EMDB-18320: E. coli ApdP-stalled ribosomal complex

Basic information

Entry

Database: EMDB / ID: EMD-18320

• Title: E. coli ApdP-stalled ribosomal complex
• Map data: Postprocessed final map

Sample

• Complex: E. coli ApdP-stalled ribosomal complex
  • RNA: x 6 types
  • Protein or peptide: x 45 types
• Ligand: x 5 types

• Keywords: Stalling / nascent chain / translation arrest / regulation / RIBOSOME

Function / homology

Function:

ornithine decarboxylase inhibitor activity / transcriptional attenuation / positive regulation of ribosome biogenesis / endoribonuclease inhibitor activity / RNA-binding transcription regulator activity / negative regulation of cytoplasmic translation / DnaA-L2 complex / translation repressor activity / regulation of mRNA stability / negative regulation of DNA-templated DNA replication initiation / mRNA regulatory element binding translation repressor activity / assembly of large subunit precursor of preribosome / ribosome assembly / cytosolic ribosome assembly / response to reactive oxygen species / regulation of cell growth / DNA-templated transcription termination / response to radiation / maintenance of translational fidelity / mRNA 5'-UTR binding / regulation of translation / large ribosomal subunit / transferase activity / ribosome binding / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / ribosomal large subunit assembly / cytosolic small ribosomal subunit / large ribosomal subunit rRNA binding / small ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation / tRNA binding / negative regulation of translation / rRNA binding / ribosome / structural constituent of ribosome / translation / response to antibiotic / negative regulation of DNA-templated transcription / mRNA binding / DNA binding / RNA binding / zinc ion binding / membrane / cytosol / cytoplasm

Domain/homology:

Ribosomal protein S21, conserved site / Ribosomal protein S21 signature. / Ribosomal protein L25, short-form / Ribosomal protein S14, bacterial/plastid / Ribosomal protein S21 superfamily / Ribosomal protein S21 / Ribosomal protein S21 / : / Ribosomal protein L16 signature 1. / Ribosomal protein L21, conserved site / Ribosomal protein L21 signature. / Ribosomal protein L16 signature 2. / Ribosomal protein L16, conserved site / Ribosomal protein L6, conserved site / Ribosomal protein L6 signature 1. / : / Ribosomal protein L9 signature. / Ribosomal protein L9, bacteria/chloroplast / Ribosomal protein L9, C-terminal / Ribosomal protein L9, C-terminal domain / Ribosomal protein L9, C-terminal domain superfamily / Ribosomal protein L17 signature. / Ribosomal L25p family / Ribosomal protein L25 / Ribosomal protein L36 signature. / Ribosomal protein L32p, bacterial type / Ribosomal protein L28/L24 superfamily / Ribosomal protein L25/Gln-tRNA synthetase, N-terminal / Ribosomal protein L25/Gln-tRNA synthetase, anti-codon-binding domain superfamily / Ribosomal protein L9, N-terminal domain superfamily / Ribosomal protein L9 / Ribosomal protein L9, N-terminal / Ribosomal protein L9, N-terminal domain / Ribosomal protein L33, conserved site / Ribosomal protein L33 signature. / Ribosomal protein L35, conserved site / Ribosomal protein L35 signature. / Ribosomal protein L28 / Ribosomal protein L35, non-mitochondrial / : / Ribosomal protein L5, bacterial-type / Ribosomal protein L18, bacterial-type / : / Ribosomal protein S19, bacterial-type / Ribosomal protein L6, bacterial-type / Ribosomal protein S13, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein L9/RNase H1, N-terminal / Ribosomal protein S9, bacterial/plastid / Ribosomal protein S20 / Ribosomal protein S20 superfamily / Ribosomal protein S20 / Ribosomal protein L36 / Ribosomal protein L36 superfamily / Ribosomal protein L36 / 30S ribosomal protein S17 / Ribosomal protein S5, bacterial-type / Ribosomal protein L19, conserved site / Ribosomal protein L19 signature. / Ribosomal protein L27, conserved site / Ribosomal protein L27 signature. / Ribosomal protein L20 signature. / Ribosomal protein L22, bacterial/chloroplast-type / Ribosomal protein L14P, bacterial-type / Ribosomal protein L34, conserved site / Ribosomal protein L34 signature. / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein L2, bacterial/organellar-type / Ribosomal protein L35 / Ribosomal protein L35 superfamily / Ribosomal protein L35 / Ribosomal protein L33 / Ribosomal protein L33 / Ribosomal L28 family / Ribosomal protein L33 superfamily / Ribosomal protein L16 / Ribosomal protein S18, conserved site / Ribosomal protein S18 signature. / Ribosomal protein L28/L24 / Ribosomal protein L18 / Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast / Ribosomal protein S6, plastid/chloroplast / Ribosomal protein L30, bacterial-type / : / L28p-like / Ribosomal protein S15, bacterial-type / Ribosomal protein L27 / Ribosomal L27 protein / Ribosomal protein S12, bacterial-type / Ribosomal protein L20 / Ribosomal L32p protein family / Ribosomal protein L19 / Ribosomal protein L19 / Ribosomal protein L20 / Ribosomal protein L20, C-terminal / Ribosomal protein L19 superfamily / Ribosomal protein L21 / Ribosomal protein L32p

Component:

Large ribosomal subunit protein uL16 / Small ribosomal subunit protein uS12 / Large ribosomal subunit protein uL3 / : / Small ribosomal subunit protein bS6 / Small ribosomal subunit protein uS7 / Large ribosomal subunit protein uL15 / Large ribosomal subunit protein bL19 / Large ribosomal subunit protein bL20 / Large ribosomal subunit protein bL27 / Large ribosomal subunit protein bL28 / Large ribosomal subunit protein uL29 / Large ribosomal subunit protein bL32 / Large ribosomal subunit protein bL33 / Large ribosomal subunit protein bL34 / Large ribosomal subunit protein bL35 / Large ribosomal subunit protein bL36A / Large ribosomal subunit protein bL9 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein bS18 / Small ribosomal subunit protein uS19 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS2 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS9 / Large ribosomal subunit protein uL13 / Large ribosomal subunit protein uL14 / Large ribosomal subunit protein uL23 / Small ribosomal subunit protein uS15 / Large ribosomal subunit protein bL17 / Large ribosomal subunit protein bL21 / Large ribosomal subunit protein uL30 / Large ribosomal subunit protein uL6 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS17 / Large ribosomal subunit protein uL18 / Large ribosomal subunit protein uL2 / Large ribosomal subunit protein uL24 / Large ribosomal subunit protein uL4 / Large ribosomal subunit protein uL22 / Large ribosomal subunit protein uL5 / Small ribosomal subunit protein bS21 / Large ribosomal subunit protein bL25

