[English] 日本語
Yorodumi
- EMDB-38876: cryo-EM structure of Staphylococcus aureus(ATCC 29213) 70S riboso... -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: EMDB / ID: EMD-38876
Titlecryo-EM structure of Staphylococcus aureus(ATCC 29213) 70S ribosome in complex with MCX-190.
Map data
Sample
  • Complex: Staphylococcus aureus(ATCC 29213) 70S ribosome in complex with MCX-190.
    • RNA: x 3 types
    • Protein or peptide: x 47 types
  • Ligand: x 2 types
Keywordsantibiotic / ribosome / MLSBK-resistant
Function / homology
Function and homology information


large ribosomal subunit / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / transferase activity / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / cytosolic large ribosomal subunit ...large ribosomal subunit / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / transferase activity / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / cytosolic large ribosomal subunit / tRNA binding / cytoplasmic translation / rRNA binding / negative regulation of translation / ribosome / structural constituent of ribosome / ribonucleoprotein complex / translation / mRNA binding / RNA binding / zinc ion binding / cytoplasm / cytosol
Similarity search - Function
Ribosomal protein L31 type B / Ribosomal protein L25, long-form / Ribosomal protein L25, beta domain / Ribosomal protein L25, C-terminal / Ribosomal protein TL5, C-terminal domain / Ribosomal protein S14, type Z / Ribosomal protein L31 signature. / Ribosomal protein L31 / Ribosomal protein L31 superfamily / Ribosomal protein L31 ...Ribosomal protein L31 type B / Ribosomal protein L25, long-form / Ribosomal protein L25, beta domain / Ribosomal protein L25, C-terminal / Ribosomal protein TL5, C-terminal domain / Ribosomal protein S14, type Z / Ribosomal protein L31 signature. / Ribosomal protein L31 / Ribosomal protein L31 superfamily / Ribosomal protein L31 / Ribosomal protein L16 signature 1. / : / Ribosomal protein L6, conserved site / Ribosomal protein L6 signature 1. / Ribosomal protein L16, conserved site / Ribosomal protein L16 signature 2. / Ribosomal protein L17 signature. / Ribosomal L25p family / Ribosomal protein L25 / Ribosomal protein L36 signature. / 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 L32p, bacterial type / Ribosomal protein L28 / Ribosomal protein L35, conserved site / Ribosomal protein L35 signature. / Ribosomal protein L33, conserved site / Ribosomal protein L33 signature. / Ribosomal protein L35, non-mitochondrial / Ribosomal protein S14/S29 / Ribosomal protein L5, bacterial-type / Ribosomal protein L18, bacterial-type / Ribosomal protein L6, bacterial-type / Ribosomal protein L19, conserved site / Ribosomal protein L19 signature. / Ribosomal protein S3, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein L36 / Ribosomal protein L36 superfamily / Ribosomal protein L36 / Ribosomal protein S19, bacterial-type / Ribosomal protein L20 signature. / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein S11, bacterial-type / Ribosomal protein L27, conserved site / Ribosomal protein S13, bacterial-type / Ribosomal protein L27 signature. / Ribosomal protein S20 / Ribosomal protein S20 superfamily / Ribosomal protein S20 / Ribosomal protein S9, bacterial/plastid / Ribosomal protein S4, bacterial-type / 30S ribosomal protein S17 / Ribosomal protein S5, bacterial-type / Ribosomal protein L14P, bacterial-type / Ribosomal protein L34, conserved site / Ribosomal protein L34 signature. / Ribosomal protein S6, plastid/chloroplast / Ribosomal protein L22, bacterial/chloroplast-type / Ribosomal protein L2, bacterial/organellar-type / Ribosomal protein L35 / Ribosomal protein L35 superfamily / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein L35 / Ribosomal L28 family / Ribosomal protein L33 / Ribosomal protein L33 / Ribosomal protein L28/L24 / Ribosomal protein L18 / Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast / Ribosomal protein L33 superfamily / Ribosomal protein L30, bacterial-type / : / Ribosomal protein L16 / Ribosomal protein S18, conserved site / Ribosomal protein S18 signature. / L28p-like / Ribosomal protein S16 / Ribosomal protein S16 / Ribosomal protein S16 domain superfamily / Ribosomal protein L20 / Ribosomal protein S15, bacterial-type / Ribosomal protein L20 / Ribosomal protein L20, C-terminal / Ribosomal protein L21 / Ribosomal protein L27 / Ribosomal L27 protein / Ribosomal protein L19 / Ribosomal protein L19 superfamily / Ribosomal protein L19 / Ribosomal proteins 50S L24/mitochondrial 39S L24 / Ribosomal protein L17 / Ribosomal protein L17 superfamily / Ribosomal protein L17 / Ribosomal protein S6 / Ribosomal protein S6 / Ribosomal protein S6 superfamily / Ribosomal protein L21-like
Similarity search - Domain/homology
