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= 022045
(303 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 389
Score = 483 bits (1244), Expect = e-137, Method: Compositional matrix adjust.
Identities = 233/316 (73%), Positives = 258/316 (81%), Gaps = 16/316 (5%)
Query: 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 60
MSHRKFEHPRHGSLGFLPRKR SRHRGKVK+FPKDD KPC LTAFLGYKAGMTHIVR+V
Sbjct: 1 MSHRKFEHPRHGSLGFLPRKRCSRHRGKVKSFPKDDQQKPCHLTAFLGYKAGMTHIVREV 60
Query: 61 EKPGSKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYK 120
EKPGSKLHKKETCEAVTIIETPPL KTPRGLR+L +VWAQHL+E+VRRRFYK
Sbjct: 61 EKPGSKLHKKETCEAVTIIETPPLVIVGLVAYVKTPRGLRTLNSVWAQHLSEDVRRRFYK 120
Query: 121 NWCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR---------------KKAH 165
NWC ++D GKK+IQ QLEKMKKY T++R KKAH
Sbjct: 121 NWCKSKKKAFTKYALKYDSDAGKKEIQLQLEKMKKYATIVRVIAHTQIRKMKGLKQKKAH 180
Query: 166 LMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 225
LMEIQVNGG++A KVD+ Y FFEK++P++AVFQKDEM+DIIGVTKGKGYEGVVTRWGVTR
Sbjct: 181 LMEIQVNGGTIADKVDYGYKFFEKEVPVEAVFQKDEMVDIIGVTKGKGYEGVVTRWGVTR 240
Query: 226 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMT 285
LPRKTHRGLRKVACIGAWHPARVS+TVARAGQNGYHHRTEMNKKIYK+GK+ QESH A T
Sbjct: 241 LPRKTHRGLRKVACIGAWHPARVSYTVARAGQNGYHHRTEMNKKIYKMGKSGQESHEACT 300
Query: 286 EFDRSVYLLSSLMGSF 301
EFDR+ ++ MG F
Sbjct: 301 EFDRTEKDITP-MGGF 315
>pdb|2ZKR|BB Chain b, 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 = 403
Score = 382 bits (980), Expect = e-106, Method: Compositional matrix adjust.
Identities = 187/319 (58%), Positives = 232/319 (72%), Gaps = 20/319 (6%)
Query: 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 60
MSHRKF PRHGSLGFLPRKR+SRHRGKVK+FPKDD SKP LTAFLGYKAGMTHIVR+V
Sbjct: 1 MSHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDSSKPVHLTAFLGYKAGMTHIVREV 60
Query: 61 EKPGSKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYK 120
++PGSK++KKE EAVTI+ETPP+ +TPRGLR+ T++A+H+++E +RRFYK
Sbjct: 61 DRPGSKVNKKEVVEAVTIVETPPMVIVGIVGYVETPRGLRTFKTIFAEHISDECKRRFYK 120
Query: 121 NWCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR--------------KKAHL 166
NW + DGKK ++ MKKYC VIR KKAHL
Sbjct: 121 NWHKSKKKAFTKYCKKWQDADGKKQLERDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHL 180
Query: 167 MEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRL 226
ME+QVNGG+VA+K+D+A E+Q+P+ VF +DEMID+IGVTKGKGY+GV +RW +L
Sbjct: 181 MEVQVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKL 240
Query: 227 PRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGK------ASQES 280
PRKTHRGLRKVACIGAWHPARV+F+VARAGQ GYHHRTE+NKKIYK+G+
Sbjct: 241 PRKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIK 300
Query: 281 HSAMTEFDRSVYLLSSLMG 299
++A T++D S ++ L G
Sbjct: 301 NNASTDYDLSDKSINPLGG 319
>pdb|3IZS|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
Length = 388
Score = 340 bits (872), Expect = 5e-94, Method: Compositional matrix adjust.