• Biological species: Sinorhizobium medicae (bacteria) / Escherichia coli BW25113 (bacteria)
• Method: single particle reconstruction / cryo EM / Resolution: 2.2 Å
• Authors: Morici M / Wilson DN

Funding support

Germany, 1 items

Organization	Grant number	Country
German Research Foundation (DFG)		Germany

• Citation: Journal: Nat Commun / Year: 2024; Title: RAPP-containing arrest peptides induce translational stalling by short circuiting the ribosomal peptidyltransferase activity.; Authors: Martino Morici / Sara Gabrielli / Keigo Fujiwara / Helge Paternoga / Bertrand Beckert / Lars V Bock / Shinobu Chiba / Daniel N Wilson / ; Abstract: Arrest peptides containing RAPP (ArgAlaProPro) motifs have been discovered in both Gram-positive and Gram-negative bacteria, where they are thought to regulate expression of important protein localization machinery components. Here we determine cryo-EM structures of ribosomes stalled on RAPP arrest motifs in both Bacillus subtilis and Escherichia coli. Together with molecular dynamics simulations, our structures reveal that the RAPP motifs allow full accommodation of the A-site tRNA, but prevent the subsequent peptide bond from forming. Our data support a model where the RAP in the P-site interacts and stabilizes a single hydrogen atom on the Pro-tRNA in the A-site, thereby preventing an optimal geometry for the nucleophilic attack required for peptide bond formation to occur. This mechanism to short circuit the ribosomal peptidyltransferase activity is likely to operate for the majority of other RAPP-like arrest peptides found across diverse bacterial phylogenies.

History

Deposition	Aug 25, 2023	-
Header (metadata) release	Mar 20, 2024	-
Map release	Mar 20, 2024	-
Update	Mar 12, 2025	-
Current status	Mar 12, 2025	Processing site: PDBe / Status: Released

Map

• File: Download / File: emd_18320.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
• Annotation: Postprocessed final map
• Voxel size: X=Y=Z: 0.82 Å

Density

Contour Level	By AUTHOR: 0.04
Minimum - Maximum	-0.1871316 - 0.4182309
Average (Standard dev.)	0.0013392053 (±0.0146200005)

• Symmetry: Space group: 1

Details

EMDB XML:

Map geometry	Axis order X Y Z Origin 0 0 0 Dimensions 360 360 360 Spacing 360 360 360
Cell	A=B=C: 295.2 Å α=β=γ: 90.0 °

Supplemental data

Additional map: Preprocessed map

• File: emd_18320_additional_1.map
• Annotation: Preprocessed map

Additional map: Filtered 3D map on the base of local...

• File: emd_18320_additional_2.map
• Annotation: Filtered 3D map on the base of local resolution as calculated by Bsoft

Half map: Half-map 1

• File: emd_18320_half_map_1.map
• Annotation: Half-map 1

Half map: Half-map 2

• File: emd_18320_half_map_2.map
• Annotation: Half-map 2

Sample components

Entire : E. coli ApdP-stalled ribosomal complex

• Entire: Name: E. coli ApdP-stalled ribosomal complex

Components

• Complex: E. coli ApdP-stalled ribosomal complex
  • RNA: 23S rRNA
  • RNA: 5S rRNA
  • Protein or peptide: Large ribosomal subunit protein uL2
  • Protein or peptide: 50S ribosomal protein L3
  • Protein or peptide: Large ribosomal subunit protein uL4
  • Protein or peptide: Large ribosomal subunit protein uL5
  • Protein or peptide: Large ribosomal subunit protein uL6
  • Protein or peptide: Large ribosomal subunit protein bL9
  • Protein or peptide: Large ribosomal subunit protein uL13
  • Protein or peptide: Large ribosomal subunit protein uL14
  • Protein or peptide: 50S ribosomal protein L15
  • Protein or peptide: 50S ribosomal protein L16
  • Protein or peptide: Large ribosomal subunit protein bL17
  • Protein or peptide: Large ribosomal subunit protein uL18
  • Protein or peptide: Large ribosomal subunit protein bL19
  • Protein or peptide: Large ribosomal subunit protein bL20
  • Protein or peptide: Large ribosomal subunit protein bL21
  • Protein or peptide: Large ribosomal subunit protein uL22
  • Protein or peptide: Large ribosomal subunit protein uL23
  • Protein or peptide: Large ribosomal subunit protein uL24
  • Protein or peptide: 50S ribosomal protein L25
  • Protein or peptide: Large ribosomal subunit protein bL27
  • Protein or peptide: Large ribosomal subunit protein bL28
  • Protein or peptide: Large ribosomal subunit protein uL29
  • Protein or peptide: Large ribosomal subunit protein uL30
  • Protein or peptide: Large ribosomal subunit protein bL32
  • Protein or peptide: Large ribosomal subunit protein bL33
  • Protein or peptide: Large ribosomal subunit protein bL34
  • Protein or peptide: Large ribosomal subunit protein bL35
  • RNA: 16S rRNA
  • Protein or peptide: 30S ribosomal protein S2
  • Protein or peptide: Small ribosomal subunit protein uS5
  • Protein or peptide: 30S ribosomal protein S6, fully modified isoform
  • Protein or peptide: 30S ribosomal protein S7
  • Protein or peptide: Small ribosomal subunit protein uS8
  • Protein or peptide: Small ribosomal subunit protein uS9
  • Protein or peptide: 30S ribosomal protein S11
  • Protein or peptide: 30S ribosomal protein S12
  • Protein or peptide: Small ribosomal subunit protein uS13
  • Protein or peptide: Small ribosomal subunit protein uS14
  • Protein or peptide: Small ribosomal subunit protein uS15
  • Protein or peptide: Small ribosomal subunit protein uS17
  • Protein or peptide: Small ribosomal subunit protein bS18
  • Protein or peptide: Small ribosomal subunit protein uS19
  • Protein or peptide: 30S ribosomal protein S20
  • Protein or peptide: Small ribosomal subunit protein bS21
  • RNA: mRNA
  • RNA: Pro-tRNA
  • RNA: Ala-tRNA
  • Protein or peptide: Large ribosomal subunit protein bL36A
  • Protein or peptide: ApdP nascent chain
• Ligand: MAGNESIUM ION
• Ligand: POTASSIUM ION
• Ligand: PROLINE
• Ligand: ZINC ION
• Ligand: water

