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= 033375
(120 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GO5|6 Chain 6, Structure Of Signal Recognition Particle Receptor (Sr) In
Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
pdb|2J37|6 Chain 6, Model Of Mammalian Srp Bound To 80s Rncs
Length = 123
Score = 174 bits (440), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 88/113 (77%), Positives = 98/113 (86%)
Query: 8 RKEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSR 67
RK+EVVTRE+T+NLHKRLHGCTFKKKAP AIKEIRKFA+KAMGT DVR+DVKLNK IWS
Sbjct: 11 RKDEVVTREYTVNLHKRLHGCTFKKKAPNAIKEIRKFAQKAMGTNDVRIDVKLNKHIWSS 70
Query: 68 GIRSVPKXXXXXXXXXXNDDEDAKEELYSLVTVAEIPPEGLRGLGTKVIEDED 120
GIRSVP+ ND+EDAKEELYSLVTVAE+P EGL+GLGTKV+EDED
Sbjct: 71 GIRSVPRRVRVRIARKRNDEEDAKEELYSLVTVAEVPQEGLKGLGTKVVEDED 123
>pdb|3IZR|GG Chain g, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 123
Score = 172 bits (435), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 91/123 (73%), Positives = 103/123 (83%), Gaps = 3/123 (2%)
Query: 1 MVEKTKG---RKEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVD 57
M EK +G RK+EVVTRE+TINLHKRLHGCTFKKKAP AIKEIRKFA+KAMGT D+R+D
Sbjct: 1 MSEKKRGAGTRKDEVVTREYTINLHKRLHGCTFKKKAPNAIKEIRKFAQKAMGTTDIRID 60
Query: 58 VKLNKQIWSRGIRSVPKXXXXXXXXXXNDDEDAKEELYSLVTVAEIPPEGLRGLGTKVIE 117
VKLNK IW+ GIRSVP+ ND+EDAKEELYSLVTVAEIP EGL+GLGTKV+E
Sbjct: 61 VKLNKAIWTNGIRSVPRRVRVRISRKRNDEEDAKEELYSLVTVAEIPAEGLKGLGTKVVE 120
Query: 118 DED 120
DE+
Sbjct: 121 DEE 123
>pdb|2ZKR|XX Chain x, 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 = 125
Score = 119 bits (299), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 56/104 (53%), Positives = 74/104 (71%), Gaps = 2/104 (1%)
Query: 10 EEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGI 69
EVVTRE+TIN+HKR+HG FKK+AP+A+KEIRKFA K MGT DVR+D +LNK +W++GI
Sbjct: 18 NEVVTREYTINIHKRIHGVGFKKRAPRALKEIRKFAMKEMGTPDVRIDTRLNKAVWAKGI 77
Query: 70 RSVPKXXXXXXXXXXNDDEDAKEELYSLVTVAEIPPEGLRGLGT 113
R+VP N+DED+ +LY+LVT +P + L T
Sbjct: 78 RNVPYRIRVRLSRKRNEDEDSPNKLYTLVTY--VPVTTFKNLQT 119
>pdb|2WW9|M Chain M, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound
To The Yeast 80s Ribosome
pdb|2WWA|M Chain M, Cryo-Em Structure Of Idle Yeast Ssh1 Complex Bound To The
Yeast 80s Ribosome
pdb|2WWB|M Chain M, Cryo-Em Structure Of The Mammalian Sec61 Complex Bound To
The Actively Translating Wheat Germ 80s Ribosome
pdb|3IZS|GG Chain g, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|AA Chain a, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|AA Chain a, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|DD Chain d, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|DD Chain d, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|DD Chain d, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 113
Score = 105 bits (261), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 53/109 (48%), Positives = 74/109 (67%), Gaps = 2/109 (1%)
Query: 11 EVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIR 70
+VVTRE+TINLHKRLHG +FKK+AP+A+KEI+KFA+ MGT DVR+ +LN+ IW RG++
Sbjct: 6 DVVTREYTINLHKRLHGVSFKKRAPRAVKEIKKFAKLHMGTDDVRLAPELNQAIWKRGVK 65
Query: 71 SVPKXXXXXXXXXXNDDEDAKEELYSLVTVAEIPPEGLRGLGTKVIEDE 119
V N++EDAK L+S V + +GL T V+E++
Sbjct: 66 GVEYRLRLRISRKRNEEEDAKNPLFSYVEPVLVA--SAKGLQTVVVEED 112
>pdb|1S1I|W Chain W, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 112
Score = 105 bits (261), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 53/109 (48%), Positives = 74/109 (67%), Gaps = 2/109 (1%)
Query: 11 EVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIR 70
+VVTRE+TINLHKRLHG +FKK+AP+A+KEI+KFA+ MGT DVR+ +LN+ IW RG++
Sbjct: 5 DVVTREYTINLHKRLHGVSFKKRAPRAVKEIKKFAKLHMGTDDVRLAPELNQAIWKRGVK 64
Query: 71 SVPKXXXXXXXXXXNDDEDAKEELYSLVTVAEIPPEGLRGLGTKVIEDE 119
V N++EDAK L+S V + +GL T V+E++
Sbjct: 65 GVEYRLRLRISRKRNEEEDAKNPLFSYVEPVLVA--SAKGLQTVVVEED 111
>pdb|3JYW|W Chain W, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus
Ribosome At 8.9a Resolution
Length = 79
Score = 92.4 bits (228), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 43/78 (55%), Positives = 57/78 (73%)
