EMDB-59026: Cryo-EM structure of SKM-M.smegmatis 70S ribosomal complex

Basic information

Entry

Database: EMDB / ID: EMD-59026

• Title: Cryo-EM structure of SKM-M.smegmatis 70S ribosomal complex
• Map data: Postprocessed main map, obtained by postprocessing the 3D focus refined map with a mask on the 30S, where the drug binds

Sample

• Complex: SKM-M.smegmatis 70S complex
  • RNA: x 1 types
  • Protein or peptide: x 17 types
• Ligand: x 4 types

• Keywords: Antibiotics / 70S complex / RIBOSOME

Function / homology

Function:

ribosomal small subunit biogenesis / ribosome biogenesis / small ribosomal subunit / small ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / tRNA binding / rRNA binding / structural constituent of ribosome / ribosome / translation / ribonucleoprotein complex / mRNA binding / RNA binding / zinc ion binding / cytosol / cytoplasm

Domain/homology:

Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial domain of unknown function (DUF1713) / Ribosomal protein S14, type Z / Ribosomal protein S16, conserved site / Ribosomal protein S16 signature. / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein S3, bacterial-type / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein S11, bacterial-type / Ribosomal protein S20 / Ribosomal protein S20 superfamily / Ribosomal protein S20 / Ribosomal protein S4, bacterial-type / Ribosomal protein S5, bacterial-type / 30S ribosomal protein S17 / Ribosomal protein S6, plastid/chloroplast / Ribosomal protein S14/S29 / Ribosomal protein S18, conserved site / Ribosomal protein S18 signature. / Ribosomal protein S9, bacterial/plastid / Ribosomal protein S16 / Ribosomal protein S16 domain superfamily / Ribosomal protein S16 / Ribosomal protein S15, bacterial-type / Ribosomal protein S6 / Ribosomal protein S6 / Ribosomal protein S6 superfamily / Ribosomal protein S12, bacterial-type / Translation elongation factor EF1B/ribosomal protein S6 / Ribosomal protein S18 / Ribosomal protein S18 / Ribosomal protein S18 superfamily / K Homology domain / K homology RNA-binding domain / Ribosomal protein S3, conserved site / Ribosomal protein S3 signature. / Ribosomal protein S10, conserved site / Ribosomal protein S10 signature. / : / Ribosomal protein S14, conserved site / Ribosomal protein S14 signature. / KH domain / Type-2 KH domain profile. / K Homology domain, type 2 / Ribosomal protein S3, C-terminal / Ribosomal protein S3, C-terminal domain / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein S10 / Ribosomal protein S7, conserved site / Ribosomal protein S7 signature. / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein S5 signature. / K homology domain superfamily, prokaryotic type / : / Ribosomal protein S17, conserved site / Ribosomal protein S17 signature. / Ribosomal protein S5 / S5 double stranded RNA-binding domain profile. / Ribosomal protein S5, N-terminal / Ribosomal protein S5, C-terminal / Ribosomal protein S5, N-terminal domain / Ribosomal protein S5, C-terminal domain / Ribosomal protein S8 signature. / K homology domain-like, alpha/beta / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein S4, conserved site / Ribosomal protein S4 signature. / Ribosomal protein S14 / Ribosomal protein S14p/S29e / Ribosomal protein S15 signature. / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein S4/S9, N-terminal / Ribosomal protein S4/S9 / Ribosomal protein S8 / Ribosomal protein S8 superfamily / Ribosomal protein S8 / S4 RNA-binding domain profile. / Ribosomal protein S10p/S20e / Ribosomal protein S10 domain / Ribosomal protein S10 domain superfamily / Ribosomal protein S10p/S20e / S4 RNA-binding domain / S4 domain / RNA-binding S4 domain / Ribosomal S11, conserved site / Ribosomal protein S11 signature. / Ribosomal protein S9, conserved site / Ribosomal protein S9 signature. / RNA-binding S4 domain superfamily / Ribosomal protein S11 / Ribosomal protein S12 signature. / Ribosomal protein S11 / Ribosomal protein S5/S7 / Ribosomal protein S7 domain / Ribosomal protein S7 domain superfamily / Ribosomal protein S7p/S5e / Ribosomal protein S9 / Ribosomal protein S9/S16