Supramolecule #1: E. coli ApdP-stalled ribosomal complex

• Supramolecule: Name: E. coli ApdP-stalled ribosomal complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#51
• Source (natural): Organism: Sinorhizobium medicae (bacteria)

Macromolecule #1: 23S rRNA

• Macromolecule: Name: 23S rRNA / type: rna / ID: 1 / Number of copies: 1
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 941.320188 KDa

Sequence

String:

GGUUAAGCGA CUAAGCGUAC ACGGUGGAUG CCCUGGCAGU CAGAGGCGAU GAAGGACGUG CUAAUCUGCG AUAAGCGUCG GUAAGGUGA UAUGAACCGU UAUAACCGGC GAUUUCCGAA UGGGGAAACC CAGUGUGUUU CGACACACUA UCAUUAACUG A AUCCAUAG GUUAAUGAGG CGAACCGGGG GAACUGAAAC AUCUAAGUAC CCCGAGGAAA AGAAAUCAAC CGAGAUUCCC CC AGUAGCG GCGAGCGAAC GGGGAGCAGC CCAGAGCCUG AAUCAGUGUG UGUGUUAGUG GAAGCGUCUG GAAAGGCGCG CGA UACAGG GUGACAGCCC CGUACACAAA AAUGCACAUG CUGUGAGCUC GAUGAGUAGG GCGGGACACG UGGUAUCCUG UCUG AAUAU GGGGGGACCA UCCUCCAAGG CUAAAUACUC CUGACUGACC GAUAGUGAAC CAGUACCGUG AGGGAAAGGC GAAAA GAAC CCCGGCGAGG GGAGUGAAAA AGAACCUGAA ACCGUGUACG UACAAGCAGU GGGAGCACGC UUAGGCGUGU GACUGC GUA CCUUUUGUAU AAUGGGUCAG CGACUUAUAU UCUGUAGCAA GGUUAACCGA AUAGGGGAGC CGAAGGGAAA CCGAGUC UU AACUGGGCGU UAAGUUGCAG GGUAUAGACC CGAAACCCGG UGAUCUAGCC AUGGGCAGGU UGAAGGUUGG GUAACACU A ACUGGAGGAC CGAACCGACU AAUG(PSU)UGAAA AAUUAGCGGA UGACUUGUGG CUGGGGGUGA AAGGCCAAUC AAACC GGGA GAUAGCUGGU UCUCCCCGAA AGCUAUUUAG GUAGCGCCUC GUGAAUUCAU CUCCGGGGGU AGAGCACUGU UUCGGC AAG GGGGUCAUCC CGACUUACCA ACCCGAUGCA AACUGCGAAU ACCGGAGAAU GUUAUCACGG GAGACACACG GCGGGUG CU AACGUCCGUC GUGAAGAGGG AAACAACCCA GACCGCCAGC UAAGGUCCCA AAGUCAUGGU UAAGUGGGAA ACGAUGUG G GAAGGCCCAG ACAGCCAGGA UGUUGGCUUA GAAGCAGCCA UCAUUUAAAG AAAGCGUAAU AGCUCACUGG UCGAGUCGG CCUGCGCGGA AGAUGUAACG GGGCUAAACC AUGCACCGAA GCUGCGGCAG CGACGCUUAU GCGUUGUUGG GUAGGGGAGC GUUCUGUAA GCCUGCGAAG GUGUGCUGUG AGGCAUGCUG GAGGUAUCAG AAGUGCGAAU GCUGACAUAA GUAACGAUAA A GCGGGUGA AAAGCCCGCU CGCCGGAAGA CCAAGGGUUC CUGUCCAACG UUAAUCGGGG CAGGGUGAGU CGACCCCUAA GG CGAGGCC GAAAGGCGUA GUCGAUGGGA AACAGGUUAA UAUUCCUGUA CUUGGUGUUA CUGCGAAGGG GGGACGGAGA AGG CUAUGU UGGCCGGGCG ACGGUUGUCC CGGUUUAAGC GUGUAGGCUG GUUUUCCAGG CAAAUCCGGA AAAUCAAGGC UGAG GCGUG AUGACGAGGC ACUACGGUGC UGAAGCAACA AAUGCCCUGC UUCCAGGAAA AGCCUCUAAG CAUCAGGUAA CAUCA AAUC GUACCCCAAA CCGACACAGG UGGUCAGGUA GAGAAUACCA AGGCGCUUGA GAGAACUCGG GUGAAGGAAC UAGGCA AAA UGGUGCCGUA ACUUCGGGAG AAGGCACGCU GAUAUGUAGG UGAGGUCCCU CGCGGAUGGA GCUGAAAUCA GUCGAAG AU ACCAGCUGGC UGCAACUGUU UAUUAAAAAC ACAGCACUGU GCAAACACGA AAGUGGACGU AUACGGUGUG ACGCCUGC C CGGUGCCGGA AGGUUAAUUG AUGGGGUUAG CGCAAGCGAA GCUCUUGAUC GAAGCCCCGG UAAACGGCGG CCGUAACUA UAACGGUCCU AAGGUAGCGA AAUUCCUUGU CGGGUAAGUU CCGACCUGCA CGAAUGGCGU AAUGAUGGCC AGGCUGUCUC CACCCGAGA CUCAGUGAAA UUGAACUCGC UGUGAAGAUG CAGUGUACCC GCGGCAAGAC GGAAAGACCC CGUGAACCUU U ACUAUAGC UUGACACUGA ACAUUGAGCC UUGAUGUGUA GGAUAGGUGG GAGGCUUUGA AGUGUGGACG CCAGUCUGCA UG GAGCCGA CCUUGAAAUA CCACCCUUUA AUGUUUGAUG UUCUAACGUU GACCCCUAAU CGGGGUUGCG GACAGUGUCU GGU GGGUAG UUUGACUGGG GCGGUCUCCU CCUAAAGAGU AACGGAGGAG CACGAAGGUU GGCUAAUCCU GGUCGGACAU CAGG AGGUU AGUGCAAUGG CAUAAGCCAG CUUGACUGCG AGCGUGACGG CGCGAGCAGG UGCGAAAGCA GGUCAUAGUG AUCCG GUGG UUCUGAAUGG AAGGGCCAUC GCUCAACGGA UAAAAGGUAC UCCGGGGAUA ACAGGCUGAU ACCGCCCAAG AGUUCA UAU CGACGGCGGU GUUUGGCACC UCG(2MA)(PSU)GUCGG CUCAUCACAU CCUGGGGCUG AAGUAGGUCC CAAGGGUAU GGCUGUUCGC CAUUUAAAGU GGUACGCGAG CUGGGUUUAG AACGUCGUGA GACAGUUCGG UCCCUAUCUG CCGUGGGCGC UGGAGAACU GAGGGGGGCU GCUCCUAGUA CGAGAGGACC GGAGUGGACG CAUCACUGGU GUUCGGGUUG UCAUGCCAAU G GCACUGCC CGGUAGCUAA AUGCGGAAGA GAUAAGUGCU GAAAGCAUCU AAGCACGAAA CUUGCCCCGA GAUGAGUUCU CC CUGACCC UUUAAGGGUC CUGAAGGAAC GUUGAAGACG ACGACGUUGA UAGGCCGGGU GUGUAAGCGC AGCGAUGCGU UGA GCUAAC CGGUACUAAU GAACCGUGAG GCUUAACCU

