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= psy7621
(247 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|EE Chain e, 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 = 192
Score = 159 bits (403), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 79/101 (78%), Positives = 87/101 (86%), Gaps = 1/101 (0%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSK-QKDELII 201
GF YKMR+ YAHFPIN V EN +L+EIRNFLGEKYIRRV+M PGV S S+ QKDELI+
Sbjct: 87 GFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGEKYIRRVRMRPGVACSVSQAQKDELIL 146
Query: 202 EGNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEKTTV 242
EGNDIE VS SAALIQQ+TTVKNKDIRKFLDG+YVSEK TV
Sbjct: 147 EGNDIELVSNSAALIQQATTVKNKDIRKFLDGIYVSEKGTV 187
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/24 (66%), Positives = 21/24 (87%)
Query: 48 GTKKEIAAVRTVCSHISNMLKGVT 71
G +KE+A VRT+CSH+ NM+KGVT
Sbjct: 62 GNRKELATVRTICSHVQNMIKGVT 85
>pdb|3IZR|F Chain F, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 190
Score = 135 bits (340), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 66/105 (62%), Positives = 81/105 (77%), Gaps = 1/105 (0%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQ-KDELII 201
G+ YKMR YAHFPIN + +NT +EIRNFLGEK +R+V M GV + S++ KDEL++
Sbjct: 86 GYRYKMRFVYAHFPINASITNSNTAIEIRNFLGEKKVRKVDMLEGVTILRSEKVKDELVL 145
Query: 202 EGNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEKTTVVTDA 246
+GNDIE VSRSAALI Q VKNKDIRKFLDG+YVS+K T+ DA
Sbjct: 146 DGNDIELVSRSAALINQKCHVKNKDIRKFLDGIYVSDKGTITEDA 190
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 41 FDVDCDNGTKKEIAAVRTVCSHISNMLKGVTK 72
VD GT++ +AA+RT SH+ N++ GVTK
Sbjct: 54 LQVDAWFGTRRTMAAIRTAISHVQNLITGVTK 85
>pdb|3ZF7|YY Chain y, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 189
Score = 114 bits (286), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 62/106 (58%), Positives = 75/106 (70%), Gaps = 5/106 (4%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQ---KDEL 199
GF +K+R AYAHFPI VT EN L+EIRNFLGEK +RR +A VKV + KDEL
Sbjct: 85 GFRFKVRFAYAHFPI-SVTVENQ-LVEIRNFLGEKRVRRQVVADDVKVYRTDAALVKDEL 142
Query: 200 IIEGNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEKTTVVTD 245
++EGND+E VSR AA++ Q VK KDIRKFLDG+YV KT + D
Sbjct: 143 VLEGNDLEQVSREAAVMHQLCLVKKKDIRKFLDGIYVQTKTNIEVD 188
>pdb|4A17|E Chain E, 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|E Chain E, 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|E Chain E, 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|E Chain E, 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 = 188
Score = 108 bits (269), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 50/98 (51%), Positives = 75/98 (76%), Gaps = 1/98 (1%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNS-KQKDELII 201
G+ +KM+ A+AHFPI +++ + +EI++FLGEK IRR++ PGVK+S ++K+ L +
Sbjct: 85 GYKFKMKLAFAHFPIQEAVAKDGSSIEIKHFLGEKRIRRIQALPGVKISRKDEEKNTLTL 144
Query: 202 EGNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEK 239
+G D+ NVS++ ALI QS VK KDIR+FLDG+YVS+K
Sbjct: 145 QGIDLNNVSQTCALIHQSCLVKEKDIRQFLDGIYVSDK 182
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 19/26 (73%)
Query: 47 NGTKKEIAAVRTVCSHISNMLKGVTK 72
++KE A ++++ S I NM++GVT+
Sbjct: 59 QASRKERAVLQSIASQIKNMIRGVTE 84
>pdb|1S1I|H Chain H, 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|3IZS|F Chain F, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|I Chain I, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|I Chain I, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|H 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|H Chain H, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|3J16|F Chain F, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
pdb|4B6A|H Chain H, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 191
Score = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 54/106 (50%), Positives = 72/106 (67%), Gaps = 3/106 (2%)
Query: 143 GFLYKMRAAYAHFPINC--VTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQ-KDEL 199