Component:

Small ribosomal subunit protein bS6 / Small ribosomal subunit protein bS22 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein uS14B / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS9 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein bS18B

• Biological species: Mycolicibacterium smegmatis (bacteria)
• Method: single particle reconstruction / cryo EM / Resolution: 3.0 Å
• Authors: Cook MA / Xu M / Morici M / Travin DT / Wang W / Klepacki D / Nandini N / Rao VN / Sahile H / Hackenberger D / Golas AJ / Nietupski RM / Fitzgerald M / Safdari HA / Berger M / Corazza M / Bond A / Ben-Zion I / Guitor AK / Tertigas D / Wang L / Schaenzer AJ / Ejim L / Yarlagadda V / Gomez J / Surette MG / Av-Gay Y / Dhar N / Hung DT / Vazquez Laslop N / Mankin A / Wilson DN / Wright GD

Funding support

United States, Canada, Germany, 4 items

Organization	Grant number	Country
National Institutes of Health/National Cancer Institute (NIH/NCI)	R35 GM127134	United States
National Institutes of Health/National Cancer Institute (NIH/NCI)	NIH R01 AI162961	United States
Canadian Institutes of Health Research (CIHR)	FDN148463	Canada
German Research Foundation (DFG)	WI3285/12-1	Germany

• Citation: Journal: To Be Published; Title: Cryo-EM structure of SKM-M.smegmatis 70S ribosomal complex; Authors: Morici M / Wilson DN

History

Deposition	Jul 16, 2026	-
Header (metadata) release	Aug 5, 2026	-
Map release	Aug 5, 2026	-
Update	Aug 5, 2026	-
Current status	Aug 5, 2026	Processing site: PDBe / Status: Released

Map

• File: Download / File: emd_59026.map.gz / Format: CCP4 / Size: 307.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
• Annotation: Postprocessed main map, obtained by postprocessing the 3D focus refined map with a mask on the 30S, where the drug binds
• Voxel size: X=Y=Z: 0.832 Å

Density

Contour Level	By AUTHOR: 0.0152
Minimum - Maximum	-0.022222197 - 0.062131558
Average (Standard dev.)	0.0003418032 (±0.0020002965)

• Symmetry: Space group: 1

Details

EMDB XML:

Map geometry	Axis order X Y Z Origin 0 0 0 Dimensions 432 432 432 Spacing 432 432 432
Cell	A=B=C: 359.424 Å α=β=γ: 90.0 °

Supplemental data

Additional map: 3D refined map focused on the 30S, where the drug binds

• File: emd_59026_additional_1.map
• Annotation: 3D refined map focused on the 30S, where the drug binds

Additional map: 3D refined map, not focused. The particles used...

• File: emd_59026_additional_2.map
• Annotation: 3D refined map, not focused. The particles used to obtain it are the same input particles for the 3D focus refined one

Half map: Half-map 2 used to generate the 3D refined...

• File: emd_59026_half_map_1.map
• Annotation: Half-map 2 used to generate the 3D refined map focused on the 30S, where the drug binds

Half map: Half-map 1 used to generate the 3D refined...

• File: emd_59026_half_map_2.map
• Annotation: Half-map 1 used to generate the 3D refined map focused on the 30S, where the drug binds

