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= psy7821
(231 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|MM Chain m, 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 = 204
Score = 173 bits (439), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 109/239 (45%), Positives = 132/239 (55%), Gaps = 43/239 (17%)
Query: 1 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQGGK 60
MGAY++I EL+RKKQSDVMR++ R+R WQYRQL+ LHRAPRPTRPDKARR+GY+AKQG
Sbjct: 1 MGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQG-- 58
Query: 61 LPRSNTSSIMGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRM 120
I+RIRV + P P + +
Sbjct: 59 ----------------------------YVIYRIRV-----RRGGRKRPVPKGATYGKPV 85
Query: 121 GYRAKQVTLF-SVQRYDVEEGNVQYPRVPTMNV--SAEDVVTSVFLKLLL-----AIRRD 172
+ Q+ S+Q E + +N ED F +L+ AIRR+
Sbjct: 86 HHGVNQLKFARSLQSVAEERAGRHCGALRVLNSYWVGEDSTYKFFEVILIDPFHKAIRRN 145
Query: 173 PKVNWICKPVHKHREMRGLTSISKKSRGLGKGHGFAQTIGGSRHAAWVRRNTLELRRKR 231
P WI KPVHKHREMRGLTS +KSRGLGKGH F TIGGSR AAW RRNTL+L R R
Sbjct: 146 PDTQWITKPVHKHREMRGLTSAGRKSRGLGKGHKFHHTIGGSRRAAWRRRNTLQLHRYR 204
>pdb|3IZS|P Chain P, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|N Chain N, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|N Chain N, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|N Chain N, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 204
Score = 154 bits (388), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 92/207 (44%), Positives = 117/207 (56%), Gaps = 49/207 (23%)
Query: 70 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTL 129
MGAY+++ EL RKKQSDV+R++ R+RVW+YRQ +HRA RPTRPDKARR+GY+AKQ
Sbjct: 1 MGAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQG-- 58
Query: 130 FSVQRYDVEEGNVQYPRVP--------------------TMNVSAEDVV----------- 158
F + R V GN + P VP ++ +AE+ V
Sbjct: 59 FVIYRVRVRRGNRKRP-VPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLN 117
Query: 159 --------TSVFLKLLL------AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGLGKG 204
T + +++L AIRRD + NWIC PVHKHRE RGLT+ KKSRG+ KG
Sbjct: 118 SYWVNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGINKG 177
Query: 205 HGFAQTIGGSRHAAWVRRNTLELRRKR 231
H F T G R W R+NTL L R R
Sbjct: 178 HKFNNTKAG-RRKTWKRQNTLSLWRYR 203
>pdb|1S1I|L Chain L, 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 = 203
Score = 151 bits (381), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 91/206 (44%), Positives = 116/206 (56%), Gaps = 49/206 (23%)
Query: 71 GAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLF 130
GAY+++ EL RKKQSDV+R++ R+RVW+YRQ +HRA RPTRPDKARR+GY+AKQ F
Sbjct: 1 GAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQG--F 58
Query: 131 SVQRYDVEEGNVQYPRVP--------------------TMNVSAEDVV------------ 158
+ R V GN + P VP ++ +AE+ V
Sbjct: 59 VIYRVRVRRGNRKRP-VPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNS 117
Query: 159 -------TSVFLKLLL------AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGLGKGH 205
T + +++L AIRRD + NWIC PVHKHRE RGLT+ KKSRG+ KGH
Sbjct: 118 YWVNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGINKGH 177
Query: 206 GFAQTIGGSRHAAWVRRNTLELRRKR 231
F T G R W R+NTL L R R
Sbjct: 178 KFNNTKAG-RRKTWKRQNTLSLWRYR 202
>pdb|3JYW|L Chain L, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 192
Score = 143 bits (360), Expect = 9e-35, Method: Compositional matrix adjust.