Identities = 177/315 (56%), Positives = 223/315 (70%), Gaps = 18/315 (5%)
Query: 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 60
MSHRK+E PRHG LGFLPRKRA+ R +VKAFPKDD SKP LT+FLGYKAGMT IVRD+
Sbjct: 1 MSHRKYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDL 60
Query: 61 EKPGSKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYK 120
++PGSK HK+E EAVT+++TPP+ +TPRGLRSL TVWA+HL++EV+RRFYK
Sbjct: 61 DRPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYK 120
Query: 121 NWCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR--------------KKAHL 166
NW D I+ +L ++KKY +V+R KKAHL
Sbjct: 121 NWYKSKKKAFTKYSAKYAQDGA--GIERELARIKKYASVVRVLVHTQIRKTPLAQKKAHL 178
Query: 167 MEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRL 226
EIQ+NGGS+++KVD+A FEK + +D+VF+++EMID I VTKG G+EGV RWG +L
Sbjct: 179 AEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHRWGTKKL 238
Query: 227 PRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTE 286
PRKTHRGLRKVACIGAWHPA V ++VARAGQ GYH RT +N KIY++GK E++ A T
Sbjct: 239 PRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEANGA-TS 297
Query: 287 FDRSVYLLSSLMGSF 301
FDR+ ++ MG F
Sbjct: 298 FDRTKKTITP-MGGF 311
>pdb|3O58|C Chain C, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|C Chain C, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|B Chain B, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 387
Score = 340 bits (872), Expect = 5e-94, Method: Compositional matrix adjust.
Identities = 177/315 (56%), Positives = 223/315 (70%), Gaps = 18/315 (5%)
Query: 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 60
MSHRK+E PRHG LGFLPRKRA+ R +VKAFPKDD SKP LT+FLGYKAGMT IVRD+
Sbjct: 1 MSHRKYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDL 60
Query: 61 EKPGSKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYK 120
++PGSK HK+E EAVT+++TPP+ +TPRGLRSL TVWA+HL++EV+RRFYK
Sbjct: 61 DRPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYK 120
Query: 121 NWCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR--------------KKAHL 166
NW D I+ +L ++KKY +V+R KKAHL
Sbjct: 121 NWYKSKKKAFTKYSAKYAQDGA--GIERELARIKKYASVVRVLVHTQIRKTPLAQKKAHL 178
Query: 167 MEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRL 226
EIQ+NGGS+++KVD+A FEK + +D+VF+++EMID I VTKG G+EGV RWG +L
Sbjct: 179 AEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHRWGTKKL 238
Query: 227 PRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTE 286
PRKTHRGLRKVACIGAWHPA V ++VARAGQ GYH RT +N KIY++GK E++ A T
Sbjct: 239 PRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEANGA-TS 297
Query: 287 FDRSVYLLSSLMGSF 301
FDR+ ++ MG F
Sbjct: 298 FDRTKKTITP-MGGF 311
>pdb|1S1I|C Chain C, 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 = 386
Score = 338 bits (866), Expect = 3e-93, Method: Compositional matrix adjust.
Identities = 176/314 (56%), Positives = 222/314 (70%), Gaps = 18/314 (5%)
Query: 2 SHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVE 61
SHRK+E PRHG LGFLPRKRA+ R +VKAFPKDD SKP LT+FLGYKAGMT IVRD++
Sbjct: 1 SHRKYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDLD 60
Query: 62 KPGSKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYKN 121
+PGSK HK+E EAVT+++TPP+ +TPRGLRSL TVWA+HL++EV+RRFYKN
Sbjct: 61 RPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYKN 120
Query: 122 WCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR--------------KKAHLM 167
W D I+ +L ++KKY +V+R KKAHL
Sbjct: 121 WYKSKKKAFTKYSAKYAQDGA--GIERELARIKKYASVVRVLVHTQIRKTPLAQKKAHLA 178
Query: 168 EIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP 227
EIQ+NGGS+++KVD+A FEK + +D+VF+++EMID I VTKG G+EGV RWG +LP
Sbjct: 179 EIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHRWGTKKLP 238
Query: 228 RKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEF 287
RKTHRGLRKVACIGAWHPA V ++VARAGQ GYH RT +N KIY++GK E++ A T F
Sbjct: 239 RKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEANGA-TSF 297
Query: 288 DRSVYLLSSLMGSF 301
DR+ ++ MG F
Sbjct: 298 DRTKKTITP-MGGF 310
>pdb|3ZF7|FF Chain f, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 429
Score = 332 bits (852), Expect = 1e-91, Method: Compositional matrix adjust.