Sample components

Entire : SKM-M.smegmatis 70S complex

• Entire: Name: SKM-M.smegmatis 70S complex

Components

• Complex: SKM-M.smegmatis 70S complex
  • RNA: 16S rRNA
  • Protein or peptide: Small ribosomal subunit protein bS22
  • Protein or peptide: Small ribosomal subunit protein uS3
  • Protein or peptide: Small ribosomal subunit protein uS4
  • Protein or peptide: Small ribosomal subunit protein uS5
  • Protein or peptide: Small ribosomal subunit protein bS6
  • Protein or peptide: Small ribosomal subunit protein uS7
  • Protein or peptide: Small ribosomal subunit protein uS8
  • Protein or peptide: Small ribosomal subunit protein uS9
  • Protein or peptide: Small ribosomal subunit protein uS10
  • Protein or peptide: Small ribosomal subunit protein uS11
  • Protein or peptide: Small ribosomal subunit protein uS12
  • Protein or peptide: Small ribosomal subunit protein uS14B
  • Protein or peptide: Small ribosomal subunit protein uS15
  • Protein or peptide: Small ribosomal subunit protein bS16
  • Protein or peptide: Small ribosomal subunit protein uS17
  • Protein or peptide: Small ribosomal subunit protein bS18B
  • Protein or peptide: Small ribosomal subunit protein bS20
• Ligand: [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S})-5-acetamido-6-(hydroxymethyl)-4-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-4-[(2~{S},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-5-methoxy-3,4-bis(oxidanyl)oxan-2-yl]oxy-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-oxan-2-yl]oxy-2-(hydroxymethyl)-6-[[~{N}-[4-[(~{N}-methylcarbamimidoyl)amino]butyl]carbamimidoyl]amino]-5-oxidanyl-oxan-3-yl] carbamate
• Ligand: MAGNESIUM ION
• Ligand: ZINC ION
• Ligand: water

Supramolecule #1: SKM-M.smegmatis 70S complex

• Supramolecule: Name: SKM-M.smegmatis 70S complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#18
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 2.5 MDa

Macromolecule #1: 16S rRNA

• Macromolecule: Name: 16S rRNA / type: rna / ID: 1 / Number of copies: 1
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 495.373656 KDa

Sequence

String:

UUUUUGUUUG GAGAGUUUGA UCCUGGCUCA GGACGAACGC UGGCGGCGUG CUUAACACAU GCAAGUCGAA CGGAAAGGCC CUUUCGGGG GUACUCGAGU GGCGAACGGG UGAGUAACAC GUGGGUGAUC UGCCCUGCAC UUUGGGAUAA GCCUGGGAAA C UGGGUCUA AUACCGAAUA CACCCUGCUG GUCGCAUGGC CUGGUAGGGG AAAGCUUUUG CGGUGUGGGA UGGGCCCGCG GC CUAUCAG CUUGUUGGUG GGGUGAUGGC CUACCAAGGC GACGACGGGU AGCCGGCCUG AGAGGGUGAC CGGCCACACU GGG ACUGAG AUACGGCCCA GACUCCUACG GGAGGCAGCA GUGGGGAAUA UUGCACAAUG GGCGCAAGCC UGAUGCAGCG ACGC CGCGU GAGGGAUGAC GGCCUUCGGG UUGUAAACCU CUUUCAGCAC AGACGAAGCG CAAGUGACGG UAUGUGCAGA AGAAG GACC GGCCAACUAC GUGCCAGCAG CCGCGGUAAU ACGUAGGGUC CGAGCGUUGU CCGGAAUUAC UGGGCGUAAA GAGCUC GUA GGUGGUUUGU CGCGUUGUUC GUGAAAACUC ACAGCUUAAC UGUGGGCGUG CGGGCGAUAC GGGCAGACUA GAGUACU GC AGGGGAGACU GGAAUUCCUG GUGUAGCGGU GGAAUGCGCA GAUAUCAGGA GGAACACCGG UGGCGAAGGC GGGUCUCU G GGCAGUAACU GACGCUGAGG AGCGAAAGCG UGGGGAGCGA ACAGGAUUAG AUACCCUGGU AGUCCACGCC GUAAACGGU GGGUACUAGG UGUGGGUUUC CUUCCUUGGG AUCCGUGCCG UAGCUAACGC AUUAAGUACC CCGCCUGGGG AGUACGGCCG CAAGGCUAA AACUCAAAGG AAUUGACGGG GGCCCGCACA AGCGGCGGAG CAUGUGGAUU AAUUCGAUGC AACGCGAAGA A CCUUACCU GGGUUUGACA UGCACAGGAC GCCGGCAGAG AUGUCGGUUC CCUUGUGGCC UGUGUGCAGG UGGUGCAUGG CU GUCGUCA GCUCGUGUCG UGAGAUGUUG GGUUAAGUCC CGCAACGAGC GCAACCCUUG UCUCAUGUUG CCAGCACGUU AUG GUGGGG ACUCGUGAGA GACUGCCGGG GUCAACUCGG AGGAAGGUGG GGAUGACGUC AAGUCAUCAU GCCCCUUAUG UCCA GGGCU UCACACAUGC UACAAUGGCC GGUACAAAGG GCUGCGAUGC CGUGAGGUGG AGCGAAUCCU UUCAAAGCCG GUCUC AGUU CGGAUCGGGG UCUGCAACUC GACCCCGUGA AGUCGGAGUC GCUAGUAAUC GCAGAUCAGC AACGCUGCGG UGAAUA CGU UCCCGGGCCU UGUACACACC GCCCGUCACG UCAUGAAAGU CGGUAACACC CGAAGCCGGU GGCCUAACCC UUGUGGA GG GAGCCGUCGA AGGUGGGAUC GGCGAUUGGG ACGAAGUCGU AACAAGGUAG CCGUACCGGA AGGUGCGGCU GGAUCACC U CCUUUCU