Query: 14 TREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGIRSVP 73
TRE+TINLHKRLHG +FKK+AP+A+KEI+KFA+ MGT DVR+ +LN+ IW RG++ V
Sbjct: 1 TREYTINLHKRLHGVSFKKRAPRAVKEIKKFAKLHMGTDDVRLAPELNQAIWKRGVKGVE 60
Query: 74 KXXXXXXXXXXNDDEDAK 91
N++EDAK
Sbjct: 61 YRLRLRISRKRNEEEDAK 78
>pdb|4A17|W Chain W, 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|W Chain W, 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|W Chain W, 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|W Chain W, 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 = 111
Score = 91.7 bits (226), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 46/105 (43%), Positives = 68/105 (64%), Gaps = 2/105 (1%)
Query: 9 KEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRG 68
K+E + + T+NLHK+ H +FKKKAP+AI+EI A+K MGT DVR+D +LNK IWS G
Sbjct: 3 KQEEKSIDTTVNLHKQCHKISFKKKAPRAIREIVAIAKKTMGTDDVRIDTELNKFIWSNG 62
Query: 69 IRSVPKXXXXXXXXXXNDDEDAKEELYSLVTVAEIPPEGLRGLGT 113
IR++P+ N++E A+ + Y+LV ++ + GL T
Sbjct: 63 IRNIPRRVRVRLCKRKNEEEGAQSQFYTLVQHLQV--DSYHGLLT 105
>pdb|3ZF7|HH Chain h, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 188
Score = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 45/115 (39%), Positives = 59/115 (51%), Gaps = 1/115 (0%)
Query: 4 KTKGRKEEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQ 63
K GRK + + E +I+L K L TF K+AP AIK IR F K M TKD R+D LN
Sbjct: 75 KRTGRKPDNIVMEASIHLSKLLKKRTFHKRAPIAIKRIRSFVGKLMKTKDNRIDASLNTF 134
Query: 64 IWSRGIRSVPKXXXXXXXXXXNDDEDAKEELYSLVTVAEIPPEGLRGLGTKVIED 118
IW +G++ VP E K + + V ++ IP + L TKVIE
Sbjct: 135 IWHKGVKGVPGRVRVRVERKSETMEGGKRKHFYTV-ISHIPVPSFKNLTTKVIEQ 188
>pdb|3J21|AA Chain a, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 95
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 38/64 (59%), Gaps = 3/64 (4%)
Query: 10 EEVVTREFTINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNKQIWSRGI 69
EEV+ FT+ + K K+AP+A+K +R+F + ++V +D K+N++IW RGI
Sbjct: 7 EEVI---FTVPIKKIKKIVPRWKRAPRAVKFVREFVARHAKAQEVIIDPKVNEKIWERGI 63
Query: 70 RSVP 73
P
Sbjct: 64 EKPP 67
>pdb|3HJZ|A Chain A, The Structure Of An Aldolase From Prochlorococcus Marinus
Length = 334
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 4 KTKGRKEEVVTREF-TINLHKRLHGCTFKKKAPKAIKEIRKFAEKAMGTKDVRVDVKLNK 62
K KG K EV F ++ K L GC APK ++E+++ EK + + + K+N
Sbjct: 218 KEKGFKTEVXGASFRNLDEIKELAGCDLLTIAPKFLEELKR--EKGVLIRKLDASTKINN 275
Query: 63 QI 64
I
Sbjct: 276 SI 277
>pdb|4H08|A Chain A, Crystal Structure Of A Putative Hydrolase (Bt3161) From
Bacteroides Thetaiotaomicron Vpi-5482 At 1.80 A
Resolution
Length = 200
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 5/36 (13%)
Query: 18 TINLHKRLHGCTFK-----KKAPKAIKEIRKFAEKA 48
I+ + LHG + K PK IK IRK+A KA
Sbjct: 77 VIHFNNGLHGFDYTEEEYDKSFPKLIKIIRKYAPKA 112
>pdb|1S72|X Chain X, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|X Chain X, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|X Chain X, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|X Chain X, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|X Chain X, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|X Chain X, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|X Chain X, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|X Chain X, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|X Chain X, The Structure Of The Transition State Analogue "daa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ5|X Chain X, The Structure Of The Transition State Analogue "raa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ6|X Chain X, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|X Chain X, The Structure Of The Transition State Analogue "dca"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ8|X Chain X, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|X Chain X, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|X Chain X, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|X Chain X, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|X Chain X, The Structure Of The Transition State Analogue "dan"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQN|X Chain X, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To