GENBANK: GENBANK: CP014270.1

Macromolecule #2: 5S rRNA

• Macromolecule: Name: 5S rRNA / type: rna / ID: 2 / Number of copies: 1
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 38.79009 KDa

Sequence

String:

UGCCUGGCGG CCGUAGCGCG GUGGUCCCAC CUGACCCCAU GCCGAACUCA GAAGUGAAAC GCCGUAGCGC CGAUGGUAGU GUGGGGUCU CCCCAUGCGA GAGUAGGGAA CUGCCAGGCA U

GENBANK: GENBANK: CP053605.1

Macromolecule #30: 16S rRNA

• Macromolecule: Name: 16S rRNA / type: rna / ID: 30 / Number of copies: 1
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 499.054625 KDa

Sequence

String:

AAAUUGAAGA GUUUGAUCAU GGCUCAGAUU GAACGCUGGC GGCAGGCCUA ACACAUGCAA GUCGAACGGU AACAGGAAGA AGCUUGCUU CUUUGCUGAC GAGUGGCGGA CGGGUGAGUA AUGUCUGGGA AACUGCCUGA UGGAGGGGGA UAACUACUGG A AACGGUAG CUAAUACCGC AUAACGUCGC AAGACCAAAG AGGGGGACCU UCGGGCCUCU UGCCAUCGGA UGUGCCCAGA UG GGAUUAG CUAGUAGGUG GGGUAACGGC UCACCUAGGC GACGAUCCCU AGCUGGUCUG AGAGGAUGAC CAGCCACACU GGA ACUGAG ACACGGUCCA GACUCCUACG GGAGGCAGCA GUGGGGAAUA UUGCACAAUG GGCGCAAGCC UGAUGCAGCC AUGC CGCGU GUAUGAAGAA GGCCUUCGGG UUGUAAAGUA CUUUCAGCGG GGAGGAAGGG AGUAAAGUUA AUACCUUUGC UCAUU GACG UUACCCGCAG AAGAAGCACC GGCUAACUCC GUGCCAGCAG CCGCGGUAAU ACGGAGGGUG CAAGCGUUAA UCGGAA UUA CUGGGCGUAA AGCGCACGCA GGCGGUUUGU UAAGUCAGAU GUGAAAUCCC CGGGCUCAAC CUGGGAACUG CAUCUGA UA CUGGCAAGCU UGAGUCUCGU AGAGGGGGGU AGAAUUCCAG GUGUAGCGGU GAAAUGCGUA GAGAUCUGGA GGAAUACC G GUGGCGAAGG CGGCCCCCUG GACGAAGACU GACGCUCAGG UGCGAAAGCG UGGGGAGCAA ACAGGAUUAG AUACCCUGG UAGUCCACGC CGUAAACGAU GUCGACUUGG AGGUUGUGCC CUUGAGGCGU GGCUUCCGGA GCUAACGCGU UAAGUCGACC GCCUGGGGA GUACGGCCGC AAGGUUAAAA CUCAAAUGAA UUGACGGGGG CCCGCACAAG CGGUGGAGCA UGUGGUUUAA U UCGAUGCA ACGCGAAGAA CCUUACCUGG UCUUGACAUC CACGGAAGUU UUCAGAGAUG AGAAUGUGCC UUCGGGAACC GU GAGACAG GUGCUGCAUG GCUGUCGUCA GCUCGUGUUG UGAAAUGUUG GGUUAAGUCC CGCAACGAGC GCAACCCUUA UCC UUUGUU GCCAGCGGUC CGGCCGGGAA CUCAAAGGAG ACUGCCAGUG AUAAACUGGA GGAAGGUGGG GAUGACGUCA AGUC AUCAU GGCCCUUACG ACCAGGGCUA CACACGUGCU ACAAUGGCGC AUACAAAGAG AAGCGACCUC GCGAGAGCAA GCGGA CCUC AUAAAGUGCG UCGUAGUCCG GAUUGGAGUC UGCAACUCGA CUCCAUGAAG UCGGAAUCGC UAGUAAUCGU GGAUCA GAA UGCCACGGUG AAUACGUUCC CGGGCCUUGU ACACACCGCC CGUCACACCA UGGGAGUGGG UUGCAAAAGA AGUAGGU AG CUUAACCUUC GGGAGGGCGC UUACCACUUU GUGAUUCAUG ACUGGGGUGA AGUCGUAACA AGGUAACCGU AGGGGAAC C UGCGGUUGGA UCACCUCCU

GENBANK: GENBANK: CP047127.1

Macromolecule #47: mRNA

• Macromolecule: Name: mRNA / type: rna / ID: 47 / Number of copies: 1
• Source (natural): Organism: Sinorhizobium medicae (bacteria)
• Molecular weight: Theoretical: 3.190981 KDa

Sequence

String:

GCGCCGCCAG

Macromolecule #48: Pro-tRNA

• Macromolecule: Name: Pro-tRNA / type: rna / ID: 48 / Number of copies: 2
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 24.862746 KDa

Sequence

String:

CGGCGAGUAG CGCAGCUUGG UAGCGCAACU GGUUUGGGAC CAGUGGGUCG GAGGUUCGAA UCCUCUCUCG CCGACCA

GENBANK: GENBANK: CP042878.1

Macromolecule #49: Ala-tRNA

• Macromolecule: Name: Ala-tRNA / type: rna / ID: 49 / Number of copies: 1
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 24.476531 KDa