Identities = 83/190 (43%), Positives = 107/190 (56%), Gaps = 48/190 (25%)
Query: 71 GAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLF 130
GAY+++ EL RKKQSDV+R++ R+RVW+YRQ +HRA RPTRPDKARR+GY+AKQ F
Sbjct: 1 GAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRLGYKAKQG--F 58
Query: 131 SVQRYDVEEGNVQYPRVP--------------------TMNVSAEDVV------------ 158
+ R V GN + P VP ++ +AE+ V
Sbjct: 59 VIYRVRVRRGNRKRP-VPKGATYGKPTNQGVNELKYQRSLRATAEERVGRRAANLRVLNS 117
Query: 159 -------TSVFLKLLL------AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGLGKGH 205
T + +++L AIRRD + NWIC PVHKHRE RGLT+ KKSRG+ KGH
Sbjct: 118 YWVNQDSTYKYFEVILVDPQHKAIRRDARYNWICDPVHKHREARGLTATGKKSRGINKGH 177
Query: 206 GFAQTIGGSR 215
F T G R
Sbjct: 178 KFNNTKAGRR 187
>pdb|3IZR|P Chain P, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 204
Score = 136 bits (342), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 89/208 (42%), Positives = 111/208 (53%), Gaps = 50/208 (24%)
Query: 70 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQ--- 126
MGAY+++SEL+R+KQSDVMR++ R+R W+YRQ + R RPTRPDKARR+GY+AKQ
Sbjct: 1 MGAYKYVSELWRRKQSDVMRFVQRVRCWEYRQQPAIVRLTRPTRPDKARRLGYKAKQGYV 60
Query: 127 ----------------------------VTLFSVQRYD---VEE------GNVQYPRVPT 149
+T QR EE G + RV
Sbjct: 61 VYRVRVRRGGRKRPVPKGIVYGKPKHQGITQLKFQRNKRSVAEERAGRKLGGL---RVLN 117
Query: 150 MNVSAEDVVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GK 203
ED F +L+ AIR DP++NW+CKPVHKHRE+RGLTS KK RGL GK
Sbjct: 118 SYWVNEDSTYKYFEIILVDVAHSAIRNDPRINWLCKPVHKHRELRGLTSAGKKYRGLRGK 177
Query: 204 GHGFAQTIGGSRHAAWVRRNTLELRRKR 231
GH + SR A W R T+ LRR R
Sbjct: 178 GHTHHKA-RPSRRATWKRNQTVSLRRYR 204
Score = 85.9 bits (211), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 37/57 (64%), Positives = 49/57 (85%)
Query: 1 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQ 57
MGAY+++SEL+R+KQSDVMR++ R+R W+YRQ + R RPTRPDKARR+GY+AKQ
Sbjct: 1 MGAYKYVSELWRRKQSDVMRFVQRVRCWEYRQQPAIVRLTRPTRPDKARRLGYKAKQ 57
>pdb|4A17|L Chain L, 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|L Chain L, 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|L Chain L, 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|L Chain L, 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 = 204
Score = 123 bits (308), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 83/232 (35%), Positives = 123/232 (53%), Gaps = 29/232 (12%)
Query: 1 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQGGK 60
MGAY+++ EL+RKKQSD+M +I R+R W+YRQL +H+A R +RPDKAR++GY+ K G
Sbjct: 1 MGAYKYLEELWRKKQSDLMSFILRLRTWEYRQLPVIHKASRSSRPDKARKLGYKNKDGYA 60
Query: 61 LPRSNTSSIMGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRM 120
+ R + K S V I++++ R R R+
Sbjct: 61 IWRVRVRRGGRKRPVSKGIVYGKPSSVG--INQLKF------------ARNLRSCAEERV 106
Query: 121 GYRAKQVTLFSVQRYDVEEGNVQYPRVPTMNVSAEDVVTSVFLKLLLAIRRDPKVNWICK 180
G R ++ + + + ++G ++ V + S AIR DP++NWIC+
Sbjct: 107 GKRVPELRVLN-SYWVGQDGTYKFYEVILADPSHN------------AIRNDPRINWICE 153
Query: 181 PVHKHREMRGLTSISKKSRGL-GKGHGFAQTIGGSRHAAWVRRNTLELRRKR 231
HKHRE+RGLTS +K RGL KGH A+++ SR W R L+LRR R
Sbjct: 154 SAHKHRELRGLTSAGRKGRGLRVKGH-RAKSLRTSRKGNWRARQMLKLRRYR 204
>pdb|3ZF7|Q Chain Q, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 221
Score = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 64/179 (35%), Positives = 92/179 (51%), Gaps = 43/179 (24%)
Query: 70 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQ--- 126
MG++ +++EL++KK SDVMR+I R+R W++R T+ R RPTRP+KAR +GY+ KQ
Sbjct: 18 MGSFMYLNELWKKKSSDVMRFIQRVRAWEFRHQHTIVRLRRPTRPEKARMVGYKTKQGYV 77
Query: 127 ------------------VT-------------------LFSVQRYDVEEGNVQYPRVPT 149
+T + + QR + GN++
Sbjct: 78 VFRVRVRRGGRKRPVHKGITYGKPNTAGVLGRKLNKNNRVVAEQRLGKKYGNLRVLNSYW 137
Query: 150 MNVSAEDVVTSVFL--KLLLAIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGH 205
+N + + V + AIRRDP++NWI VHKHRE RGLTS +K RGL KGH
Sbjct: 138 VNADSTFLWYEVVAVDPMHRAIRRDPRINWIVNAVHKHREQRGLTSAGRKHRGLRQKGH 196