The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|X Chain X, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|X Chain X, The Structure Of The Transition State Analogue "rap"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|2OTJ|X Chain X, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|X Chain X, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|X Chain X, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|X Chain X, 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|X Chain X, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|X Chain X, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|X Chain X, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|W Chain W, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|X Chain X, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|X Chain X, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|X Chain X, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|X Chain X, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|X Chain X, Co-Crystal Structure Of Triacetyloleandomcyin Bound To
The Large Ribosomal Subunit
pdb|4ADX|X Chain X, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 92
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 32 KKAPKAIKEIRKFAEKAMGTKD--VRVDVKLNKQIWSRGIRSVP 73
K+A KA+ IR+ K + VR+D +N+ W+RG + P
Sbjct: 25 KRADKAMILIREHLAKHFSVDEDAVRLDPSINEAAWARGRANTP 68
>pdb|1FFK|U Chain U, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|W Chain W, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|W Chain W, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|Y Chain Y, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|Y Chain Y, Co-Crystal Structure Of Tylosin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1KD1|Y Chain Y, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|Y Chain Y, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|Y Chain Y, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|Y Chain Y, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|Y Chain Y, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|Y Chain Y, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|Y Chain Y, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|Y Chain Y, Crystal Structure Of Ccdap-puromycin Bound At The
Peptidyl Transferase Center Of The 50s Ribosomal
Subunit
pdb|1Q81|Y Chain Y, Crystal Structure Of Minihelix With 3' Puromycin Bound
To A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|Y Chain Y, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|Y Chain Y, 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|W Chain W, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|W Chain W, Structure Of Cca Oligonucleotide Bound To The Trna
Binding Sites Of The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1W2B|W Chain W, Trigger Factor Ribosome Binding Domain In Complex With
50s
pdb|3CXC|W Chain W, The Structure Of An Enhanced Oxazolidinone Inhibitor
Bound To The 50s Ribosomal Subunit Of H. Marismortui
Length = 91
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 32 KKAPKAIKEIRKFAEKAMGTKD--VRVDVKLNKQIWSRGIRSVP 73
K+A KA+ IR+ K + VR+D +N+ W+RG + P
Sbjct: 24 KRADKAMILIREHLAKHFSVDEDAVRLDPSINEAAWARGRANTP 67
>pdb|3G4S|X Chain X, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|X Chain X, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|X Chain X, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|W Chain W, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 82
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 32 KKAPKAIKEIRKFAEKAMGTKD--VRVDVKLNKQIWSRGIRSVP 73
K+A KA+ IR+ K + VR+D +N+ W+RG + P
Sbjct: 18 KRADKAMILIREHLAKHFSVDEDAVRLDPSINEAAWARGRANTP 61
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
0.314 0.133 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,116,355
Number of Sequences: 62578
Number of extensions: 98055
Number of successful extensions: 139
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 130
Number of HSP's gapped (non-prelim): 14
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)