Identities = 166/319 (52%), Positives = 213/319 (66%), Gaps = 19/319 (5%)
Query: 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 60
MSH KFEHPRHG LGFLPRKR+ + RG+ ++FPKDDPS+ LT+F+ YKAGMTHIVRDV
Sbjct: 1 MSHCKFEHPRHGHLGFLPRKRSRQIRGRARSFPKDDPSQKPHLTSFMVYKAGMTHIVRDV 60
Query: 61 EKPGSKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYK 120
++PGSK++KKE E VTI+E PP+ +TP G +++ TVWA H + E RRRFYK
Sbjct: 61 DRPGSKVNKKEVVEPVTILEAPPMVVVGIVGYRQTPVGHKTIGTVWAHHTSVEFRRRFYK 120
Query: 121 NWCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR-----------------KK 163
NW T +G+ L+ +K +IR KK
Sbjct: 121 NWKQSAQLAFTKRKQFARTTEGRLAEARTLKAFEKKADIIRVVAHTQLRKLRNNRVGVKK 180
Query: 164 AHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGV 223
AH+ EIQ+NGG++AQK++ A EK++ ID+VFQ+ E D+ VTKG G+ GVV RWGV
Sbjct: 181 AHVSEIQINGGTIAQKIELAKSLLEKEVRIDSVFQQSEACDVCAVTKGHGFTGVVKRWGV 240
Query: 224 TRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKA-SQESHS 282
LPRKTHRGLRKVACIGAWHP+RV +TVARAGQ+GYHHRT +NKKIY+LG+A S E +
Sbjct: 241 ACLPRKTHRGLRKVACIGAWHPSRVMYTVARAGQHGYHHRTHLNKKIYQLGRAVSMEPNQ 300
Query: 283 AMTEFDRSVYLLSSLMGSF 301
A T +D + ++ MG F
Sbjct: 301 ATTAYDLTAKTITP-MGGF 318
>pdb|3JYW|C Chain C, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 362
Score = 332 bits (850), Expect = 2e-91, Method: Compositional matrix adjust.
Identities = 173/311 (55%), Positives = 219/311 (70%), Gaps = 18/311 (5%)
Query: 5 KFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPG 64
K+E PRHG LGFLPRKRA+ R +VKAFPKDD SKP LT+FLGYKAGMT IVRD+++PG
Sbjct: 1 KYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDLDRPG 60
Query: 65 SKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCX 124
SK HK+E EAVT+++TPP+ +TPRGLRSL TVWA+HL++EV+RRFYKNW
Sbjct: 61 SKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYKNWYK 120
Query: 125 XXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR--------------KKAHLMEIQ 170
D I+ +L ++KKY +V+R KKAHL EIQ
Sbjct: 121 SKKKAFTKYSAKYAQDGA--GIERELARIKKYASVVRVLVHTQIRKTPLAQKKAHLAEIQ 178
Query: 171 VNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKT 230
+NGGS+++KVD+A FEK + +D+VF+++EMID I VTKG G+EGV RWG +LPRKT
Sbjct: 179 LNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHRWGTKKLPRKT 238
Query: 231 HRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRS 290
HRGLRKVACIGAWHPA V ++VARAGQ GYH RT +N KIY++GK E++ A T FDR+
Sbjct: 239 HRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEANGA-TSFDRT 297
Query: 291 VYLLSSLMGSF 301
++ MG F
Sbjct: 298 KKTITP-MGGF 307
>pdb|4A17|B Chain B, 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|B Chain B, 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|B Chain B, 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|B Chain B, 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 = 391
Score = 306 bits (783), Expect = 1e-83, Method: Compositional matrix adjust.