Small ribosomal subunit protein uS19 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS2 / Large ribosomal subunit protein uL15 / Large ribosomal subunit protein uL30 / Large ribosomal subunit protein uL2 / Large ribosomal subunit protein uL3 / Large ribosomal subunit protein uL24 / Large ribosomal subunit protein uL4 / Large ribosomal subunit protein bL20 ...Small ribosomal subunit protein uS19 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS2 / Large ribosomal subunit protein uL15 / Large ribosomal subunit protein uL30 / Large ribosomal subunit protein uL2 / Large ribosomal subunit protein uL3 / Large ribosomal subunit protein uL24 / Large ribosomal subunit protein uL4 / Large ribosomal subunit protein bL20 / Large ribosomal subunit protein bL27 / Large ribosomal subunit protein bL28 / Large ribosomal subunit protein uL29 / Large ribosomal subunit protein bL31B / Large ribosomal subunit protein bL32 / Large ribosomal subunit protein bL33B / Large ribosomal subunit protein bL34 / Large ribosomal subunit protein bL35 / Large ribosomal subunit protein bL36 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein uS14B / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein bS18 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein bS6 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS9 / Large ribosomal subunit protein uL23 / Large ribosomal subunit protein uL22 / Large ribosomal subunit protein uL16 / Large ribosomal subunit protein uL14 / Large ribosomal subunit protein uL5 / Large ribosomal subunit protein uL6 / Large ribosomal subunit protein uL18 / Large ribosomal subunit protein bL17 / Large ribosomal subunit protein uL13 / Large ribosomal subunit protein bL21 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS15 / Large ribosomal subunit protein bL25 / Small ribosomal subunit protein uS17 / Large ribosomal subunit protein bL19
Similarity search - Component
Biological speciesStaphylococcus aureus (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.6 Å
AuthorsLi Y / Lu G / Li J / Pei X / Lin J
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32130063 China
CitationJournal: Cell Discov / Year: 2024
Title: Synthetic macrolides overcoming MLSK-resistant pathogens.
Authors: Cong-Xuan Ma / Ye Li / Wen-Tian Liu / Yun Li / Fei Zhao / Xiao-Tian Lian / Jing Ding / Si-Meng Liu / Xie-Peng Liu / Bing-Zhi Fan / Li-Yong Liu / Feng Xue / Jian Li / Jue-Ru Zhang / Zhao Xue ...Authors: Cong-Xuan Ma / Ye Li / Wen-Tian Liu / Yun Li / Fei Zhao / Xiao-Tian Lian / Jing Ding / Si-Meng Liu / Xie-Peng Liu / Bing-Zhi Fan / Li-Yong Liu / Feng Xue / Jian Li / Jue-Ru Zhang / Zhao Xue / Xiao-Tong Pei / Jin-Zhong Lin / Jian-Hua Liang /
Abstract: Conventional macrolide-lincosamide-streptogramin B-ketolide (MLSK) antibiotics are unable to counter the growing challenge of antibiotic resistance that is conferred by the constitutive methylation ...Conventional macrolide-lincosamide-streptogramin B-ketolide (MLSK) antibiotics are unable to counter the growing challenge of antibiotic resistance that is conferred by the constitutive methylation of rRNA base A2058 or its G2058 mutation, while the presence of unmodified A2058 is crucial for high selectivity of traditional MLSK in targeting pathogens over human cells. The absence of effective modes of action reinforces the prevailing belief that constitutively antibiotic-resistant Staphylococcus aureus remains impervious to existing macrolides including telithromycin. Here, we report the design and synthesis of a novel series of macrolides, featuring the strategic fusion of ketolide and quinolone moieties. Our effort led to the discovery of two potent compounds, MCX-219 and MCX-190, demonstrating enhanced antibacterial efficacy against a broad spectrum of formidable pathogens, including A2058-methylated Staphylococcus aureus, Streptococcus pneumoniae, Streptococcus pyogenes, and notably, the clinical Mycoplasma pneumoniae isolates harboring A2058G mutations which are implicated in the recent pneumonia outbreak in China. Mechanistic studies reveal that the modified quinolone moiety of MCX-190 establishes a distinctive secondary binding site within the nascent peptide exit tunnel. Structure-activity relationship analysis underscores the importance of this secondary binding, maintained by a sandwich-like π-π stacking interaction and a water-magnesium bridge, for effective engagement with A2058-methylated ribosomes rather than topoisomerases targeted by quinolone antibiotics. Our findings not only highlight MCX-219 and MCX-190 as promising candidates for next-generation MLSK antibiotics to combat antibiotic resistance, but also pave the way for the future rational design of the class of MLSK antibiotics, offering a strategic framework to overcome the challenges posed by escalating antibiotic resistance.
History
DepositionJan 28, 2024-
Header (metadata) releaseJul 24, 2024-
Map releaseJul 24, 2024-
UpdateJul 24, 2024-
Current statusJul 24, 2024Processing site: PDBc / Status: Released