Sequence

String:

GGGGCUAUAG CUCAGCUGGG AGAGCGCCUG CUUUGCACGC AGGAGGUCUG CGGUUCGAUC CCGCAUAGCU CCACCA

GENBANK: GENBANK: CP053787.1

Macromolecule #3: Large ribosomal subunit protein uL2

• Macromolecule: Name: Large ribosomal subunit protein uL2 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 29.923619 KDa

Sequence

String:

MAVVKCKPTS PGRRHVVKVV NPELHKGKPF APLLEKNSKS GGRNNNGRIT TRHIGGGHKQ AYRIVDFKRN KDGIPAVVER LEYDPNRSA NIALVLYKDG ERRYILAPKG LKAGDQIQSG VDAAIKPGNT LPMRNIPVGS TVHNVEMKPG KGGQLARSAG T YVQIVARD GAYVTLRLRS GEMRKVEADC RATLGEVGNA EHMLRVLGKA GAARWRGVRP TVRGTAMNPV DHPHGGGEGR NF GKHPVTP WGVQTKGKKT RSNKRTDKFI VRRRSK

UniProtKB: Large ribosomal subunit protein uL2

Macromolecule #4: 50S ribosomal protein L3

• Macromolecule: Name: 50S ribosomal protein L3 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 22.277535 KDa

Sequence

String:

MIGLVGKKVG MTRIFTEDGV SIPVTVIEVE ANRVTQVKDL ANDGYRAIQV TTGAKKANRV TKPEAGHFAK AGVEAGRGLW EFRLAEGEE FTVGQSISVE LFADVKKVDV TGTSKGKGFA GTVKRWNFRT QDATHGNSLS HRVPGSIGQN QTPGKVFKGK K MAGQMGNE RVTVQSLDVV RVDAERNLLL VKGAVPGATG SDLIVKPAVK A

UniProtKB: Large ribosomal subunit protein uL3

Macromolecule #5: Large ribosomal subunit protein uL4

• Macromolecule: Name: Large ribosomal subunit protein uL4 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 22.121566 KDa

Sequence

String:

MELVLKDAQS ALTVSETTFG RDFNEALVHQ VVVAYAAGAR QGTRAQKTRA EVTGSGKKPW RQKGTGRARS GSIKSPIWRS GGVTFAARP QDHSQKVNKK MYRGALKSIL SELVRQDRLI VVEKFSVEAP KTKLLAQKLK DMALEDVLII TGELDENLFL A ARNLHKVD VRDATGIDPV SLIAFDKVVM TADAVKQVEE MLA

UniProtKB: Large ribosomal subunit protein uL4

Macromolecule #6: Large ribosomal subunit protein uL5

• Macromolecule: Name: Large ribosomal subunit protein uL5 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 20.333611 KDa

Sequence

String:

MAKLHDYYKD EVVKKLMTEF NYNSVMQVPR VEKITLNMGV GEAIADKKLL DNAAADLAAI SGQKPLITKA RKSVAGFKIR QGYPIGCKV TLRGERMWEF FERLITIAVP RIRDFRGLSA KSFDGRGNYS MGVREQIIFP EIDYDKVDRV RGLDITITTT A KSDEEGRA LLAAFDFPFR K

UniProtKB: Large ribosomal subunit protein uL5

Macromolecule #7: Large ribosomal subunit protein uL6

• Macromolecule: Name: Large ribosomal subunit protein uL6 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 18.932791 KDa

Sequence

String:

MSRVAKAPVV VPAGVDVKIN GQVITIKGKN GELTRTLNDA VEVKHADNTL TFGPRDGYAD GWAQAGTARA LLNSMVIGVT EGFTKKLQL VGVGYRAAVK GNVINLSLGF SHPVDHQLPA GITAECPTQT EIVLKGADKQ VIGQVAADLR AYRRPEPYKG K GVRYADEV VRTKEAKKK

UniProtKB: Large ribosomal subunit protein uL6

Macromolecule #8: Large ribosomal subunit protein bL9

• Macromolecule: Name: Large ribosomal subunit protein bL9 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 15.78902 KDa

Sequence

String:

MQVILLDKVA NLGSLGDQVN VKAGYARNFL VPQGKAVPAT KKNIEFFEAR RAELEAKLAE VLAAANARAE KINALETVTI ASKAGDEGK LFGSIGTRDI ADAVTAAGVE VAKSEVRLPN GVLRTTGEHE VSFQVHSEVF AKVIVNVVAE

UniProtKB: Large ribosomal subunit protein bL9

Macromolecule #9: Large ribosomal subunit protein uL13

• Macromolecule: Name: Large ribosomal subunit protein uL13 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 16.050606 KDa

Sequence

String:

MKTFTAKPET VKRDWYVVDA TGKTLGRLAT ELARRLRGKH KAEYTPHVDT GDYIIVLNAD KVAVTGNKRT DKVYYHHTGH IGGIKQATF EEMIARRPER VIEIAVKGML PKGPLGRAMF RKLKVYAGNE HNHAAQQPQV LDI

UniProtKB: Large ribosomal subunit protein uL13

Macromolecule #10: Large ribosomal subunit protein uL14

• Macromolecule: Name: Large ribosomal subunit protein uL14 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 13.565067 KDa

Sequence

String:

MIQEQTMLNV ADNSGARRVM CIKVLGGSHR RYAGVGDIIK ITIKEAIPRG KVKKGDVLKA VVVRTKKGVR RPDGSVIRFD GNACVLLNN NSEQPIGTRI FGPVTRELRS EKFMKIISLA PEVL

UniProtKB: Large ribosomal subunit protein uL14

Macromolecule #11: 50S ribosomal protein L15

• Macromolecule: Name: 50S ribosomal protein L15 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 15.008471 KDa

Sequence

String:

MRLNTLSPAE GSKKAGKRLG RGIGSGLGKT GGRGHKGQKS RSGGGVRRGF EGGQMPLYRR LPKFGFTSRK AAITAEIRLS DLAKVEGGV VDLNTLKAAN IIGIQIEFAK VILAGEVTTP VTVRGLRVTK GARAAIEAAG GKIEE

UniProtKB: Large ribosomal subunit protein uL15

Macromolecule #12: 50S ribosomal protein L16

• Macromolecule: Name: 50S ribosomal protein L16 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 15.312269 KDa

Sequence

String:

MLQPKRTKFR KMHKGRNRGL AQGTDVSFGS FGLKAVGRGR LTARQIEAAR RAMTRAVKRQ GKIWIRVFPD KPITEKPLAV RMGKGKGNV EYWVALIQPG KVLYEMDGVP EELAREAFKL AAAKLPIKTT FVTKTVM

UniProtKB: Large ribosomal subunit protein uL16

Macromolecule #13: Large ribosomal subunit protein bL17

• Macromolecule: Name: Large ribosomal subunit protein bL17 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 14.393657 KDa

Sequence

String:

MRHRKSGRQL NRNSSHRQAM FRNMAGSLVR HEIIKTTLPK AKELRRVVEP LITLAKTDSV ANRRLAFART RDNEIVAKLF NELGPRFAS RAGGYTRILK CGFRAGDNAP MAYIELVDRS EKAEAAAE

UniProtKB: Large ribosomal subunit protein bL17

Macromolecule #14: Large ribosomal subunit protein uL18

• Macromolecule: Name: Large ribosomal subunit protein uL18 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 12.794668 KDa

Sequence

String:

MDKKSARIRR ATRARRKLQE LGATRLVVHR TPRHIYAQVI APNGSEVLVA ASTVEKAIAE QLKYTGNKDA AAAVGKAVAE RALEKGIKD VSFDRSGFQY HGRVQALADA AREAGLQF

UniProtKB: Large ribosomal subunit protein uL18

Macromolecule #15: Large ribosomal subunit protein bL19

• Macromolecule: Name: Large ribosomal subunit protein bL19 / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 13.159278 KDa

Sequence

String:

MSNIIKQLEQ EQMKQDVPSF RPGDTVEVKV WVVEGSKKRL QAFEGVVIAI RNRGLHSAFT VRKISNGEGV ERVFQTHSPV VDSISVKRR GAVRKAKLYY LRERTGKAAR IKERLN

UniProtKB: Large ribosomal subunit protein bL19

Macromolecule #16: Large ribosomal subunit protein bL20

• Macromolecule: Name: Large ribosomal subunit protein bL20 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 13.528024 KDa

Sequence

String:

MARVKRGVIA RARHKKILKQ AKGYYGARSR VYRVAFQAVI KAGQYAYRDR RQRKRQFRQL WIARINAAAR QNGISYSKFI NGLKKASVE IDRKILADIA VFDKVAFTAL VEKAKAALA

UniProtKB: Large ribosomal subunit protein bL20

Macromolecule #17: Large ribosomal subunit protein bL21

• Macromolecule: Name: Large ribosomal subunit protein bL21 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 11.586374 KDa

Sequence

String:

MYAVFQSGGK QHRVSEGQTV RLEKLDIATG ETVEFAEVLM IANGEEVKIG VPFVDGGVIK AEVVAHGRGE KVKIVKFRRR KHYRKQQGH RQWFTDVKIT GISA

UniProtKB: Large ribosomal subunit protein bL21

Macromolecule #18: Large ribosomal subunit protein uL22

• Macromolecule: Name: Large ribosomal subunit protein uL22 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 12.253359 KDa

Sequence

String:

METIAKHRHA RSSAQKVRLV ADLIRGKKVS QALDILTYTN KKAAVLVKKV LESAIANAEH NDGADIDDLK VTKIFVDEGP SMKRIMPRA KGRADRILKR TSHITVVVSD R

UniProtKB: Large ribosomal subunit protein uL22

Macromolecule #19: Large ribosomal subunit protein uL23

• Macromolecule: Name: Large ribosomal subunit protein uL23 / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 11.22216 KDa

Sequence

String:

MIREERLLKV LRAPHVSEKA STAMEKSNTI VLKVAKDATK AEIKAAVQKL FEVEVEVVNT LVVKGKVKRH GQRIGRRSDW KKAYVTLKE GQNLDFVGGA E

UniProtKB: Large ribosomal subunit protein uL23

Macromolecule #20: Large ribosomal subunit protein uL24

• Macromolecule: Name: Large ribosomal subunit protein uL24 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 11.33925 KDa

Sequence

String:

MAAKIRRDDE VIVLTGKDKG KRGKVKNVLS SGKVIVEGIN LVKKHQKPVP ALNQPGGIVE KEAAIQVSNV AIFNAATGKA DRVGFRFED GKKVRFFKSN SETIK

UniProtKB: Large ribosomal subunit protein uL24

Macromolecule #21: 50S ribosomal protein L25

• Macromolecule: Name: 50S ribosomal protein L25 / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 10.713465 KDa

Sequence

String:

MFTINAEVRK EQGKGASRRL RAANKFPAII YGGKEAPLAI ELDHDKVMNM QAKAEFYSEV LTIVVDGKEI KVKAQDVQRH PYKPKLQHI DFVRA

UniProtKB: Large ribosomal subunit protein bL25

Macromolecule #22: Large ribosomal subunit protein bL27

• Macromolecule: Name: Large ribosomal subunit protein bL27 / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 9.14654 KDa

Sequence

String:

MAHKKAGGST RNGRDSEAKR LGVKRFGGES VLAGSIIVRQ RGTKFHAGAN VGCGRDHTLF AKADGKVKFE VKGPKNRKFI SIEAE

UniProtKB: Large ribosomal subunit protein bL27

Macromolecule #23: Large ribosomal subunit protein bL28

• Macromolecule: Name: Large ribosomal subunit protein bL28 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 9.027551 KDa

Sequence

String:

MSRVCQVTGK RPVTGNNRSH ALNATKRRFL PNLHSHRFWV ESEKRFVTLR VSAKGMRVID KKGIDTVLAE LRARGEKY

UniProtKB: Large ribosomal subunit protein bL28

Macromolecule #24: Large ribosomal subunit protein uL29

• Macromolecule: Name: Large ribosomal subunit protein uL29 / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 7.286464 KDa

Sequence

String:

MKAKELREKS VEELNTELLN LLREQFNLRM QAASGQLQQS HLLKQVRRDV ARVKTLLNEK AGA

UniProtKB: Large ribosomal subunit protein uL29

Macromolecule #25: Large ribosomal subunit protein uL30

• Macromolecule: Name: Large ribosomal subunit protein uL30 / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 6.55482 KDa

Sequence

String:

MAKTIKITQT RSAIGRLPKH KATLLGLGLR RIGHTVERED TPAIRGMINA VSFMVKVEE

UniProtKB: Large ribosomal subunit protein uL30

Macromolecule #26: Large ribosomal subunit protein bL32

• Macromolecule: Name: Large ribosomal subunit protein bL32 / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 6.463445 KDa