Identities = 154/297 (51%), Positives = 206/297 (69%), Gaps = 18/297 (6%)
Query: 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 60
MSHRKFE PRHGSLGF PR+R HRG+ ++FPKDDPSK LTAF G+KAGMTHI+R+V
Sbjct: 1 MSHRKFEAPRHGSLGFRPRRRTRHHRGRCRSFPKDDPSKKPHLTAFTGFKAGMTHILREV 60
Query: 61 EKPGSKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYK 120
++ GS+ +KKE EAVT+IE PP+ TPRGLR+L TVWA+ ++ ++RFYK
Sbjct: 61 DRSGSRHNKKEVVEAVTVIECPPMTIVGVVGYIDTPRGLRALTTVWAKTIDNNTKKRFYK 120
Query: 121 NWCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR--------------KKAHL 166
NW E + +K L++++KYC+V+R KK H+
Sbjct: 121 NWANSNKKAFTHH----EKNFDQKAQDLLLKRIEKYCSVVRVIAHTNMSKLNLRQKKNHI 176
Query: 167 MEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRL 226
+EIQVNGG VA+KV FA EK++ +D++F ++EM+D++GVTKGKG+ GV+ R+GV L
Sbjct: 177 LEIQVNGGKVAEKVAFAKSLLEKEVKVDSIFAENEMLDVLGVTKGKGFAGVIKRFGVKHL 236
Query: 227 PRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSA 283
+KTHRG RKV CIGAWHP+R+ FTV RAGQ GYHHRTE NKK+Y++GK S+++
Sbjct: 237 QKKTHRGYRKVGCIGAWHPSRIRFTVPRAGQLGYHHRTETNKKVYRVGKGDDASNAS 293
>pdb|1GIY|E Chain E, 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|1ML5|EE Chain e, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|E Chain E, 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|E Chain E, 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|E Chain E, 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|E Chain E, 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
Length = 338
Score = 161 bits (408), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 97/277 (35%), Positives = 142/277 (51%), Gaps = 8/277 (2%)
Query: 9 PRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLH 68
PR GSLGF PRKR++ + ++P DD +P + F GYKAGMTH+V ++P S
Sbjct: 6 PRKGSLGFGPRKRSTSETPRFNSWPSDD-GQPG-VQGFAGYKAGMTHVVLVNDEPNSPRE 63
Query: 69 KKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCXXXXX 128
E VT+IETPP+ TP G R L VW + E+ R
Sbjct: 64 GMEETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTLSDRLDHALDI 123
Query: 129 XXXXXXXXXETDDGKKDIQAQLEKMKKYC-TVIRKKAHLMEIQVNGGSVAQKVDFAYGFF 187
E D D++ + +V +KK +ME +V GGSV+ ++D A
Sbjct: 124 VEDQIRDAHEAGD-LGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIV 182
Query: 188 EK--QIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRG--LRKVACIGAW 243
E + ++ +F+ E D+ GVTKGKG +G V RWGV + K R R++ +G W
Sbjct: 183 EDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW 242
Query: 244 HPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQES 280
+P+RV TV + GQ GYH RTE+NK++ +G+ + +
Sbjct: 243 NPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPT 279
>pdb|1S72|B Chain B, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|B Chain B, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|B Chain B, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|B Chain B, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|B Chain B, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|B Chain B, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|B Chain B, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|B Chain B, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|B Chain B, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|B Chain B, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|B Chain B, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|B Chain B, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|B Chain B, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|B Chain B, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|B Chain B, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|B Chain B, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|B Chain B, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|B Chain B, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|B Chain B, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|B Chain B, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|B Chain B, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2QA4|B Chain B, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|B Chain B, 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|B Chain B, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|B Chain B, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|B Chain B, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|B Chain B, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|B Chain B, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|B Chain B, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|B Chain B, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|B Chain B, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|B Chain B, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 338
Score = 160 bits (405), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 97/277 (35%), Positives = 142/277 (51%), Gaps = 8/277 (2%)
Query: 9 PRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLH 68
PR GSLGF PRKR++ + ++P DD +P + F GYKAGMTH+V ++P S
Sbjct: 7 PRKGSLGFGPRKRSTSETPRFNSWPSDD-GQPG-VQGFAGYKAGMTHVVLVNDEPNSPRE 64
Query: 69 KKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCXXXXX 128
E VT+IETPP+ TP G R L VW + E+ R
Sbjct: 65 GMEETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTLDVPEDHDPDA 124
Query: 129 XXXXXXXXXETDDGKKDIQAQLEKMKKYC-TVIRKKAHLMEIQVNGGSVAQKVDFAYGFF 187