G+ YKMR YAHFPIN V + +E+RNFLG+K IR V + GV + S KDE+
Sbjct: 85 GYKYKMRYVYAHFPINVNIVEKDGAKFIEVRNFLGDKKIRNVPVRDGVTIEFSTNVKDEI 144
Query: 200 IIEGNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEKTTVVTD 245
++ GN +E+VS++AA +QQ V+NKDIRKFLDG+YVS K + D
Sbjct: 145 VLSGNSVEDVSQNAADLQQICRVRNKDIRKFLDGIYVSHKGFITED 190
Score = 34.7 bits (78), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 43 VDCDNGTKKEIAAVRTVCSHISNMLKGVTK 72
V NG +K +AA+RTV S + NM+ GVTK
Sbjct: 55 VAVHNGGRKHVAALRTVKSLVDNMITGVTK 84
>pdb|3JYW|H Chain H, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 179
Score = 105 bits (261), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 53/100 (53%), Positives = 70/100 (70%), Gaps = 3/100 (3%)
Query: 143 GFLYKMRAAYAHFPINC--VTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQ-KDEL 199
G+ YKMR YAHFPIN V + +E+RNFLG+K IR V + GV + S KDE+
Sbjct: 80 GYKYKMRYVYAHFPINVNIVEKDGAKFIEVRNFLGDKKIRNVPVRDGVTIEFSTNVKDEI 139
Query: 200 IIEGNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEK 239
++ GN +E+VS++AA +QQ V+NKDIRKFLDG+YVS K
Sbjct: 140 VLSGNSVEDVSQNAADLQQICRVRNKDIRKFLDGIYVSHK 179
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 21/30 (70%)
Query: 43 VDCDNGTKKEIAAVRTVCSHISNMLKGVTK 72
V NG +K +AA+RTV S + NM+ GVTK
Sbjct: 50 VAVHNGGRKHVAALRTVKSLVDNMITGVTK 79
>pdb|3J21|F Chain F, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 184
Score = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 43/98 (43%), Positives = 61/98 (62%), Gaps = 4/98 (4%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQKDELIIE 202
GF YK++ Y+HFPI+ + ++E NFLGEK R+ K+ PGV V Q E+I+E
Sbjct: 85 GFTYKLKVVYSHFPISVKVQGDEVIIE--NFLGEKAPRKAKILPGVTVKVRGQ--EIIVE 140
Query: 203 GNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEKT 240
G D E V ++AA I+Q+T + D R F DG+Y+ EK
Sbjct: 141 GIDKEAVGQTAANIEQATRITKWDRRIFQDGIYIVEKA 178
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 46 DNGTKKEIAAVRTVCSHISNMLKGVTK 72
D +K++A RT +HI NM+KGVT+
Sbjct: 58 DFPRRKDVAIARTFAAHIRNMIKGVTE 84
>pdb|3G4S|E Chain E, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|E Chain E, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|E Chain E, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|E Chain E, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 172
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/97 (38%), Positives = 55/97 (56%), Gaps = 4/97 (4%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQKDELIIE 202
G+ Y M Y+HFP+ + ++E NFLGEK RR + V + EL +
Sbjct: 79 GWEYGMEVFYSHFPMQVNVEGDEVVIE--NFLGEKAPRRTTIHGDTDVEIDGE--ELTVS 134
Query: 203 GNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEK 239
G DIE V ++AA I+Q T + +KD+R F DG+Y++ K
Sbjct: 135 GPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYITRK 171
Score = 27.7 bits (60), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 43 VDCDNGTKKEIAAVRTVCSHISNMLKGVTK 72
++ D K ++ + T SHI NM GVT+
Sbjct: 49 IESDEDNAKTMSTIGTFQSHIENMFHGVTE 78
>pdb|1S72|E Chain E, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|E Chain E, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|E Chain E, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|E Chain E, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|E Chain E, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|E Chain E, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|E Chain E, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|E Chain E, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|E Chain E, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|E Chain E, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|E Chain E, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|E Chain E, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|E Chain E, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|E Chain E, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|E Chain E, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|E Chain E, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|E Chain E, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|E Chain E, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|E Chain E, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|E Chain E, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|E Chain E, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|E Chain E, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|E Chain E, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|E Chain E, 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|E Chain E, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|E Chain E, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|E Chain E, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|E Chain E, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|E Chain E, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|E Chain E, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|E Chain E, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|E Chain E, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|E Chain E, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 178
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/97 (38%), Positives = 55/97 (56%), Gaps = 4/97 (4%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQKDELIIE 202
G+ Y M Y+HFP+ + ++E NFLGEK RR + V + EL +
Sbjct: 80 GWEYGMEVFYSHFPMQVNVEGDEVVIE--NFLGEKAPRRTTIHGDTDVEIDGE--ELTVS 135
Query: 203 GNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEK 239
G DIE V ++AA I+Q T + +KD+R F DG+Y++ K
Sbjct: 136 GPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYITRK 172
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 43 VDCDNGTKKEIAAVRTVCSHISNMLKGVTK 72
++ D K ++ + T SHI NM GVT+
Sbjct: 50 IESDEDNAKTMSTIGTFQSHIENMFHGVTE 79
>pdb|1FFK|1 Chain 1, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|E Chain E, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|E Chain E, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|G Chain G, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|G Chain G, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|G Chain G, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|G Chain G, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|G Chain G, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|G Chain G, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|G Chain G, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|G Chain G, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|G Chain G, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|G Chain G, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|G Chain G, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|G Chain G, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|G Chain G, 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|E Chain E, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|E Chain E, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|E Chain E, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|E Chain E, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
Length = 177
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/97 (38%), Positives = 55/97 (56%), Gaps = 4/97 (4%)
Query: 143 GFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEKYIRRVKMAPGVKVSNSKQKDELIIE 202
G+ Y M Y+HFP+ + ++E NFLGEK RR + V + EL +
Sbjct: 79 GWEYGMEVFYSHFPMQVNVEGDEVVIE--NFLGEKAPRRTTIHGDTDVEIDGE--ELTVS 134
Query: 203 GNDIENVSRSAALIQQSTTVKNKDIRKFLDGLYVSEK 239
G DIE V ++AA I+Q T + +KD+R F DG+Y++ K
Sbjct: 135 GPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYITRK 171
Score = 27.3 bits (59), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 43 VDCDNGTKKEIAAVRTVCSHISNMLKGVTK 72
++ D K ++ + T SHI NM GVT+
Sbjct: 49 IESDEDNAKTMSTIGTFQSHIENMFHGVTE 78
>pdb|2CQL|A Chain A, Solution Structure Of The N-Terminal Domain Of Human
Ribosomal Protein L9
Length = 100
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 25/34 (73%)
Query: 38 EETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVT 71
++ VD G +KE+A VRT+CSH+ NM+KGVT
