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= 046974
(212 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|T Chain T, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 209
Score = 276 bits (707), Expect = 5e-75, Method: Compositional matrix adjust.
Identities = 143/182 (78%), Positives = 152/182 (83%), Gaps = 6/182 (3%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
MVSLKLQKRLA+S+LKCG+G VWLDPNEVNEISMANSRQNIRKLVK GFIIRKP KIHSR
Sbjct: 1 MVSLKLQKRLASSVLKCGKGKVWLDPNEVNEISMANSRQNIRKLVKDGFIIRKPQKIHSR 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
SRA R EAK+KGRHSGYGKRRGTREARLPTKI WM EAKKID+HMY
Sbjct: 61 SRARRAHEAKQKGRHSGYGKRRGTREARLPTKILWMRRMRVLRRLLRKYREAKKIDKHMY 120
Query: 121 HDMYMKVKGNVFKNKRVLMESIHKSRAEKAREKILSDQLEAKRAKNKASRS------EER 174
HDMY+KVKGN+FKNKRVLMESIHKS+AEKAREK LSDQ EAKRAK+KASR EER
Sbjct: 121 HDMYLKVKGNMFKNKRVLMESIHKSKAEKAREKTLSDQFEAKRAKSKASRERKIARREER 180
Query: 175 LA 176
LA
Sbjct: 181 LA 182
>pdb|2ZKR|PP Chain p, 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 = 196
Score = 216 bits (550), Expect = 8e-57, Method: Compositional matrix adjust.
Identities = 106/177 (59%), Positives = 132/177 (74%), Gaps = 2/177 (1%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
M L+LQKRLA+S+L+CG+ VWLDPNE NEI+ ANSRQ IRKL+K G IIRKP +HSR
Sbjct: 1 MSMLRLQKRLASSVLRCGKKKVWLDPNETNEIANANSRQQIRKLIKDGLIIRKPVTVHSR 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
+R + A+RKGRH G GKR+GT AR+P K+ WM E+KKIDRHMY
Sbjct: 61 ARCRKNTLARRKGRHMGIGKRKGTANARMPEKVTWMRRMRILRRLLRRYRESKKIDRHMY 120
Query: 121 HDMYMKVKGNVFKNKRVLMESIHKSRAEKAREKILSDQLEAKRAKNKASRS--EERL 175
H +Y+KVKGNVFKNKR+LME IHK +A+KAR+K+L+DQ EA+R+K K +R EERL
Sbjct: 121 HSLYLKVKGNVFKNKRILMEHIHKLKADKARKKLLADQAEARRSKTKEARKRREERL 177
>pdb|4A1A|O Chain O, 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|O Chain O, 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|O Chain O, 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 = 185
Score = 206 bits (523), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 100/171 (58%), Positives = 128/171 (74%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
MVSL+LQKRLAAS+LKCG+ +WLDPNE +EISMANSR +IRKL+K G ++++ T IHSR
Sbjct: 1 MVSLRLQKRLAASVLKCGQKRLWLDPNESSEISMANSRASIRKLIKDGLVMKRSTVIHSR 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
SRA EAKRKGRH+G GKR+GTR AR+PTK+ WM AKKID+H Y
Sbjct: 61 SRARAFLEAKRKGRHTGSGKRKGTRNARMPTKVLWMRRQRVLRRLLRKYRAAKKIDKHQY 120
Query: 121 HDMYMKVKGNVFKNKRVLMESIHKSRAEKAREKILSDQLEAKRAKNKASRS 171
H+ Y+ KGN++KNK VL+E+IH S+A+K + L+ Q EA+RAKN ASR+
Sbjct: 121 HEFYLGSKGNLYKNKTVLIEAIHVSKADKIKSDKLTSQQEARRAKNTASRA 171
>pdb|3ZF7|T Chain T, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 260
Score = 196 bits (499), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 99/174 (56%), Positives = 125/174 (71%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
MVSLKLQ RLAA +L+CGRG VWLDPNE EI ANSR+++RKL+K G ++RKP K+HSR
Sbjct: 1 MVSLKLQARLAADILRCGRGRVWLDPNEAVEIRNANSRKSVRKLIKDGLVMRKPVKVHSR 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
SR +MK AK GRH G G+R GTREAR+P+K WM E KKIDRH+Y
Sbjct: 61 SRWRQMKLAKSMGRHEGTGRREGTREARMPSKDLWMRRLRILRRLLRKYREEKKIDRHIY 120
Query: 121 HDMYMKVKGNVFKNKRVLMESIHKSRAEKAREKILSDQLEAKRAKNKASRSEER 174
++YMK KGNVF+NKR LME IHK + EK + + L++QL AKR K++ +R + R
Sbjct: 121 RELYMKAKGNVFRNKRNLMEHIHKVKNEKKKARQLAEQLAAKRLKDEQNRRKAR 174
>pdb|4A17|O Chain O, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2
Length = 185
Score = 184 bits (466), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 88/147 (59%), Positives = 111/147 (75%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
MVSL+LQKRLAAS+LKCG+ +WLDPNE +EISMANSR +IRKL+K G ++++ T IHSR