E D D++ + +V +KK +ME +V GGSV+ ++D A
Sbjct: 125 AEEQIRDAHEAGD-LGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIV 183
Query: 188 EK--QIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRG--LRKVACIGAW 243
E + ++ +F+ E D+ GVTKGKG +G V RWGV + K R R++ +G W
Sbjct: 184 EDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW 243
Query: 244 HPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQES 280
+P+RV TV + GQ GYH RTE+NK++ +G+ + +
Sbjct: 244 NPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPT 280
>pdb|1JJ2|B Chain B, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|B Chain B, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|D Chain D, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|D Chain D, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|D Chain D, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|D Chain D, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|D Chain D, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|D Chain D, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|D Chain D, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|D Chain D, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|D Chain D, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|D Chain D, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|D Chain D, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|D Chain D, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|D Chain D, 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|B Chain B, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|B Chain B, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|B Chain B, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|2OTL|B Chain B, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|3CXC|B Chain B, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3G4S|B Chain B, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|B Chain B, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|B Chain B, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|B Chain B, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 337
Score = 160 bits (405), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 97/277 (35%), Positives = 142/277 (51%), Gaps = 8/277 (2%)
Query: 9 PRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLH 68
PR GSLGF PRKR++ + ++P DD +P + F GYKAGMTH+V ++P S
Sbjct: 6 PRKGSLGFGPRKRSTSETPRFNSWPSDD-GQPG-VQGFAGYKAGMTHVVLVNDEPNSPRE 63
Query: 69 KKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCXXXXX 128
E VT+IETPP+ TP G R L VW + E+ R
Sbjct: 64 GMEETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTLDVPEDHDPDA 123
Query: 129 XXXXXXXXXETDDGKKDIQAQLEKMKKYC-TVIRKKAHLMEIQVNGGSVAQKVDFAYGFF 187
E D D++ + +V +KK +ME +V GGSV+ ++D A
Sbjct: 124 AEEQIRDAHEAGD-LGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIV 182
Query: 188 EK--QIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRG--LRKVACIGAW 243
E + ++ +F+ E D+ GVTKGKG +G V RWGV + K R R++ +G W
Sbjct: 183 EDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW 242
Query: 244 HPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQES 280
+P+RV TV + GQ GYH RTE+NK++ +G+ + +
Sbjct: 243 NPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPT 279
>pdb|1FFK|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 337
Score = 159 bits (402), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 98/277 (35%), Positives = 143/277 (51%), Gaps = 9/277 (3%)
Query: 9 PRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLH 68
PR GSLGF PRKR++ + ++P DD +P + F GYKAGMTH+V ++P S
Sbjct: 6 PRKGSLGFGPRKRSTSETPRFNSWPSDD-GQPG-VQGFAGYKAGMTHVVLVNDEPNSPRE 63
Query: 69 KKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCXXXXX 128
ET VT+IETPP+ TP G R L VW + E+ R
Sbjct: 64 GMETV-PVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTLDVPEDHDPDA 122
Query: 129 XXXXXXXXXETDDGKKDIQAQLEKMKKYC-TVIRKKAHLMEIQVNGGSVAQKVDFAYGFF 187
E D D++ + +V +KK +ME +V GGSV+ ++D A
Sbjct: 123 AEEQIRDAHEAGD-LGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIV 181
Query: 188 EK--QIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRG--LRKVACIGAW 243
E + ++ +F+ E D+ GVTKGKG +G V RWGV + K R R++ +G W
Sbjct: 182 EDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW 241
Query: 244 HPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQES 280
+P+RV TV + GQ GYH RTE+NK++ +G+ + +
Sbjct: 242 NPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDEPT 278
>pdb|3J21|C Chain C, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 365
Score = 156 bits (394), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/307 (33%), Positives = 150/307 (48%), Gaps = 28/307 (9%)
Query: 5 KFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPG 64
K PR GSLGF PRKRA +++++PK+ R+ F GYKAGMTHI+ ++PG
Sbjct: 3 KVHRPRRGSLGFSPRKRAKSIVPRIRSWPKETE---VRMLGFAGYKAGMTHILMIDDEPG 59
Query: 65 SKLHKKETCEAVTIIETPPLXXXXXXXXXKTPRGLRSLCTVWAQHL---NEEVRRR---- 117
+ KE VTIIETPPL GL + V N + R
Sbjct: 60 LT-NGKEIFMPVTIIETPPLRVFGIRAYRMGYLGLETATEVIVPDFPLDNYPAKERKGKP 118
Query: 118 -----FYK-----------NWCXXXXXXXXXXXXXXETDDGKKDIQAQLEKMKKYCTVIR 161
FYK N+ + D++A + + + ++
Sbjct: 119 KPKMTFYKLLERRIATLPKNYTQEMFEQKLGQLEDMIKEGEIVDVRA-IVATQPWVIKLK 177
Query: 162 KKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRW 221
KK +ME + G SV +K ++ K++ + V ++ E++D+I VTKGKG +G V RW
