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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

5KCS

Cryo-EM structure of the Escherichia coli 70S ribosome in complex with antibiotic Evernimycin, mRNA, TetM and P-site tRNA at 3.9A resolution

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
11A23S Ribosomal RNApolymer2904941827.61GenBank (802133627)Escherichia coli (strain K12)
21B5S Ribosomal RNApolymer12038790.11GenBank (991970073)Escherichia coli (strain K12)
31D50S ribosomal protein L2polymer27329923.61UniProt (P60422)
Pfam (PF00181)
Pfam (PF03947)
In PDB		Escherichia coli (strain K12)
41E50S ribosomal protein L3polymer20922277.51UniProt (P60438)
Pfam (PF00297)
In PDB		Escherichia coli (strain K12)
51F50S ribosomal protein L4polymer20122121.61UniProt (P60723)
Pfam (PF00573)
In PDB		Escherichia coli (strain K12)
61G50S ribosomal protein L5polymer17920333.61UniProt (P62399)
Pfam (PF00281)
Pfam (PF00673)
In PDB		Escherichia coli (strain K12)
71H50S ribosomal protein L6polymer17718932.81UniProt (P0AG55)
Pfam (PF00347)
In PDB		Escherichia coli (strain K12)
81L50S ribosomal protein L7/L12polymer12112309.21UniProt (P0A7K2)
Pfam (PF16320)
Pfam (PF00542)
In PDB		Escherichia coli (strain K12)L8
91I50S ribosomal protein L9polymer14915789.01UniProt (P0A7R1)
Pfam (PF01281)
Pfam (PF03948)
In PDB		Escherichia coli (strain K12)
101J50S ribosomal protein L10polymer16517736.61UniProt (P0A7J3)
Pfam (PF00466)
In PDB		Escherichia coli (strain K12)50S ribosomal protein L8
111K50S ribosomal protein L11polymer14214894.41UniProt (P0A7J7)
Pfam (PF03946)
Pfam (PF00298)
In PDB		Escherichia coli (strain K12)
121N50S ribosomal protein L13polymer14216050.61UniProt (P0AA10)
Pfam (PF00572)
In PDB		Escherichia coli (strain K12)
131O50S ribosomal protein L14polymer12313565.11UniProt (P0ADY3)
Pfam (PF00238)
In PDB		Escherichia coli (strain K12)
141P50S ribosomal protein L15polymer14415008.51UniProt (P02413)
Pfam (PF00828)
In PDB		Escherichia coli (strain K12)
151Q50S ribosomal protein L16polymer13615312.31UniProt (P0ADY7)
Pfam (PF00252)
In PDB		Escherichia coli (strain K12)
161R50S ribosomal protein L17polymer12714393.71UniProt (P0AG44)
Pfam (PF01196)
In PDB		Escherichia coli (strain K12)
171S50S ribosomal protein L18polymer11712794.71UniProt (P0C018)
Pfam (PF00861)
In PDB		Escherichia coli (strain K12)
181T50S ribosomal protein L19polymer11513159.31UniProt (P0A7K6)
Pfam (PF01245)
In PDB		Escherichia coli (strain K12)
191U50S ribosomal protein L20polymer11813528.01UniProt (P0A7L3)
Pfam (PF00453)
In PDB		Escherichia coli (strain K12)
201V50S ribosomal protein L21polymer10311586.41UniProt (P0AG48)
Pfam (PF00829)
In PDB		Escherichia coli (strain K12)
211W50S ribosomal protein L22polymer11012253.41UniProt (P61175)
Pfam (PF00237)
In PDB		Escherichia coli (strain K12)
221X50S ribosomal protein L23polymer10011222.21UniProt (P0ADZ0)
Pfam (PF00276)
In PDB		Escherichia coli (strain K12)
231Y50S ribosomal protein L24polymer10411339.31UniProt (P60624)
Pfam (PF00467)
Pfam (PF17136)
In PDB		Escherichia coli (strain K12)
241Z50S ribosomal protein L25polymer9410713.51UniProt (P68919)
Pfam (PF01386)
In PDB		Escherichia coli (strain K12)
251050S ribosomal protein L27polymer859146.51UniProt (P0A7L8)
Pfam (PF01016)
In PDB		Escherichia coli (strain K12)
261150S ribosomal protein L28polymer789027.61UniProt (P0A7M2)
Pfam (PF00830)
In PDB		Escherichia coli (strain K12)
271250S ribosomal protein L29polymer637286.51UniProt (P0A7M6)
Pfam (PF00831)
In PDB		Escherichia coli (strain K12)
281350S ribosomal protein L30polymer596554.81UniProt (P0AG51)
Pfam (PF00327)
In PDB		Escherichia coli (strain K12)
291450S ribosomal protein L31polymer707887.11UniProt (P0A7M9)
Pfam (PF01197)
In PDB		Escherichia coli (strain K12)
301550S ribosomal protein L32polymer576463.41UniProt (P0A7N4)
Pfam (PF01783)
In PDB		Escherichia coli (strain K12)
311650S ribosomal protein L33polymer556388.61UniProt (P0A7N9)
Pfam (PF00471)
In PDB		Escherichia coli (strain K12)
321750S ribosomal protein L34polymer465397.51UniProt (P0A7P5)
Pfam (PF00468)
In PDB		Escherichia coli (strain K12)
331850S ribosomal protein L35polymer657313.01UniProt (P0A7Q1)