Sbjct: 1 MVSLRLQKRLAASVLKCGQKRLWLDPNESSEISMANSRASIRKLIKDGLVMKRSTVIHSR 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
SRA EAKRKGRH+G GKR+GTR AR+PTK+ WM AKKID+H Y
Sbjct: 61 SRARAFLEAKRKGRHTGSGKRKGTRNARMPTKVLWMRRQRVLRRLLRKYRAAKKIDKHQY 120
Query: 121 HDMYMKVKGNVFKNKRVLMESIHKSRA 147
H+ Y+ KGN++KNK VL+E+IH S+A
Sbjct: 121 HEFYLGSKGNLYKNKTVLIEAIHVSKA 147
>pdb|2WW9|J Chain J, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound
To The Yeast 80s Ribosome
pdb|2WWA|J Chain J, Cryo-Em Structure Of Idle Yeast Ssh1 Complex Bound To The
Yeast 80s Ribosome
pdb|2WWB|J Chain J, Cryo-Em Structure Of The Mammalian Sec61 Complex Bound To
The Actively Translating Wheat Germ 80s Ribosome
pdb|3IZS|T Chain T, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|S Chain S, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|S Chain S, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|R Chain R, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|R Chain R, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|R Chain R, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 189
Score = 176 bits (447), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 84/166 (50%), Positives = 118/166 (71%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
M +L+ QKRLAAS++ G+ VWLDPNE +EI+ ANSR IRKLVK G I++K +HS+
Sbjct: 1 MANLRTQKRLAASVVGVGKRKVWLDPNETSEIAQANSRNAIRKLVKNGTIVKKAVTVHSK 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
SR ++KR+GRHSGYGKR+GTREARLP+++ W+ +A KID+H+Y
Sbjct: 61 SRTRAHAQSKREGRHSGYGKRKGTREARLPSQVVWIRRLRVLRRLLAKYRDAGKIDKHLY 120
Query: 121 HDMYMKVKGNVFKNKRVLMESIHKSRAEKAREKILSDQLEAKRAKN 166
H +Y + KGN FK+KR L+E I +++A+ REK L+++ EA+R KN
Sbjct: 121 HVLYKESKGNAFKHKRALVEHIIQAKADAQREKALNEEAEARRLKN 166
>pdb|3JYW|P Chain P, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 176
Score = 156 bits (394), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 73/140 (52%), Positives = 99/140 (70%)
Query: 3 SLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSRSR 62
+L+ QKRLAAS++ G+ VWLDPNE +EI+ ANSR IRKLVK G I++K +HS+SR
Sbjct: 2 NLRTQKRLAASVVGVGKRKVWLDPNETSEIAQANSRNAIRKLVKNGTIVKKAVTVHSKSR 61
Query: 63 ALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMYHD 122
++KR+GRHSGYGKR+GTREARLP+++ W+ +A KID+H+YH
Sbjct: 62 TRAHAQSKREGRHSGYGKRKGTREARLPSQVVWIRRLRVLRRLLAKYRDAGKIDKHLYHV 121
Query: 123 MYMKVKGNVFKNKRVLMESI 142
+Y + KGN FK+KR L+E I
Sbjct: 122 LYKESKGNAFKHKRALVEHI 141
>pdb|1S1I|P Chain P, 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 = 142
Score = 156 bits (394), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 73/140 (52%), Positives = 99/140 (70%)
Query: 3 SLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSRSR 62
+L+ QKRLAAS++ G+ VWLDPNE +EI+ ANSR IRKLVK G I++K +HS+SR
Sbjct: 2 NLRTQKRLAASVVGVGKRKVWLDPNETSEIAQANSRNAIRKLVKNGTIVKKAVTVHSKSR 61
Query: 63 ALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMYHD 122
++KR+GRHSGYGKR+GTREARLP+++ W+ +A KID+H+YH
Sbjct: 62 TRAHAQSKREGRHSGYGKRKGTREARLPSQVVWIRRLRVLRRLLAKYRDAGKIDKHLYHV 121
Query: 123 MYMKVKGNVFKNKRVLMESI 142
+Y + KGN FK+KR L+E I
Sbjct: 122 LYKESKGNAFKHKRALVEHI 141
>pdb|3J21|Q Chain Q, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 150
Score = 109 bits (272), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 56/138 (40%), Positives = 83/138 (60%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
M +LK+Q+R+AA +LKCG +W+DP +++++ A +R++I++L+K G I +KP K SR
Sbjct: 1 MNTLKMQRRIAAEILKCGENRIWIDPERIDDVASAITREDIKRLIKEGVIKKKPIKGQSR 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
RA E K+KGRH G G R+G + AR+ K W+ KKIDR Y
Sbjct: 61 YRAKIRHEQKKKGRHRGPGSRKGKKTARMGKKELWIKTIRALRKELRKLKAQKKIDRKTY 120
Query: 121 HDMYMKVKGNVFKNKRVL 138
+Y++ KG FKNK L
Sbjct: 121 RMLYIRAKGGQFKNKHQL 138