Sbjct: 178 KKPEVMEYAIGGTSVEEKFNYIKEKLGKELRVGEVLKEGELLDVIAVTKGKGTQGPVKRW 237
Query: 222 GVTRLPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESH 281
G+ K +G RKV IG WHPARV +TV AGQ G+HHRTE+NK++ +G+ +
Sbjct: 238 GIKLRAHKDSKGRRKVGSIGPWHPARVMWTVPMAGQMGFHHRTELNKRLIAIGENGKLKL 297
Query: 282 SAMTEFD 288
TE +
Sbjct: 298 DENTEIE 304
>pdb|2FTC|C Chain C, Structural Model For The Large Subunit Of The Mammalian
Mitochondrial Ribosome
Length = 211
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 195 AVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP-----RKTHRGLRKVACIGAWHPARVS 249
A F+ + +D+ T GKG++GV+ RWG P KTH R+ + RV
Sbjct: 101 AHFRPGQYVDVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTH---RRPGAVATGDIGRVW 157
Query: 250 FTVARAGQNGYHHRTEMNKKIYKL 273
G+ G +RTE K++++
Sbjct: 158 PGTKMPGKMGNIYRTEYGLKVWRI 181
>pdb|3BBO|F Chain F, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 259
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 34/115 (29%), Positives = 54/115 (46%), Gaps = 18/115 (15%)
Query: 165 HLMEIQ---VNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRW 221
HL E + ++G V QK+DF +F++ +++D+ G T GKG++G + R
Sbjct: 121 HLQEFRLQSIDGFEVTQKLDFG-----------ELFKEGDLVDVSGTTIGKGFQGGIKRH 169
Query: 222 GVTRLPRKTH--RGLRKVACIGAW-HPARVSFTVARAGQNGYHHRTEMNKKIYKL 273
R + TH + R++ IGA P RV G+ G R KI K+
Sbjct: 170 NFKR-GQMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTKRKIRKLKIVKI 223
>pdb|3FIN|E Chain E, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit.
pdb|3TVE|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVH|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
Length = 205
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 196 VFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRK--THRGLRKVACIGAWH-PARVSFTV 252
+F+ E +D+ G +KG+G+ GV+ RW P H+ R IG P RV
Sbjct: 95 IFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGK 154
Query: 253 ARAGQNGYHHRTEMNKKIYKL 273
AG G T MN ++ +
Sbjct: 155 KMAGHYGAERVTVMNLEVVDV 175
>pdb|2J01|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
This File Contains The 50s Subunit From Molecule I.
pdb|2J03|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
This File Contains The 50s Subunit From Molecule Ii.
pdb|2HGJ|E Chain E, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgi.
pdb|2HGQ|E Chain E, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgq Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgp.
pdb|2HGU|E Chain E, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr.
pdb|1VSA|C Chain C, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome
Subunit Is In The File 2ow8
pdb|2V47|E Chain E, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 2 Of 4). This File Contains The 50s
Subunit For Molecule 1.
pdb|2V49|E Chain E, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 4 Of 4). This File Contains The 50s
Subunit Of Molecule 2.
pdb|1VSP|C Chain C, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 1vsp, Contains The 50s
Ribosome Subunit. 30s Ribosome Subunit Is In The File
2qnh
pdb|3D5B|E Chain E, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5D|E Chain E, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1F|E Chain E, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes As Described In
Remark 400.
pdb|3F1H|E Chain E, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes As
Described In Remark 400.
pdb|2WDI|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule I.
pdb|2WDJ|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WDL|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule I.
pdb|2WDN|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule Ii.
pdb|2WH2|E Chain E, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH4|E Chain E, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|3HUX|E Chain E, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule I.
pdb|3HUZ|E Chain E, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WRJ|E Chain E, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 2 Of 4).
pdb|2WRL|E Chain E, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State. (Part 4 Of
4).
pdb|2WRO|E Chain E, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 2 Of 4).
pdb|2WRR|E Chain E, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 4 Of 4).
pdb|3KIR|E Chain E, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 2 Of 4)
pdb|3KIT|E Chain E, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 4 Of 4)
pdb|3KIW|E Chain E, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 2 Of 4)
pdb|3KIY|E Chain E, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 4 Of 4)
pdb|3KNI|E Chain E, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule I
pdb|3KNK|E Chain E, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule Ii.
pdb|3KNM|E Chain E, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule I.
pdb|3KNO|E Chain E, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule Ii
pdb|3I8F|E Chain E, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8f Contains 50s Ribosomal Subunit. The 30s
Ribosoma Can Be Found In Pdb Entry 3i8g. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8I|E Chain E, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9C|E Chain E, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9c Contains 50s Ribosomal Subunit Of Molecule B.
