdb|3IZS|CC Chain c, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|CC Chain c, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|CC Chain c, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|HH Chain h, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|HH Chain h, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|HH Chain h, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 120
Score = 97.1 bits (240), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 59/122 (48%), Positives = 80/122 (65%), Gaps = 3/122 (2%)
Query: 1 MARIKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTV 60
MA +K +ELR KSK +V K++ + L KIK VR SIA VLTV
Sbjct: 1 MAGVKAYELRTKSKEQLASQLVDLKKELAELKVQKLSRPS---LPKIKTVRKSIACVLTV 57
Query: 61 ISQKQKAALREAYKNKKFLPLDLRPKKTRAIRRRLTKHQASLKTEREKKREMYFPMRKYA 120
I+++Q+ A+R+ YK KK+ P DLR KKTRA+RR LTK +AS TE+++K+++ FP RKYA
Sbjct: 58 INEQQREAVRQLYKGKKYQPKDLRAKKTRALRRALTKFEASQVTEKQRKKQIAFPQRKYA 117
Query: 121 IK 122
IK
Sbjct: 118 IK 119
>pdb|4A17|U Chain U, 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|U Chain U, 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|U Chain U, 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|U Chain U, 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 = 124
Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 42/91 (46%), Positives = 65/91 (71%)
Query: 32 RVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAALREAYKNKKFLPLDLRPKKTRAI 91
R+AK+ GG NKL +I +VR +IA+ LT+I++K++ A+++ +K K PLD+R KKTRAI
Sbjct: 33 RIAKIAGGTANKLGRIGIVRKAIAKYLTIINEKRRQAVKDQFKGKSLKPLDIRVKKTRAI 92
Query: 92 RRRLTKHQASLKTEREKKREMYFPMRKYAIK 122
RR+LTK Q + +K+ F +RK+A+K
Sbjct: 93 RRKLTKKQREAVLVKTQKKLNNFGLRKFALK 123
>pdb|3ZF7|KK Chain k, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 127
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 36/123 (29%), Positives = 63/123 (51%), Gaps = 3/123 (2%)
Query: 4 IKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQ 63
+K+ +L++K K D RV++ +L +I+ +R IA+++TV+++
Sbjct: 5 VKIRDLKEKGKDDLLKQLSEFKKELSQLRVSQQMNVGAARLGRIRTIRKGIARIMTVLNK 64
Query: 64 KQKAALREAYKNKKFL---PLDLRPKKTRAIRRRLTKHQASLKTEREKKREMYFPMRKYA 120
++ LR+ Y +KK P LR K T R L ++ + KT R+ + FP R YA
Sbjct: 65 NERENLRKFYSDKKLRSAKPKTLRAKLTHRRRLALKANEKNRKTRRQLRMAHKFPRRIYA 124
Query: 121 IKV 123
+KV
Sbjct: 125 VKV 127
>pdb|3JYW|X Chain X, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus
Ribosome At 8.9a Resolution
Length = 86
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 2 ARIKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTVI 61
A +K +ELR KSK +V K++ + L KIK VR SIA VLTVI
Sbjct: 1 AGVKAYELRTKSKEQLASQLVDLKKELAELKVQKLSRPS---LPKIKTVRKSIACVLTVI 57
Query: 62 SQKQ 65
+++Q
Sbjct: 58 NEQQ 61
>pdb|1S72|V Chain V, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|V Chain V, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|V Chain V, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|V Chain V, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|V Chain V, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|V Chain V, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|V Chain V, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|V Chain V, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|V Chain V, The Structure Of The Transition State Analogue "daa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ5|V Chain V, The Structure Of The Transition State Analogue "raa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ6|V Chain V, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|V Chain V, The Structure Of The Transition State Analogue "dca"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ8|V Chain V, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|V Chain V, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|V Chain V, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|V Chain V, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|V Chain V, The Structure Of The Transition State Analogue "dan"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQN|V Chain V, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To
The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|V Chain V, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|V Chain V, The Structure Of The Transition State Analogue "rap"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|2OTJ|V Chain V, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|V Chain V, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|V Chain V, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|V Chain V, 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|V Chain V, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|V Chain V, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|V Chain V, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|U Chain U, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|V Chain V, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|V Chain V, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|V Chain V, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|V Chain V, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|V Chain V, Co-Crystal Structure Of Triacetyloleandomcyin Bound To