>pdb|3OW2|O Chain O, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 143
Score = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/131 (32%), Positives = 61/131 (46%)
Query: 2 VSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSRS 61
L QKRLAA +L G+ VW +P +I+ A +R+++R+LV G I K K +SR
Sbjct: 1 TDLSAQKRLAADVLDVGKNRVWFNPERQGDIADAITREDVRELVDEGAIQAKDKKGNSRG 60
Query: 62 RALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMYH 121
RA ++ + KG G G R+G AR +K W + + Y
Sbjct: 61 RARERQKKRAKGHQKGAGSRKGKAGARQNSKEDWESRIRAQRTKLRELRDEGTLSSSQYR 120
Query: 122 DMYMKVKGNVF 132
D+Y K G F
Sbjct: 121 DLYDKAGGGEF 131
>pdb|1FFK|M Chain M, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|O Chain O, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|O Chain O, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|Q Chain Q, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|Q Chain Q, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|Q Chain Q, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|Q Chain Q, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|Q Chain Q, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|Q Chain Q, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|Q Chain Q, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|Q Chain Q, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|Q Chain Q, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|Q Chain Q, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|Q Chain Q, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|Q Chain Q, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|Q Chain Q, 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|O Chain O, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|O Chain O, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|O Chain O, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|O Chain O, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
Length = 148
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/131 (32%), Positives = 61/131 (46%)
Query: 2 VSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSRS 61
L QKRLAA +L G+ VW +P +I+ A +R+++R+LV G I K K +SR
Sbjct: 1 TDLSAQKRLAADVLDVGKNRVWFNPERQGDIADAITREDVRELVDEGAIQAKDKKGNSRG 60
Query: 62 RALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMYH 121
RA ++ + KG G G R+G AR +K W + + Y
Sbjct: 61 RARERQKKRAKGHQKGAGSRKGKAGARQNSKEDWESRIRAQRTKLRELRDEGTLSSSQYR 120
Query: 122 DMYMKVKGNVF 132
D+Y K G F
Sbjct: 121 DLYDKAGGGEF 131
>pdb|1S72|P Chain P, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|P Chain P, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|P Chain P, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|P Chain P, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|P Chain P, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|P Chain P, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|P Chain P, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|P Chain P, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|P Chain P, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|P Chain P, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|P Chain P, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|P Chain P, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|P Chain P, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|P Chain P, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|P Chain P, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|P Chain P, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|P Chain P, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|P Chain P, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|P Chain P, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|P Chain P, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|P Chain P, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|P Chain P, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|P Chain P, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|P Chain P, 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|P Chain P, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|P Chain P, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|P Chain P, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|O Chain O, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|P Chain P, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|P Chain P, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|P Chain P, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|P Chain P, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|P Chain P, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|P Chain P, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 149
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/132 (31%), Positives = 61/132 (46%)
Query: 1 MVSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSR 60
M L QKRLAA +L G+ VW +P +I+ A +R+++R+LV G I K K +SR
Sbjct: 1 MTDLSAQKRLAADVLDVGKNRVWFNPERQGDIADAITREDVRELVDEGAIQAKDKKGNSR 60
Query: 61 SRALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMY 120
RA ++ + G G G R+G AR +K W + + Y
Sbjct: 61 GRARERQKKRAYGHQKGAGSRKGKAGARQNSKEDWESRIRAQRTKLRELRDEGTLSSSQY 120
Query: 121 HDMYMKVKGNVF 132
D+Y K G F
Sbjct: 121 RDLYDKAGGGEF 132
>pdb|3G4S|P Chain P, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|P Chain P, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|P Chain P, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
Length = 143
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 41/131 (31%), Positives = 60/131 (45%)
Query: 2 VSLKLQKRLAASMLKCGRGMVWLDPNEVNEISMANSRQNIRKLVKGGFIIRKPTKIHSRS 61
L QKRLAA +L G+ VW +P +I+ A +R+++R+LV G I K K +SR
Sbjct: 1 TDLSAQKRLAADVLDVGKNRVWFNPERQGDIADAITREDVRELVDEGAIQAKDKKGNSRG 60
Query: 62 RALRMKEAKRKGRHSGYGKRRGTREARLPTKIPWMXXXXXXXXXXXXXXEAKKIDRHMYH 121
RA ++ + G G G R+G AR +K W + + Y
Sbjct: 61 RARERQKKRAYGHQKGAGSRKGKAGARQNSKEDWESRIRAQRTKLRELRDEGTLSSSQYR 120
Query: 122 DMYMKVKGNVF 132
D+Y K G F
Sbjct: 121 DLYDKAGGGEF 131
>pdb|2WAZ|X Chain X, N512p Mutant Of The Dna Binding Domain Of The Adenovirus 5
Ssdna Binding Protein
Length = 356
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 136 RVLMESIHKSRAEKAREKILSDQLEAKRAKNKASRSEER 174
R LM+ H KA K+L DQ+EA A K +EE
Sbjct: 16 RALMDKYHVDNDLKANFKLLPDQVEALAAVCKTWLNEEH 54
>pdb|1ADV|A Chain A, Early E2a Dna-Binding Protein
pdb|1ADV|B Chain B, Early E2a Dna-Binding Protein
pdb|1ADU|A Chain A, Early E2a Dna-Binding Protein
pdb|1ADU|B Chain B, Early E2a Dna-Binding Protein
pdb|1ANV|A Chain A, Adenovirus 5 DbpURANYL FLUORIDE SOAK
pdb|2WB0|X Chain X, 2.1 Resolution Structure Of The C-Terminal Domain Of The
Human Adenovirus 5 Ssdna Binding Protein
Length = 356
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 136 RVLMESIHKSRAEKAREKILSDQLEAKRAKNKASRSEER 174
R LM+ H KA K+L DQ+EA A K +EE
Sbjct: 16 RALMDKYHVDNDLKANFKLLPDQVEALAAVCKTWLNEEH 54
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
0.316 0.128 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,520,802
Number of Sequences: 62578
Number of extensions: 132496
Number of successful extensions: 367
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 351
Number of HSP's gapped (non-prelim): 15
length of query: 212
length of database: 14,973,337
effective HSP length: 95
effective length of query: 117
effective length of database: 9,028,427
effective search space: 1056325959
effective search space used: 1056325959
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)