The 30s Subunit Can Be Found In Pdb Entry 3i9b. Molecule
A In The S Asymmetric Unit Is Deposited As 3i9d (30s)
And 3i9e (50s)
pdb|3I9E|E Chain E, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9e Contains 50s Ribosomal Subunit Of Molecule A.
The 30s Subunit Can Be Found In Pdb Entry 3i9d. Molecule
B In The S Asymmetric Unit Is Deposited As 3i9b (30s)
And 3i9c (50s)
pdb|2X9S|E Chain E, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|E Chain E, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|3MRZ|D Chain D, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms0.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (50s) And 3ms1 (30s).
pdb|3MS1|D Chain D, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms1 Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 3mr8.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s).
pdb|2XG0|E Chain E, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 2 Of 4)
pdb|2XG2|E Chain E, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 4 Of 4)
pdb|3OH5|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OH7|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OHJ|E Chain E, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHK|E Chain E, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHZ|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI1|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI3|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI5|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2XQE|E Chain E, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XTG|E Chain E, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|E Chain E, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0V|E Chain E, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0X|E Chain E, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Z|E Chain E, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y11|E Chain E, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y13|E Chain E, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y15|E Chain E, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y17|E Chain E, Ef-Tu Complex 3
pdb|2Y19|E Chain E, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|3ZVP|E Chain E, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3UXQ|E Chain E, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXR|E Chain E, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UYE|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UYG|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UZ1|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin
pdb|3UZ2|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ8|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZ9|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZF|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZH|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex.
pdb|3UZK|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex With Paromomycin
pdb|3UZN|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-cognate
Trna-tyr Complex With Paromomycin
pdb|4ABS|E Chain E, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
pdb|4DHA|E Chain E, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHC|E Chain E, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V23|E Chain E, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V25|E Chain E, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 2nd Ribosome In The Asu
pdb|3V27|E Chain E, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V29|E Chain E, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Entry Contains The 50s Subunit Of The 2nd Molecule In
The Asu.
pdb|3V2D|E Chain E, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V2F|E Chain E, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 2nd Ribosome In The Asu
pdb|4G5L|E Chain E, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5N|E Chain E, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule B.
pdb|4G5U|E Chain E, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5W|E Chain E, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule B
Length = 206
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 196 VFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRK--THRGLRKVACIGAWH-PARVSFTV 252
+F+ E +D+ G +KG+G+ GV+ RW P H+ R IG P RV
Sbjct: 95 IFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGK 154
Query: 253 ARAGQNGYHHRTEMNKKIYKL 273
AG G T MN ++ +
Sbjct: 155 KMAGHYGAERVTVMNLEVVDV 175
>pdb|3PYO|D Chain D, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The First 70s Ribosome.
pdb|3PYR|D Chain D, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The Second 70s
Ribosome.
pdb|3PYT|D Chain D, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The First 70s Ribosome.
pdb|3PYV|D Chain D, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The Second 70s Ribosome
Length = 204
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 196 VFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRK--THRGLRKVACIGAWH-PARVSFTV 252
+F+ E +D+ G +KG+G+ GV+ RW P H+ R IG P RV
Sbjct: 95 IFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGK 154
Query: 253 ARAGQNGYHHRTEMNKKIYKL 273
AG G T MN ++ +
Sbjct: 155 KMAGHYGAERVTVMNLEVVDV 175
>pdb|1PNU|B Chain B, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome. This
File, 1pnu, Contains Only Molecules Of The 50s Ribosomal
Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site
Trna Are In The Pdb File 1pns.
pdb|1PNY|B Chain B, Crystal Structure Of The Wild Type Ribosome From E. Coli,
50s Subunit Of 70s Ribosome. This File, 1pny, Contains
Only Molecules Of The 50s Ribosomal Subunit. The 30s
Subunit Is In The Pdb File 1pnx.