>pdb|3J21|M Chain M, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 194
Score = 61.6 bits (148), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 79/178 (44%), Gaps = 41/178 (23%)
Query: 70 MGAYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTL 129
MG Y++I E ++ + + + + R+ ++R+ + R RPTR D+AR +GY+AKQ +
Sbjct: 1 MGMYKYIREAWKSPKKSYVGELLKQRMIKWRREPVVVRIERPTRLDRARALGYQAKQGYV 60
Query: 130 F---------------------------------SVQRYDVEEGNVQYPRVPTMNV--SA 154
S+Q E+ ++P + +N
Sbjct: 61 IVRVRVRKGGRKRPRWKGGRKPSKMGQVKYSPKKSLQWIAEEKAARKFPNLEVLNSYWVG 120
Query: 155 EDVVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHG 206
ED + F +++ I+ DPK+ WI HK R RGLTS KK RGL KG G
Sbjct: 121 EDGMYKWFEVIMVDPHHPVIKSDPKIAWIALKHHKGRVFRGLTSAGKKGRGLRNKGKG 178
>pdb|1JJ2|L Chain L, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|L Chain L, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|N Chain N, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|N Chain N, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|N Chain N, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|N Chain N, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|N Chain N, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|N Chain N, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|N Chain N, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|N Chain N, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|N Chain N, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|N Chain N, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|N Chain N, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|N Chain N, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|N Chain N, 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|L Chain L, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|L Chain L, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|L Chain L, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|L Chain L, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3OW2|L Chain L, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 194
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 46/176 (26%), Positives = 78/176 (44%), Gaps = 41/176 (23%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLF- 130
AY +I E +++ + + + R+ ++R + R RPTR D+AR +GY+AKQ +
Sbjct: 4 AYSYIREAWKRPKEGQIAELMWHRMQEWRNEPAVVRIERPTRLDRARSLGYKAKQGIIVV 63
Query: 131 --------------------------------SVQRYDVEEGNVQYPRVPTMN--VSAED 156
++QR E N ++P + +N ED
Sbjct: 64 RVAIRKGSSRRTRFNKGRRSKRMMVNRITRKKNIQRIAEERANRKFPNLRVLNSYSVGED 123
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHG 206
+L+ AI+ D +++WI + H+ R RGLTS ++ RGL G+G G
Sbjct: 124 GRHKWHEVILIDPDHPAIKSDDQLSWISRTRHRLRTFRGLTSAGRRCRGLRGQGKG 179
>pdb|3CC2|M Chain M, 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|M Chain M, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|M Chain M, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|M Chain M, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|L Chain L, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|M Chain M, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|M Chain M, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|4ADX|M Chain M, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 196
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 72/180 (40%), Gaps = 41/180 (22%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFS 131
AY +I + ++ + + R ++R + R RPTR DKAR GY+AKQ + +
Sbjct: 5 AYSYIRDAWKNPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 132 ---------------------------------VQRYDVEEGNVQYPRVPTMNV--SAED 156
+QR E + +P + +N +D
Sbjct: 65 RVSVRKGSARKRRHKAGRRSKRQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVGQD 124
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQT 210
+L+ AI+ D ++WIC R RGLT +++RGL GKG G +T
Sbjct: 125 GRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSEKT 184