-
Structure visualization

Supplemental images

emd_38876.png

Downloads & links

-
Map

FileDownload / File: emd_38876.map.gz / Format: CCP4 / Size: 421.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.82 Å/pix.
x 480 pix.
= 395.52 Å		0.82 Å/pix.
x 480 pix.
= 395.52 Å		0.82 Å/pix.
x 480 pix.
= 395.52 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.824 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0023
Minimum - Maximum-0.010284715 - 0.018766915
Average (Standard dev.)-0.000027229078 (±0.00092320447)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions480480480
Spacing480480480
CellA=B=C: 395.52 Å
α=β=γ: 90.0 °

-
Supplemental data

-
Mask #1

Fileemd_38876_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

-
Half map: #2

Fileemd_38876_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

-
Half map: #1

Fileemd_38876_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

-
Sample components

+
Entire : Staphylococcus aureus(ATCC 29213) 70S ribosome in complex with MC...

EntireName: Staphylococcus aureus(ATCC 29213) 70S ribosome in complex with MCX-190.
Components
  • Complex: Staphylococcus aureus(ATCC 29213) 70S ribosome in complex with MCX-190.
    • RNA: 23S ribosomal RNA
    • RNA: 5S ribosomal RNA
    • Protein or peptide: Large ribosomal subunit protein uL2
    • Protein or peptide: Large ribosomal subunit protein uL3
    • 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 uL13
    • Protein or peptide: Large ribosomal subunit protein uL14
    • Protein or peptide: Large ribosomal subunit protein uL15
    • Protein or peptide: Large ribosomal subunit protein uL16
    • 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: Large ribosomal subunit protein bL25
    • 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 bL31B
    • Protein or peptide: Large ribosomal subunit protein bL32
    • Protein or peptide: Large ribosomal subunit protein bL33B
    • Protein or peptide: Large ribosomal subunit protein bL34
    • Protein or peptide: Large ribosomal subunit protein bL35
    • Protein or peptide: Large ribosomal subunit protein bL36
    • RNA: 16S ribosomal RNA
    • Protein or peptide: Small ribosomal subunit protein uS2
    • 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 uS13
    • 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 bS18
    • Protein or peptide: Small ribosomal subunit protein uS19
    • Protein or peptide: Small ribosomal subunit protein bS20
  • Ligand: 7-[4-[3-[[(1~{S},2~{R},5~{R},6~{S},7~{S},8~{R},9~{R},11~{R},13~{R},14~{R})-8-[(2~{S},3~{R},4~{S},6~{R})-4-(dimethylamino)-6-methyl-3-oxidanyl-oxan-2-yl]oxy-2-ethyl-9-methoxy-1,5,7,9,11,13-hexamethyl-4,12,16-tris(oxidanylidene)-3,17-dioxa-15-azabicyclo[12.3.0]heptadecan-6-yl]oxycarbonylamino]propoxy]but-1-ynyl]-1-methyl-4-oxidanylidene-quinoline-3-carboxylic acid
  • Ligand: MAGNESIUM ION