The Large Ribosomal Subunit
pdb|4ADX|V Chain V, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 71
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 2/71 (2%)
Query: 1 MARIKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTV 60
M + V E+R + + R + GGAP +IK +R +IA++ T+
Sbjct: 1 MTVLHVQEIRDMTPAEREAELDDLKTELLNARAVQAAGGAPENPGRIKELRKAIARIKTI 60
Query: 61 ISQKQKAALRE 71
Q ++ L+E
Sbjct: 61 --QGEEGDLQE 69
>pdb|1FFK|S Chain S, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1GIY|W Chain W, 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|1JJ2|U Chain U, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|U Chain U, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|W Chain W, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|W Chain W, Co-Crystal Structure Of Tylosin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1KD1|W Chain W, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|W Chain W, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|W Chain W, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1ML5|WW Chain w, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1K73|W Chain W, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|W Chain W, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|W Chain W, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|W Chain W, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|W Chain W, Crystal Structure Of Ccdap-puromycin Bound At The
Peptidyl Transferase Center Of The 50s Ribosomal
Subunit
pdb|1Q81|W Chain W, Crystal Structure Of Minihelix With 3' Puromycin Bound
To A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|W Chain W, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|W Chain W, 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|U Chain U, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|U Chain U, Structure Of Cca Oligonucleotide Bound To The Trna
Binding Sites Of The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1W2B|U Chain U, Trigger Factor Ribosome Binding Domain In Complex With
50s
pdb|1YL3|W Chain W, 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|2 Chain 2, 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|2 Chain 2, 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|2 Chain 2, 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|3CXC|U Chain U, The Structure Of An Enhanced Oxazolidinone Inhibitor
Bound To The 50s Ribosomal Subunit Of H. Marismortui
Length = 70
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 4 IKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQ 63
+ V E+R + + R + GGAP +IK +R +IA++ T+ Q
Sbjct: 3 LHVQEIRDMTPAEREAELDDLKTELLNARAVQAAGGAPENPGRIKELRKAIARIKTI--Q 60
Query: 64 KQKAALRE 71
++ L+E
Sbjct: 61 GEEGDLQE 68
>pdb|1AOH|A Chain A, Single Cohesin Domain From The Scaffolding Protein Cipa Of
The Clostridium Thermocellum Cellulosome
pdb|1AOH|B Chain B, Single Cohesin Domain From The Scaffolding Protein Cipa Of
The Clostridium Thermocellum Cellulosome
Length = 147
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 33 VAKVTGGAPNKLSKIKVVRLS 53
VAKV GAPN LS IK V +
Sbjct: 105 VAKVKSGAPNGLSVIKFVEVG 125
>pdb|2YVS|A Chain A, Crystal Structure Of Glycolate Oxidase Subunit Glce From
Thermus Thermophilus Hb8
pdb|2YVS|B Chain B, Crystal Structure Of Glycolate Oxidase Subunit Glce From
Thermus Thermophilus Hb8
Length = 219
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 69 LREAYKNKKFLPLDLRPKKTRAI 91
REA+ ++ PLDLRP+ R +
Sbjct: 163 FREAFGGEEARPLDLRPRFPRGL 185
>pdb|3G4S|V Chain V, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|V Chain V, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|V Chain V, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|U Chain U, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 65
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/61 (22%), Positives = 27/61 (44%)
Query: 4 IKVHELRQKSKVDXXXXXXXXXXXXXXXRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQ 63
+ V E+R + + R + GGAP +IK +R +IA++ T+ +
Sbjct: 3 LHVQEIRDMTPAEREAELDDLKTELLNARAVQAAGGAPENPGRIKELRKAIARIKTIQGE 62
Query: 64 K 64
+
Sbjct: 63 E 63
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 0.131 0.345
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,394,230
Number of Sequences: 62578
Number of extensions: 62922
Number of successful extensions: 184
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 166
Number of HSP's gapped (non-prelim): 23
length of query: 123
length of database: 14,973,337
effective HSP length: 85
effective length of query: 38
effective length of database: 9,654,207
effective search space: 366859866
effective search space used: 366859866
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)