Pfam (PF01632)
In PDB		Escherichia coli (strain K12)Ribosomal protein A
341950S ribosomal protein L36polymer384377.41UniProt (P0A7Q6)
Pfam (PF00444)
In PDB		Escherichia coli (strain K12)Ribosomal protein B
351a16S Ribosomal RNApolymer1539498909.81GenBank (731469900)Escherichia coli (strain K12)
361b30S ribosomal protein S2polymer24126781.71UniProt (P0A7V0)
Pfam (PF00318)
In PDB		Escherichia coli (strain K12)
371c30S ribosomal protein S3polymer23326031.31UniProt (P0A7V3)
Pfam (PF07650)
Pfam (PF00189)
In PDB		Escherichia coli (strain K12)
381d30S ribosomal protein S4polymer20623514.21UniProt (P0A7V8)
Pfam (PF00163)
Pfam (PF01479)
In PDB		Escherichia coli (strain K12)
391e30S ribosomal protein S5polymer16717629.41UniProt (P0A7W1)
Pfam (PF00333)
Pfam (PF03719)
In PDB		Escherichia coli (strain K12)
401f30S ribosomal protein S6polymer13515727.51UniProt (P02358)
Pfam (PF01250)
In PDB		Escherichia coli (strain K12)
411g30S ribosomal protein S7polymer17920055.21UniProt (P02359)
Pfam (PF00177)
In PDB		Escherichia coli (strain K12)
421h30S ribosomal protein S8polymer13014146.61UniProt (P0A7W7)
Pfam (PF00410)
In PDB		Escherichia coli (strain K12)
431i30S ribosomal protein S9polymer13014886.31UniProt (P0A7X3)
Pfam (PF00380)
In PDB		Escherichia coli (strain K12)
441j30S ribosomal protein S10polymer10311755.61UniProt (P0A7R5)
Pfam (PF00338)
In PDB		Escherichia coli (strain K12)
451k30S ribosomal protein S11polymer12913871.01UniProt (P0A7R9)
Pfam (PF00411)
In PDB		Escherichia coli (strain K12)
461l30S ribosomal protein S12polymer12413768.21UniProt (P0A7S3)
Pfam (PF00164)
In PDB		Escherichia coli (strain K12)
471m30S ribosomal protein S13polymer11813128.51UniProt (P0A7S9)
Pfam (PF00416)
In PDB		Escherichia coli (strain K12)
481n30S ribosomal protein S14polymer10111606.61UniProt (P0AG59)
Pfam (PF00253)
In PDB		Escherichia coli (strain K12)
491o30S ribosomal protein S15polymer8910290.81UniProt (P0ADZ4)
Pfam (PF00312)
In PDB		Escherichia coli (strain K12)
501p30S ribosomal protein S16polymer829207.61UniProt (P0A7T3)
Pfam (PF00886)
In PDB		Escherichia coli (strain K12)
511q30S ribosomal protein S17polymer849724.51UniProt (P0AG63)
Pfam (PF00366)
In PDB		Escherichia coli (strain K12)
521r30S ribosomal protein S18polymer759005.51UniProt (P0A7T7)
Pfam (PF01084)
In PDB		Escherichia coli (strain K12)
531s30S ribosomal protein S19polymer9210455.41UniProt (P0A7U3)
Pfam (PF00203)
In PDB		Escherichia coli (strain K12)
541t30S ribosomal protein S20polymer879708.51UniProt (P0A7U7)
Pfam (PF01649)
In PDB		Escherichia coli (strain K12)
551u30S ribosomal protein S21polymer718524.01UniProt (P68679)
Pfam (PF01165)
In PDB		Escherichia coli (strain K12)
561vmRNApolymer6019142.41synthetic construct
571wTetracycline resistance protein TetM from transposon Tn916polymer63972542.91UniProt (P21598)
Pfam (PF00009)
Pfam (PF14492)
Pfam (PF03764)
Pfam (PF00679)
In PDB		Enterococcus faecalisTetM(916)
581xP-site tRNApolymer7724889.91Escherichia coli (strain K12)
591A(2R,3R,4R,6S)-6-{[(2R,3aR,4R,4'R,5'S,6S,6'R,7S,7aR)-6-{[(2S,3R,4R,5S,6R)-2-{[(2R,3S,4S,5S,6S)-6-({(2R,3aS,3a'R,6S,7R,7'R,7aS,7a'S)-7'-[(2,4-dihydroxy-6-methylbenzoyl)oxy]-7-hydroxyoctahydro-4H-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-6-yl}oxy)-4-hydroxy-5-methoxy-2-(methoxymethyl)tetrahydro-2H-pyran-3-yl]oxy}-3-hydroxy-5-methoxy-6-methyltetrahydro-2H-pyran-4-yl]oxy}-4',7-dihydroxy-4,6',7a-trimethyloctahydro-4H-spiro[1,3-dioxolo[4,5-c]pyran-2,2'-pyran]-5'-yl]oxy}-4-{[(2R,4S,5R,6S)-5-methoxy-4,6-dimethyl-4-nitrotetrahydro-2H-pyran-2-yl]oxy}-2-methyltetrahydro-2H-pyran-3-yl 3,5-dichloro-4-hydroxy-2-methoxy-6-methylbenzoate (non-preferred name)non-polymer1631.41Chemie (EVN)
Sequence modifications
1A: 1 - 2904 (GenBank: 802133627)
PDBExternal DatabaseDetails
G 1847A 2723642conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains58
Total formula weight2301008.0
Non-Polymers*Number of molecules1
Total formula weight1631.4
All*Total formula weight2302639.4
*Water molecules are not included.

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PDB entries from 2024-04-24

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