+
Supramolecule #1: Staphylococcus aureus(ATCC 29213) 70S ribosome in complex with MC...

SupramoleculeName: Staphylococcus aureus(ATCC 29213) 70S ribosome in complex with MCX-190.
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#50
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213

+
Macromolecule #1: 23S ribosomal RNA

MacromoleculeName: 23S ribosomal RNA / type: rna / ID: 1 / Number of copies: 1
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 946.093188 KDa
SequenceString: UUAAGUUAUU AAGGGCGCAC GGUGGAUGCC UUGGCACUAG AAGCCGAUGA AGGACGUUAC UAACGACGAU AUGCUUUGGG GAGCUGUAA GUAAGCUUUG AUCCAGAGAU UUCCGAAUGG GGAAACCCAG CAUGAGUUAU GUCAUGUUAU CGAUAUGUGA A UACAUAGC ...String:
UUAAGUUAUU AAGGGCGCAC GGUGGAUGCC UUGGCACUAG AAGCCGAUGA AGGACGUUAC UAACGACGAU AUGCUUUGGG GAGCUGUAA GUAAGCUUUG AUCCAGAGAU UUCCGAAUGG GGAAACCCAG CAUGAGUUAU GUCAUGUUAU CGAUAUGUGA A UACAUAGC AUAUCAGAAG GCACACCCGG AGAACUGAAA CAUCUUAGUA CCCGGAGGAA GAGAAAGAAA AUUCGAUUCC CU UAGUAGC GGCGAGCGAA AUGGGAAGAG CCCAAACCAA CAAGCUUGCU UGUUGGGGUU GUAGGACACU CUAUACGGAG UUA CAAAGG ACGACAUUAG ACGAAUCAUC UGGAAAGAUG AAUCAAAGAA GGUAAUAAUC CUGUAGUCGA AAAUGUUGUC UCUC UUGAG UGGAUCCUGA GUACGACGGA GCACGUGAAA UUCCGUCGGA AUCUGGGAGG ACCAUCUCCU AAGGCUAAAU ACUCU CUAG UGACCGAUAG UGAACCAGUA CCGUGAGGGA AAGGUGAAAA GCACCCCGGA AGGGGAGUGA AAUAGAACCU GAAACC GUG UGCUUACAAG UAGUCAGAGC CCGUUAAUGG GUGAUGGCGU GCCUUUUGUA GAAUGAACCG GCGAGUUACG AUUUGAU GC AAGGUUAAGC AGUAAAUGUG GAGCCGUAGC GAAAGCGAGU CUGAAUAGGG CGUUUAGUAU UUGGUCGUAG ACCCGAAA C CAGGUGAUCU ACCCUUGGUC AGGUUGAAGU UCAGGUAACA CUGAAUGGAG GACCGAACCG ACUUACGU(5MU)G AAAAG UGAG CGGAUGAACU GAGGGUAGCG GAGAAAUUCC AAUCGAACCU GGAGAUAGCU GGUUCUCUCC GAAAUAGCUU UAGGGC UAG CCUCAAGUGA UGAUUAUUGG AGGUAGAGCA CUGUUUGGAC GAGGGGCCCC UCUCGGGUUA CCGAAUUCAG ACAAACU CC GAAUGCCAAU UAAUUUAACU UGGGAGUCAG AACAUGGGUG AUAAGGUCCG UGUUCGAAAG GGAAACAGCC CAGACCAC C AGCUAAGGUC CCAAAAUAUA UGUUAAGUGG AAAAGGAUGU GGCGUUGCCC AGACAACUAG GAUGUUGGCU UAGAAGCAG CCAUCAUUUA AAGAGUGCGU AAUAGCUCAC UAGUCGAGUG