pdb|1VOR|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 205
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 38/88 (43%), Gaps = 17/88 (19%)
Query: 196 VFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP-----RKTHR-----GLRKVACIGAWHP 245
+F + E ID G +KGKG +GV+ RW P +K HR G RK P
Sbjct: 95 IFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKT-------P 147
Query: 246 ARVSFTVARAGQNGYHHRTEMNKKIYKL 273
RV AG G T N ++ ++
Sbjct: 148 GRVYKGKRMAGHMGMERVTVQNLEVVEI 175
>pdb|1NKW|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1NWX|B Chain B, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Abt-773
pdb|1NWY|B Chain B, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Azithromycin
pdb|1SM1|B Chain B, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
pdb|1XBP|B Chain B, Inhibition Of Peptide Bond Formation By Pleuromutilins:
The Structure Of The 50s Ribosomal Subunit From
Deinococcus Radiodurans In Complex With Tiamulin
pdb|2OGM|B Chain B, The Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans Complexed With The Pleuromutilin
Derivative Sb-571519
pdb|2OGN|B Chain B, The Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans Complexed With The Pleuromutilin
Derivative Sb-280080
pdb|2OGO|B Chain B, The Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans Complexed With The Pleuromutilin
Derivative Retapamulin (Sb-275833)
pdb|2ZJP|B Chain B, Thiopeptide Antibiotic Nosiheptide Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|2ZJQ|B Chain B, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
pdb|2ZJR|B Chain B, Refined Native Structure Of The Large Ribosomal Subunit
(50s) From Deinococcus Radiodurans
pdb|3CF5|B Chain B, Thiopeptide Antibiotic Thiostrepton Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|3DLL|B Chain B, The Oxazolidinone Antibiotics Perturb The Ribosomal
Peptidyl-Transferase Center And Effect Trna Positioning
pdb|3PIO|B Chain B, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
pdb|3PIP|B Chain B, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
Length = 211
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 38/88 (43%), Gaps = 17/88 (19%)
Query: 196 VFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP-----RKTHR-----GLRKVACIGAWHP 245
+F + E ID G +KGKG +GV+ RW P +K HR G RK P
Sbjct: 95 IFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKT-------P 147
Query: 246 ARVSFTVARAGQNGYHHRTEMNKKIYKL 273
RV AG G T N ++ ++
Sbjct: 148 GRVYKGKRMAGHMGMERVTVQNLEVVEI 175
>pdb|1P85|B Chain B, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P86|B Chain B, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AW4|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AWB|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|1VS6|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS8|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2GYA|B Chain B, Structure Of The 50s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYC|B Chain B, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
pdb|2I2T|D Chain D, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2V|D Chain D, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2J28|D Chain D, Model Of E. Coli Srp Bound To 70s Rncs
pdb|2QOV|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The First 70s Ribosome.
The Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|2QOX|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOZ|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
First 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QP1|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QAM|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAO|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBA|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBC|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBE|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBG|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBI|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The First 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBK|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The Second 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4L|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2VHM|D Chain D, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|D Chain D, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|D Chain D, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|3DF2|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The First 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3DF4|D Chain D, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The Second 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3BBX|D Chain D, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3FIK|D Chain D, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|3IY9|C Chain C, Leishmania Tarentolae Mitochondrial Large Ribosomal
Subunit Model
pdb|3E1B|Y Chain Y, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|Y Chain Y, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
pdb|3I1N|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|D Chain D, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|D Chain D, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|2WWQ|D Chain D, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|1VT2|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The First
70s Ribosome Bound To Cem-101.
pdb|3OFQ|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Erthromycin Bound.
pdb|3OFC|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The First 70s Ribosome With Chloramphenicol Bound.
pdb|3OFD|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Clindamycin.
pdb|3OG0|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAT|D Chain D, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Telithromycin Bound.
pdb|3IZT|E Chain E, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|E Chain E, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3J01|D Chain D, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3R8S|D Chain D, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|D Chain D, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3SGF|D Chain D, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|D Chain D, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|3J0T|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J19|D Chain D, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(50s Subunit)
pdb|4GAR|D Chain D, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|D Chain D, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 209
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 39/88 (44%), Gaps = 10/88 (11%)
Query: 140 DDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGS------VAQKVDFAYGFFEKQIPI 193
+DG + IQ K + H + V G +A+ +F G + I +
Sbjct: 42 NDGYRAIQVTTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVG---QSISV 98
Query: 194 DAVFQKDEMIDIIGVTKGKGYEGVVTRW 221
+ +F + +D+ G +KGKG+ G V RW
Sbjct: 99 E-LFADVKKVDVTGTSKGKGFAGTVKRW 125
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
0.321 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,588,786
Number of Sequences: 62578
Number of extensions: 324047
Number of successful extensions: 777
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 722
Number of HSP's gapped (non-prelim): 25
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
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: 51 (24.3 bits)