>pdb|3G4S|M Chain M, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|M Chain M, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|M Chain M, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3I55|M Chain M, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|M Chain M, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
Length = 194
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 72/180 (40%), Gaps = 41/180 (22%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFS 131
AY +I + ++ + + R ++R + R RPTR DKAR GY+AKQ + +
Sbjct: 4 AYSYIRDAWKNPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 132 ---------------------------------VQRYDVEEGNVQYPRVPTMNV--SAED 156
+QR E + +P + +N +D
Sbjct: 64 RVSVRKGSARKRRHKAGRRSKRQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVGQD 123
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQT 210
+L+ AI+ D ++WIC R RGLT +++RGL GKG G +T
Sbjct: 124 GRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSEKT 183
>pdb|1YHQ|M Chain M, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
Length = 194
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 71/180 (39%), Gaps = 41/180 (22%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFS 131
AY +I + + + + R ++R + R RPTR DKAR GY+AKQ + +
Sbjct: 4 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 132 ---------------------------------VQRYDVEEGNVQYPRVPTMNV--SAED 156
+QR E + +P + +N +D
Sbjct: 64 RVSVRKGSARKRRHKAGRRSKRQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVGQD 123
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQT 210
+L+ AI+ D ++WIC R RGLT +++RGL GKG G +T
Sbjct: 124 GRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSEKT 183
>pdb|1YI2|M Chain M, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|M Chain M, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|M Chain M, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|M Chain M, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|M Chain M, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|M Chain M, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
Length = 195
Score = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 71/180 (39%), Gaps = 41/180 (22%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFS 131
AY +I + + + + R ++R + R RPTR DKAR GY+AKQ + +
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 132 ---------------------------------VQRYDVEEGNVQYPRVPTMNV--SAED 156
+QR E + +P + +N +D
Sbjct: 65 RVSVRKGSARKRRHKAGRRSKRQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVGQD 124
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQT 210
+L+ AI+ D ++WIC R RGLT +++RGL GKG G +T
Sbjct: 125 GRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSEKT 184
>pdb|1S72|M Chain M, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1VQ4|M Chain M, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|M Chain M, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|M Chain M, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|M Chain M, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|M Chain M, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQN|M Chain M, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|M Chain M, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|M Chain M, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
Length = 194
Score = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 71/180 (39%), Gaps = 41/180 (22%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFS 131
AY +I + + + + R ++R + R RPTR DKAR GY+AKQ + +
Sbjct: 4 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 63
Query: 132 ---------------------------------VQRYDVEEGNVQYPRVPTMNV--SAED 156
+QR E + +P + +N +D
Sbjct: 64 RVSVRKGSARKRRHKAGRRSKRQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVGQD 123
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQT 210
+L+ AI+ D ++WIC R RGLT +++RGL GKG G +T