ACACUGCGCC GAAAAUGUAC CGGGGCUAAA CAUAUUACCG AAGCUGUGG AUUGUCCUUU GGACAAUGGU AGGAGAGCGU UCUAAGGGCG UUGAAGCAUG AUCGUAAGGA CAUGUGGAGC G CUUAGAAG UGAGAAUGCC GGUGUGAGUA GCGAAAGACG GGUGAGAAUC CCGUCCACCG AUUGACUAAG GUUUCCAGAG GA AGGCUCG UCCGCUCUGG GUUAGUCGGG UCCUAAGCUG AGGCCGACAG GCGUAGGCGA UGGAUAACAG GUUGAUAUUC CUG UACCAC CUAUAAUCGU UUUAAUCGAU GGGGGGACGC AGUAGGAUAG GCGAAGCGUG CGAUUGGAUU GCACGUCUAA GCAG UAAGG CUGAGUAUUA GGCAAAUCCG GUACUCGUUA AGGCUGAGCU GUGAUGGGGA GAAGACAUUG UGUCUUCGAG UCGUU GAUU UCACACUGCC GAGAAAAGCC UCUAGAUAGA AAAUAGGUGC CCGUACCGCA AACCGACACA GGUAGUCAAG AUGAGA AUU CUAAGGUGAG CGAGCGAACU CUCGUUAAGG AACUCGGCAA AAUGACCCCG UAACUUCGGG AGAAGGGGUG CUCUUUA GG GUUAACGCCC AGAAGAGCCG CAGUGAAUAG GCCCAAGCGA CUGUUUAUCA AAAACACAGG UCUCUGCUAA ACCGUAAG G UGAUGUAUAG GGGCUGACGC CUGCCCGGUG CUGGAAGGUU AAGAGGAGUG GUUAGCUUCU GCGAAGCUAC GAAUCGAAG CCCCAGUAAA CGGCGGCCGU AACUAUAACG GUCCUAAGGU AGCGAAA(5MU)UC CUUGUCGGGU AAGUUCCGAC CCGCAC GAA AGGCGUAACG AUUUGGGCAC UGUCUCAACG AGAGACUCGG UGAAAUCAUA GUACCUGUGA AGAUGCAGGU UACCCGC GA CAGGACGGAA AGACCCCGUG GAGCUUUACU GUAGCCUGAU AUUGAAAUUC GGCACAGCUU GUACAGGAUA GGUAGGAG C CUUUGAAACG UGAGCGCUAG CUUACGUGGA GGCGCUGGUG GGAUACUACC CUAGCUGUGU UGGCUUUCUA ACCCGCACC ACUUAUCGUG GUGGGAGACA GUGUCAGGCG GGCAGUUUGA CUG(OMG)GGCGGU CGCCUCCUAA AAGGUAACGG AGGCGC UCA AAGGUUCCCU CAGAAUGGUU GGAAAUCAUU CAUAGAGUGU AAAGGCAUAA GGGAGCUUGA CUGCGAGACC UACAAGU CG AGCAGGGUCG AAAGACGGAC UUAGUGAUCC GGUGGUUCCG CAUGGAAGGG CCAUCGCUCA ACGGAUAAAA GCUACCCC G (2MG)GGAUAACAG GCUUAUCUCC CCCAAGAGUU CACAUCGACG GGGAGGUUUG GCACCUCG(2MA)U GUCGGCUCAU C GCAUCCUG GGGCUGUAGU CGGUCCCAAG GGUUGGGCUG UUCGCCCAUU AAAGCGGUAC GCGAGCUGGG UUCAGAACGU CG UGAGACA GUUCGGUCCC UAUCCGUCGU GGGCGUAGGA AAUUUGAGAG GAGCUGUCCU UAGUACGAGA GGACCGGGAU GGA CAUACC UCUGGUGUAC CAGUUGUCGU GCCAACGGCA UAGCUGGGUA GCUAUGUGUG GACGGGAUAA GUGCUGAAAG CAUC UAAGC AUGAAGCCCC CCUCAAGAUG AGAUUUCCCA ACUUCGGUUA UAAGAUCCCU CAAAGAUGAU GAGGUUAAUA GGUUC GAGG UGGAAGCAUG GUGACAUGUG GAGCUGACGA AUACUAAUCG AUCGAAGACU UAAUCAA