GENBANK: GENBANK: CP082846.1

Macromolecule #2: Small ribosomal subunit protein bS22

• Macromolecule: Name: Small ribosomal subunit protein bS22 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 4.1643 KDa

Sequence

String:

MGSVIKKRRK RMSKKKHRKL LRRTRVQRRK LGK

UniProtKB: Small ribosomal subunit protein bS22

Macromolecule #3: Small ribosomal subunit protein uS3

• Macromolecule: Name: Small ribosomal subunit protein uS3 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 30.191227 KDa

Sequence

String:

MGQKINPHGF RLGITTEWKS RWYADKQYKD YVKEDVAIRK LLATGLERAG IADVEIERTR DRVRVDIHTA RPGIVIGRRG TEADRIRAD LEKLTGKQVQ LNILEVKNPE SQAQLVAQGV AEQLSNRVAF RRAMRKAIQS AMRQPNVKGI RVQCSGRLGG A EMSRSEFY REGRVPLHTL RADIDYGLYE AKTTFGRIGV KVWIYKGDIV GGKRELAAAA PASDRPRRER PSGTRPRRSG SA GTTATST EAGRAATSDA PAAGTAAAAE APAESTES

UniProtKB: Small ribosomal subunit protein uS3

Macromolecule #4: Small ribosomal subunit protein uS4

• Macromolecule: Name: Small ribosomal subunit protein uS4 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 23.415787 KDa

Sequence

String:

MARYTGPATR KSRRLGVDLV GGDQSFEKRP YPPGQHGRAR IKESEYRQQL QEKQKARFSY GVMEKQFRRY YEEANRQPGK TGDNLLRIL ESRLDNVVYR AGLARTRRMA RQLVSHGHFL VNGVKVDIPS YRVSQYDIID VKEKSLNTLP FQIARETAGE R PIPSWLQV VGERQRILVH QLPERAQIDV PLTEQLIVEL YSK

UniProtKB: Small ribosomal subunit protein uS4

Macromolecule #5: Small ribosomal subunit protein uS5

• Macromolecule: Name: Small ribosomal subunit protein uS5 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 21.94609 KDa

Sequence

String:

MAEQAGAGSA QDNRGGRGRR DDRGGRGRDG GDKSNYIERV VSINRVSKVV KGGRRFSFTA LVIVGDGKGM VGVGYGKAKE VPAAIAKGV EEARKNFFRV PLIGSTITHP VQGEAAAGVV MLRPASPGTG VIAGGAARAV LECAGVHDIL AKSLGSDNAI N VVHATVAA LKLLQRPEEV AARRGLPIED VAPAGMLKAR RESEALAAAA AREGSA

UniProtKB: Small ribosomal subunit protein uS5

Macromolecule #6: Small ribosomal subunit protein bS6

• Macromolecule: Name: Small ribosomal subunit protein bS6 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 10.991637 KDa

Sequence

String:

MRPYEIMVIL DPTLDERTVA PSLETFLNVI RKDGGTVDKV DIWGRRRLAY EIAKHAEGIY AVIDVKAEPA TVSELDRQLN LNESVLRTK VLRTDKH

UniProtKB: Small ribosomal subunit protein bS6

Macromolecule #7: Small ribosomal subunit protein uS7

• Macromolecule: Name: Small ribosomal subunit protein uS7 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 17.660375 KDa

Sequence

String:

MPRKGPAPKR PLVNDPVYGS QLVTQLVNKV LLEGKKSLAE RIVYGALEQA REKTGTDPVV TLKRALDNVK PALEVRSRRV GGATYQVPV EVRPDRSTTL ALRWLVNFSR QRREKTMVER LANEILDASN GLGASVKRRE DTHKMAEANR AFAHYRW

UniProtKB: Small ribosomal subunit protein uS7

Macromolecule #8: Small ribosomal subunit protein uS8

• Macromolecule: Name: Small ribosomal subunit protein uS8 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 14.492638 KDa

Sequence

String:

MTMTDPIADF LTRLRNANSA YHDEVTLPHS KLKANIAEIL KREGYISDYR TEDARVGKSL VVQLKYGPSR ERSIAGLRRV SKPGLRVYA KSTNLPRVLG GLGVAIISTS SGLLTDRQAA RQGVGGEVLA YVW

UniProtKB: Small ribosomal subunit protein uS8

Macromolecule #9: Small ribosomal subunit protein uS9

• Macromolecule: Name: Small ribosomal subunit protein uS9 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 16.794365 KDa

Sequence

String:

MTDVTETEVV TESAEPREPV IIDRPIQTVG RRKEAVVRVR LVPGTGQFNL DGRTLENYFP NKVHQQLIKA PLVTVDRVDQ FDIYAHLDG GGPSGQAGAL RLAIARALIL VQPEDRPALK KAGFLTRDPR AIERKKYGLK KARKAPQYSK R

UniProtKB: Small ribosomal subunit protein uS9

Macromolecule #10: Small ribosomal subunit protein uS10

• Macromolecule: Name: Small ribosomal subunit protein uS10 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 11.454313 KDa

Sequence

String:

MAGQKIRIRL KAYDHEAIDA SARKIVETVT RTGASVVGPV PLPTEKNVYC VIRSPHKYKD SREHFEMRTH KRLIDILDPT PKTVDALMR IDLPASVDVN IQ

UniProtKB: Small ribosomal subunit protein uS10

Macromolecule #11: Small ribosomal subunit protein uS11

• Macromolecule: Name: Small ribosomal subunit protein uS11 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 14.671762 KDa

Sequence

String:

MAQAKKGGTA AKKGQKTRRR EKKNVPHGAA HIKSTFNNTI VSITDPQGNV IAWASSGHVG FKGSRKSTPF AAQLAAENAA RKAQEHGVK KVDVFVKGPG SGRETAIRSL QAAGLEVGTI SDVTPQPHNG CRPPKRRRV

UniProtKB: Small ribosomal subunit protein uS11

Macromolecule #12: Small ribosomal subunit protein uS12

• Macromolecule: Name: Small ribosomal subunit protein uS12 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 13.896366 KDa

Sequence

String:

MPTIQQLVRK GRRDKIAKVK TAALKGSPQR RGVCTRVYTT TPKKPNSALR KVARVKLTSQ VEVTAYIPGE GHNLQEHSMV LVRGGRVKD LPGVRYKIIR GSLDTQGVKN RKQARSRYGA KKEKS

UniProtKB: Small ribosomal subunit protein uS12

Macromolecule #13: Small ribosomal subunit protein uS14B

• Macromolecule: Name: Small ribosomal subunit protein uS14B / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 6.976409 KDa

Sequence

String:

MAKKALVHKA NKKPKFAVRA YTRCNKCGRP HSVYRKFGLC RICLREMAHA GELPGVQKSS W

UniProtKB: Small ribosomal subunit protein uS14B

Macromolecule #14: Small ribosomal subunit protein uS15

• Macromolecule: Name: Small ribosomal subunit protein uS15 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 10.368097 KDa

Sequence

String:

MALTAEQKKE ILGQYGLHDT DTGSPEAQVA LLTKRIQDLT EHLKVHKHDH HSRRGLLLLV GRRRRLLKYV AQVDVARYRS LIERLGLRR

UniProtKB: Small ribosomal subunit protein uS15

Macromolecule #15: Small ribosomal subunit protein bS16

• Macromolecule: Name: Small ribosomal subunit protein bS16 / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 16.795207 KDa

Sequence

String:

MAVKIKLTRL GKIRNPQYRI IVADARTRRD GRAIEVIGRY HPKEEPSLIQ IDSERAQYWL GVGAQPTEPV LALLKITGDW QKFKGLPGA EGTLKVKEPK PSKLDLFNAA LAEAESGTTA AATTPKKKKA PKKDEAAEAP AEAAEAPAEA ADAASES

UniProtKB: Small ribosomal subunit protein bS16

Macromolecule #16: Small ribosomal subunit protein uS17

• Macromolecule: Name: Small ribosomal subunit protein uS17 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 11.127002 KDa

Sequence

String:

MADQKGPKYT PAAEKPRGRR KTAIGYVVSD KMQKTIVVEL EDRKSHPLYG KIIRTTKKVK AHDENGEAGI GDRVSLMETR PLSATKRWR LVEILEKAK

UniProtKB: Small ribosomal subunit protein uS17

Macromolecule #17: Small ribosomal subunit protein bS18B

• Macromolecule: Name: Small ribosomal subunit protein bS18B / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 9.524188 KDa

Sequence

String:

MAKSNKRRPA PEKPVKTRKC VFCSKKGQTI DYKDTALLRT YISERGKIRA RRVTGNCVQH QRDIAVAVKN AREVALLPFG SSTR

UniProtKB: Small ribosomal subunit protein bS18B

Macromolecule #18: Small ribosomal subunit protein bS20

• Macromolecule: Name: Small ribosomal subunit protein bS20 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Mycolicibacterium smegmatis (bacteria)
• Molecular weight: Theoretical: 9.556104 KDa

Sequence

String:

MANIKSQIKR IRTNERRRLR NQSVKSSLRT AIRGFREAVD AGDKDKASEL LHATSRKLDK AASKGVIHPN QAANKKSALA LALNKL

UniProtKB: Small ribosomal subunit protein bS20

Macromolecule #19: [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S...

• Macromolecule: Name: [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S})-5-acetamido-6-(hydroxymethyl)-4-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-4-[(2~{S},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-5-methoxy-3,4-bis(oxidanyl)oxan-2-yl]oxy-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-oxan-2-yl]oxy-2-(hydroxymethyl)-6-[[~{N}-[4-[(~{N}-methylcarbamimidoyl)amino]butyl]carbamimidoyl]amino]-5-oxidanyl-oxan-3-yl] carbamate; type: ligand / ID: 19 / Number of copies: 1 / Formula: A1JAI
• Molecular weight: Theoretical: 932.924 Da

Macromolecule #20: MAGNESIUM ION

• Macromolecule: Name: MAGNESIUM ION / type: ligand / ID: 20 / Number of copies: 77 / Formula: MG
• Molecular weight: Theoretical: 24.305 Da

Macromolecule #21: ZINC ION

• Macromolecule: Name: ZINC ION / type: ligand / ID: 21 / Number of copies: 2 / Formula: ZN
• Molecular weight: Theoretical: 65.409 Da

Macromolecule #22: water

• Macromolecule: Name: water / type: ligand / ID: 22 / Number of copies: 3 / Formula: HOH
• Molecular weight: Theoretical: 18.015 Da

Chemical component information

ChemComp-HOH:
WATER

Experimental details

Structure determination

• Method: cryo EM
• Processing: single particle reconstruction
• Aggregation state: particle

Sample preparation

• Buffer: pH: 7.6
• Vitrification: Cryogen name: ETHANE-PROPANE / Chamber humidity: 100 %

Electron microscopy

• Microscope: TFS KRIOS
• Image recording: Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 43.0 e/Ų
• Electron beam: Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
• Electron optics: Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.4000000000000001 µm / Nominal defocus min: 0.3 µm
• Experimental equipment: Model: Titan Krios / Image courtesy: FEI Company

Image processing

• CTF correction: Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
• Startup model: Type of model: INSILICO MODEL; In silico model: Molmap made from PDB: 9N5T using ChimeraX. The model has been previously devoided of any specific features (mRNA and tRNAs) and the resulting map lowpassfiltered and resampled
• Final reconstruction: Resolution.type: BY AUTHOR / Resolution: 3.0 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 5) / Number images used: 68217
• Initial angle assignment: Type: MAXIMUM LIKELIHOOD
• Final angle assignment: Type: MAXIMUM LIKELIHOOD