Sequence

String:

MAVQQNKPTR SKRGMRRSHD ALTAVTSLSV DKTSGEKHLR HHITADGYYR GRKVIAK

UniProtKB: Large ribosomal subunit protein bL32

Macromolecule #27: Large ribosomal subunit protein bL33

• Macromolecule: Name: Large ribosomal subunit protein bL33 / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 6.388631 KDa

Sequence

String:

MAKGIREKIK LVSSAGTGHF YTTTKNKRTK PEKLELKKFD PVVRQHVIYK EAKIK

UniProtKB: Large ribosomal subunit protein bL33

Macromolecule #28: Large ribosomal subunit protein bL34

• Macromolecule: Name: Large ribosomal subunit protein bL34 / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 5.397463 KDa

Sequence

String:

MKRTFQPSVL KRNRSHGFRA RMATKNGRQV LARRRAKGRA RLTVSK

UniProtKB: Large ribosomal subunit protein bL34

Macromolecule #29: Large ribosomal subunit protein bL35

• Macromolecule: Name: Large ribosomal subunit protein bL35 / type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 7.313032 KDa

Sequence

String:

MPKIKTVRGA AKRFKKTGKG GFKHKHANLR HILTKKATKR KRHLRPKAMV SKGDLGLVIA CLPYA

UniProtKB: Large ribosomal subunit protein bL35

Macromolecule #31: 30S ribosomal protein S2

• Macromolecule: Name: 30S ribosomal protein S2 / type: protein_or_peptide / ID: 31 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 26.78167 KDa

Sequence

String:

MATVSMRDML KAGVHFGHQT RYWNPKMKPF IFGARNKVHI INLEKTVPMF NEALAELNKI ASRKGKILFV GTKRAASEAV KDAALSCDQ FFVNHRWLGG MLTNWKTVRQ SIKRLKDLET QSQDGTFDKL TKKEALMRTR ELEKLENSLG GIKDMGGLPD A LFVIDADH EHIAIKEANN LGIPVFAIVD TNSDPDGVDF VIPGNDDAIR AVTLYLGAVA ATVREGRSQD LASQAEESFV EA E

UniProtKB: Small ribosomal subunit protein uS2

Macromolecule #32: Small ribosomal subunit protein uS5

• Macromolecule: Name: Small ribosomal subunit protein uS5 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 17.629398 KDa

Sequence

String:

MAHIEKQAGE LQEKLIAVNR VSKTVKGGRI FSFTALTVVG DGNGRVGFGY GKAREVPAAI QKAMEKARRN MINVALNNGT LQHPVKGVH TGSRVFMQPA SEGTGIIAGG AMRAVLEVAG VHNVLAKAYG STNPINVVRA TIDGLENMNS PEMVAAKRGK S VEEILGK

UniProtKB: Small ribosomal subunit protein uS5

Macromolecule #33: 30S ribosomal protein S6, fully modified isoform

• Macromolecule: Name: 30S ribosomal protein S6, fully modified isoform / type: protein_or_peptide / ID: 33 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 15.727512 KDa

Sequence

String:

MRHYEIVFMV HPDQSEQVPG MIERYTAAIT GAEGKIHRLE DWGRRQLAYP INKLHKAHYV LMNVEAPQEV IDELETTFRF NDAVIRSMV MRTKHAVTEA SPMVKAKDER RERRDDFANE TADDAEAGDS EEEEEE

UniProtKB: Small ribosomal subunit protein bS6

Macromolecule #34: 30S ribosomal protein S7

• Macromolecule: Name: 30S ribosomal protein S7 / type: protein_or_peptide / ID: 34 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 20.055156 KDa

Sequence

String:

MPRRRVIGQR KILPDPKFGS ELLAKFVNIL MVDGKKSTAE SIVYSALETL AQRSGKSELE AFEVALENVR PTVEVKSRRV GGSTYQVPV EVRPVRRNAL AMRWIVEAAR KRGDKSMALR LANELSDAAE NKGTAVKKRE DVHRMAEANK AFAHYRWLSL R SFSHQAGA SSKQPALGYL N

UniProtKB: Small ribosomal subunit protein uS7

Macromolecule #35: Small ribosomal subunit protein uS8

• Macromolecule: Name: Small ribosomal subunit protein uS8 / type: protein_or_peptide / ID: 35 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 14.146557 KDa

Sequence

String:

MSMQDPIADM LTRIRNGQAA NKAAVTMPSS KLKVAIANVL KEEGFIEDFK VEGDTKPELE LTLKYFQGKA VVESIQRVSR PGLRIYKRK DELPKVMAGL GIAVVSTSKG VMTDRAARQA GLGGEIICYV A

UniProtKB: Small ribosomal subunit protein uS8

Macromolecule #36: Small ribosomal subunit protein uS9

• Macromolecule: Name: Small ribosomal subunit protein uS9 / type: protein_or_peptide / ID: 36 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 14.88627 KDa

Sequence

String:

MAENQYYGTG RRKSSAARVF IKPGNGKIVI NQRSLEQYFG RETARMVVRQ PLELVDMVEK LDLYITVKGG GISGQAGAIR HGITRALME YDESLRSELR KAGFVTRDAR QVERKKVGLR KARRRPQFSK R

UniProtKB: Small ribosomal subunit protein uS9

Macromolecule #37: 30S ribosomal protein S11

• Macromolecule: Name: 30S ribosomal protein S11 / type: protein_or_peptide / ID: 37 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 13.870975 KDa

Sequence

String:

MAKAPIRARK RVRKQVSDGV AHIHASFNNT IVTITDRQGN ALGWATAGGS GFRGSRKSTP FAAQVAAERC ADAVKEYGIK NLEVMVKGP GPGRESTIRA LNAAGFRITN ITDVTPIPHN GCRPPKKRRV

UniProtKB: UNIPROTKB: D7Y3B9

Macromolecule #38: 30S ribosomal protein S12

• Macromolecule: Name: 30S ribosomal protein S12 / type: protein_or_peptide / ID: 38 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 13.768157 KDa

Sequence

String:

MATVNQLVRK PRARKVAKSN VPALEACPQK RGVCTRVYTT TPKKPNSALR KVCRVRLTNG FEVTSYIGGE GHNLQEHSVI LIRGGRVKD LPGVRYHTVR GALDCSGVKD RKQARSKYGV KRPKA