Sbjct: 124 GRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSEKT 183
>pdb|1VQ9|M Chain M, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|M Chain M, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|M Chain M, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|M Chain M, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|M Chain M, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|M Chain M, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
Length = 195
Score = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 71/180 (39%), Gaps = 41/180 (22%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFS 131
AY +I + + + + R ++R + R RPTR DKAR GY+AKQ + +
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 132 ---------------------------------VQRYDVEEGNVQYPRVPTMNV--SAED 156
+QR E + +P + +N +D
Sbjct: 65 RVSVRKGSARKRRHKAGRRSKRQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVGQD 124
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQT 210
+L+ AI+ D ++WIC R RGLT +++RGL GKG G +T
Sbjct: 125 GRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSEKT 184
>pdb|2QA4|M Chain M, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|2QEX|M Chain M, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
Length = 196
Score = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 71/180 (39%), Gaps = 41/180 (22%)
Query: 72 AYRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLFS 131
AY +I + + + + R ++R + R RPTR DKAR GY+AKQ + +
Sbjct: 5 AYSYIRDAWENPGDGQLAELQWQRQQEWRNEGAVERIERPTRLDKARSQGYKAKQGVIVA 64
Query: 132 ---------------------------------VQRYDVEEGNVQYPRVPTMNV--SAED 156
+QR E + +P + +N +D
Sbjct: 65 RVSVRKGSARKRRHKAGRRSKRQGVTRITRRKDIQRVAEERASRTFPNLRVLNSYSVGQD 124
Query: 157 VVTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHGFAQT 210
+L+ AI+ D ++WIC R RGLT +++RGL GKG G +T
Sbjct: 125 GRQKWHEVILIDPNHPAIQNDDDLSWICADDQADRVFRGLTGAGRRNRGLSGKGKGSEKT 184
>pdb|1FFK|I Chain I, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 194
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 46/175 (26%), Positives = 78/175 (44%), Gaps = 43/175 (24%)
Query: 73 YRFISELYRKKQSDVMRYIHRIRVWQYRQLTTLHRAPRPTRPDKARRMGYRAKQVTLF-- 130
Y +I E +++ + + R+ ++R+ + R PRPTR D+AR +GY+AK+ +
Sbjct: 5 YAYIREAWKRPYEGYVGELMWHRLQKWRREPAVVRIPRPTRLDRARALGYKAKKGIIVVR 64
Query: 131 -------------------------------SVQRYDVEEGNVQYPRVPTMNV--SAEDV 157
++Q E N +YP + +N ED
Sbjct: 65 VRIRRGGRRATRPNKGRKSKKMMVNRRPRKKNLQWIAEERANRKYPNMEVLNSYWVGEDG 124
Query: 158 VTSVFLKLLL-----AIRRDPKVNWICKPVHKHREMRGLTSISKKSRGL-GKGHG 206
F +L+ AI+ DP+++W+ + + R RGLTS +K+RGL KG G
Sbjct: 125 RYKWFEVILVDRDHPAIKSDPQLSWVSR--TRGRVYRGLTSAGRKARGLRRKGRG 177
>pdb|3C18|A Chain A, Crystal Structure Of Nucleotidyltransferase-Like Protein
(Zp_00538802.1) From Exiguobacterium Sibiricum 255-15 At
1.90 A Resolution
pdb|3C18|B Chain B, Crystal Structure Of Nucleotidyltransferase-Like Protein
(Zp_00538802.1) From Exiguobacterium Sibiricum 255-15 At
1.90 A Resolution
pdb|3C18|C Chain C, Crystal Structure Of Nucleotidyltransferase-Like Protein
(Zp_00538802.1) From Exiguobacterium Sibiricum 255-15 At
1.90 A Resolution
Length = 290
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 14/25 (56%)
Query: 156 DVVTSVFLKLLLAIRRDPKVNWICK 180
D +T F LLL I RDP V W K
Sbjct: 32 DSLTDQFDVLLLVITRDPSVEWTVK 56
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
0.325 0.136 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,756,626
Number of Sequences: 62578
Number of extensions: 249372
Number of successful extensions: 530
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 472
Number of HSP's gapped (non-prelim): 56
length of query: 231
length of database: 14,973,337
effective HSP length: 96
effective length of query: 135
effective length of database: 8,965,849
effective search space: 1210389615
effective search space used: 1210389615
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)