Sbjct: 59 KKRLRVDKWWGNRKELATVRTICSHVQNMIKGVT 92
>pdb|3DC0|A Chain A, Crystal Structure Of Native Alpha-Amylase From Bacillus
Sp. Kr-8104
Length = 422
Score = 30.8 bits (68), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 6/64 (9%)
Query: 47 NGTKKEIAAVRTVCSHISNMLKGVTKVKDCAVKVQQSTLDLLCEFLWNVSLVLCTRNTLA 106
N T + AA+ ISN G T++K+ + + + LL + WN T+NT
Sbjct: 98 NHTTSDYAAISNEIKSISNWTHGNTQIKNWSDRWDVTQNSLLGLYDWN------TQNTQV 151
Query: 107 QVFL 110
Q +L
Sbjct: 152 QSYL 155
>pdb|4AQ5|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ5|D Chain D, Gating Movement In Acetylcholine Receptor Analysed By
Time- Resolved Electron Cryo-Microscopy (Closed Class)
pdb|4AQ9|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
pdb|4AQ9|D Chain D, Gating Movement In Acetylcholine Receptor Analysed By
Time-Resolved Electron Cryo-Microscopy (Open Class)
Length = 461
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 33/55 (60%), Gaps = 4/55 (7%)
Query: 189 KVSNSKQKDELIIEGNDIENVSR---SAALIQQSTTVKNKDIRKFLDGL-YVSEK 239
+ S KQ++++ + DI ++S + +I Q+ +KN D++ ++G+ Y++E
Sbjct: 355 RASKEKQENKIFADDIDISDISGKQVTGEVIFQTPLIKNPDVKSAIEGVKYIAEH 409
>pdb|1OED|A Chain A, Structure Of Acetylcholine Receptor Pore From Electron
Images
pdb|1OED|D Chain D, Structure Of Acetylcholine Receptor Pore From Electron
Images
Length = 227
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 33/54 (61%), Gaps = 4/54 (7%)
Query: 189 KVSNSKQKDELIIEGNDIENVS---RSAALIQQSTTVKNKDIRKFLDGL-YVSE 238
+ S KQ++++ + DI ++S + +I Q+ +KN D++ ++G+ Y++E
Sbjct: 121 RASKEKQENKIFADDIDISDISGKQVTGEVIFQTPLIKNPDVKSAIEGVKYIAE 174
>pdb|3UJD|A Chain A, Phosphoethanolamine Methyltransferase Mutant (Y19f) From
Plasmodium Falciparum In Complex With Phosphocholine
Length = 266
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 19 DLNPGGGGGCLYLNKTY 35
D+ G GGGC+Y+N+ Y
Sbjct: 61 DIGSGLGGGCMYINEKY 77
>pdb|3UJC|A Chain A, Phosphoethanolamine Methyltransferase Mutant (H132a)
From Plasmodium Falciparum In Complex With
Phosphocholine
Length = 266
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 19 DLNPGGGGGCLYLNKTY 35
D+ G GGGC+Y+N+ Y
Sbjct: 61 DIGSGLGGGCMYINEKY 77
>pdb|3UJ7|A Chain A, Phosphoethanolamine Methyltransferase From Plasmodium
Falciparum In Complex With Sam And Po4
pdb|3UJ7|B Chain B, Phosphoethanolamine Methyltransferase From Plasmodium
Falciparum In Complex With Sam And Po4
pdb|3UJ8|A Chain A, Phosphoethanolamine Methyltransferase From Plasmodium
Falciparum In Complex With Sinefungin And Po4
pdb|3UJ9|A Chain A, Phosphoethanolamine Methyltransferase From Plasmodium
Falciparum In Complex With Phosphocholine
pdb|3UJA|A Chain A, Phosphoethanolamine Methyltransferase From Plasmodium
Falciparum In Complex With Phosphoethanolamine
pdb|3UJB|A Chain A, Phosphoethanolamine Methyltransferase From Plasmodium
Falciparum In Complex With Sah And Phosphoethanolamine
pdb|3UJB|B Chain B, Phosphoethanolamine Methyltransferase From Plasmodium
Falciparum In Complex With Sah And Phosphoethanolamine
pdb|4FGZ|A Chain A, Crystal Structure Of Phosphoethanolamine
Methyltransferase From Plasmodium Falciparum In Complex
With Amodiaquine
pdb|4FGZ|B Chain B, Crystal Structure Of Phosphoethanolamine
Methyltransferase From Plasmodium Falciparum In Complex
With Amodiaquine
Length = 266
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 19 DLNPGGGGGCLYLNKTY 35
D+ G GGGC+Y+N+ Y
Sbjct: 61 DIGSGLGGGCMYINEKY 77
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
0.322 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,062,264
Number of Sequences: 62578
Number of extensions: 275662
Number of successful extensions: 584
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 542
Number of HSP's gapped (non-prelim): 30
length of query: 247
length of database: 14,973,337
effective HSP length: 96
effective length of query: 151
effective length of database: 8,965,849
effective search space: 1353843199
effective search space used: 1353843199
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: 50 (23.9 bits)