UniProtKB: Small ribosomal subunit protein uS12

Macromolecule #39: Small ribosomal subunit protein uS13

• Macromolecule: Name: Small ribosomal subunit protein uS13 / type: protein_or_peptide / ID: 39 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 13.128467 KDa

Sequence

String:

MARIAGINIP DHKHAVIALT SIYGVGKTRS KAILAAAGIA EDVKISELSE GQIDTLRDEV AKFVVEGDLR REISMSIKRL MDLGCYRGL RHRRGLPVRG QRTKTNARTR KGPRKPIKK

UniProtKB: Small ribosomal subunit protein uS13

Macromolecule #40: Small ribosomal subunit protein uS14

• Macromolecule: Name: Small ribosomal subunit protein uS14 / type: protein_or_peptide / ID: 40 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 11.60656 KDa

Sequence

String:

MAKQSMKARE VKRVALADKY FAKRAELKAI ISDVNASDED RWNAVLKLQT LPRDSSPSRQ RNRCRQTGRP HGFLRKFGLS RIKVREAAM RGEIPGLKKA SW

UniProtKB: Small ribosomal subunit protein uS14

Macromolecule #41: Small ribosomal subunit protein uS15

• Macromolecule: Name: Small ribosomal subunit protein uS15 / type: protein_or_peptide / ID: 41 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 10.290816 KDa

Sequence

String:

MSLSTEATAK IVSEFGRDAN DTGSTEVQVA LLTAQINHLQ GHFAEHKKDH HSRRGLLRMV SQRRKLLDYL KRKDVARYTQ LIERLGLRR

UniProtKB: Small ribosomal subunit protein uS15

Macromolecule #42: Small ribosomal subunit protein uS17

• Macromolecule: Name: Small ribosomal subunit protein uS17 / type: protein_or_peptide / ID: 42 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 9.724491 KDa

Sequence

String:

MTDKIRTLQG RVVSDKMEKS IVVAIERFVK HPIYGKFIKR TTKLHVHDEN NECGIGDVVE IRECRPLSKT KSWTLVRVVE KAVL

UniProtKB: Small ribosomal subunit protein uS17

Macromolecule #43: Small ribosomal subunit protein bS18

• Macromolecule: Name: Small ribosomal subunit protein bS18 / type: protein_or_peptide / ID: 43 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 9.005472 KDa

Sequence

String:

MARYFRRRKF CRFTAEGVQE IDYKDIATLK NYITESGKIV PSRITGTRAK YQRQLARAIK RARYLSLLPY TDRHQ

UniProtKB: Small ribosomal subunit protein bS18

Macromolecule #44: Small ribosomal subunit protein uS19

• Macromolecule: Name: Small ribosomal subunit protein uS19 / type: protein_or_peptide / ID: 44 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 10.455355 KDa

Sequence

String:

MPRSLKKGPF IDLHLLKKVE KAVESGDKKP LRTWSRRSTI FPNMIGLTIA VHNGRQHVPV FVTDEMVGHK LGEFAPTRTY RGHAADKKA KKK

UniProtKB: Small ribosomal subunit protein uS19

Macromolecule #45: 30S ribosomal protein S20

• Macromolecule: Name: 30S ribosomal protein S20 / type: protein_or_peptide / ID: 45 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 9.708464 KDa

Sequence

String:

MANIKSAKKR AIQSEKARKH NASRRSMMRT FIKKVYAAIE AGDKAAAQKA FNEMQPIVDR QAAKGLIHKN KAARHKANLT AQINKLA

UniProtKB: Small ribosomal subunit protein bS20

Macromolecule #46: Small ribosomal subunit protein bS21

• Macromolecule: Name: Small ribosomal subunit protein bS21 / type: protein_or_peptide / ID: 46 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 8.524039 KDa

Sequence

String:

MPVIKVRENE PFDVALRRFK RSCEKAGVLA EVRRREFYEK PTTERKRAKA SAVKRHAKKL ARENARRTRL Y

UniProtKB: Small ribosomal subunit protein bS21

Macromolecule #50: Large ribosomal subunit protein bL36A

• Macromolecule: Name: Large ribosomal subunit protein bL36A / type: protein_or_peptide / ID: 50 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Escherichia coli BW25113 (bacteria)
• Molecular weight: Theoretical: 4.37739 KDa

Sequence

String:

MKVRASVKKL CRNCKIVKRD GVIRVICSAE PKHKQRQG

UniProtKB: Large ribosomal subunit protein bL36A

Macromolecule #51: ApdP nascent chain

• Macromolecule: Name: ApdP nascent chain / type: protein_or_peptide / ID: 51 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Sinorhizobium medicae (bacteria)
• Molecular weight: Theoretical: 688.882 Da
• Recombinant expression: Organism: Escherichia coli BW25113 (bacteria)

Sequence

String:

KCIRAP

Macromolecule #52: MAGNESIUM ION

• Macromolecule: Name: MAGNESIUM ION / type: ligand / ID: 52 / Number of copies: 248 / Formula: MG
• Molecular weight: Theoretical: 24.305 Da

Macromolecule #53: POTASSIUM ION

• Macromolecule: Name: POTASSIUM ION / type: ligand / ID: 53 / Number of copies: 127 / Formula: K
• Molecular weight: Theoretical: 39.098 Da

Macromolecule #54: PROLINE

• Macromolecule: Name: PROLINE / type: ligand / ID: 54 / Number of copies: 1 / Formula: PRO
• Molecular weight: Theoretical: 115.13 Da

Chemical component information

ChemComp-PRO:
PROLINE

Macromolecule #55: ZINC ION

• Macromolecule: Name: ZINC ION / type: ligand / ID: 55 / Number of copies: 1 / Formula: ZN
• Molecular weight: Theoretical: 65.409 Da

Macromolecule #56: water

• Macromolecule: Name: water / type: ligand / ID: 56 / Number of copies: 1239 / 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: 7.4
• Vitrification: Cryogen name: ETHANE-PROPANE

Electron microscopy

• Microscope: TFS KRIOS
• Image recording: Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 75.6 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: 1.8 µm / Nominal defocus min: 0.6 µm
• Experimental equipment: Model: Titan Krios / Image courtesy: FEI Company

Image processing

• Startup model: Type of model: OTHER; Details: Exprimental unpublished map from our lab from an analogous ample, previously low-pass filtered
• Final reconstruction: Resolution.type: BY AUTHOR / Resolution: 2.2 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 205838
• Initial angle assignment: Type: MAXIMUM LIKELIHOOD
• Final angle assignment: Type: MAXIMUM LIKELIHOOD