GENBANK: GENBANK: CP058312.1

+
Macromolecule #2: 5S ribosomal RNA

MacromoleculeName: 5S ribosomal RNA / type: rna / ID: 2 / Number of copies: 1
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 36.974945 KDa
SequenceString:
UCUGGUGACU AUAGCAAGGA GGUCACACCU GUUCCCAUGC CGAACACAGA AGUUAAGCUC CUUAGCGUCG AUGGUAGUCG AACUUACGU UCCGCUAGAG UAGAACGUUG CCAGGC

GENBANK: GENBANK: CP030384.1

+
Macromolecule #31: 16S ribosomal RNA

MacromoleculeName: 16S ribosomal RNA / type: rna / ID: 31 / Number of copies: 1
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 500.833656 KDa
SequenceString: AUGGAGAGUU UGAUCCUGGC UCAGGAUGAA CGCUGGCGGC GUGCCUAAUA CAUGCAAGUC GAGCGAACGG ACGAGAAGCU UGCUUCUCU GAUGUUAGCG GCGGACGGGU GAGUAACACG UGGAUAACCU ACCUAUAAGA CUGGGAUAAC UUCGGGAAAC C GGAGCUAA ...String:
AUGGAGAGUU UGAUCCUGGC UCAGGAUGAA CGCUGGCGGC GUGCCUAAUA CAUGCAAGUC GAGCGAACGG ACGAGAAGCU UGCUUCUCU GAUGUUAGCG GCGGACGGGU GAGUAACACG UGGAUAACCU ACCUAUAAGA CUGGGAUAAC UUCGGGAAAC C GGAGCUAA UACCGGAUAA UAUUUUGAAC CGCAUGGUUC AAAAGUGAAA GACGGUCUUG CUGUCACUUA UAGAUGGAUC CG CGCUGCA UUAGCUAGUU GGUAAGGUAA CGGCUUACCA AGGCAACGAU GCAUAGCCGA CCUGAGAGGG UGAUCGGCCA CAC UGGAAC UGAGACACGG UCCAGACUCC UACGGGAGGC AGCAGUAGGG AAUCUUCCGC AAUGGGCGAA AGCCUGACGG AGCA ACGCC GCGUGAGUGA UGAAGGUCUU CGGAUCGUAA AACUCUGUUA UUAGGGAAGA ACAUAUGUGU AAGUAACUGU GCACA UCUU GACGGUACCU AAUCAGAAAG CCACGGCUAA CUACGUGCCA GCAGCCGCGG UAAUACGUAG GUGGCAAGCG UUAUCC GGA AUUAUUGGGC GUAAAGCGCG CGUAGGCGGU UUUUUAAGUC UGAUGUGAAA GCCCACGGCU CAACCGUGGA GGGUCAU UG GAAACUGGAA AACUUGAGUG CAGAAGAGGA AAGUGGAAUU CCAUGUGUAG CGGUGAAAUG CGCAGAGAUA UGGAGGAA C ACCAGUGGCG AAGGCGACUU UCUGGUCUGU AACUGACGCU GAUGUGCGAA AGCGUGGGGA UCAAACAGGA UUAGAUACC CUGGUAGUCC ACGCCGUAAA CGAUGAGUGC UAAGUGUUAG GGGGUUUCCG CCCCUUAGUG CUGCAGCUAA CGCAUUAAGC ACUCCGCCU GGGGAGUACG ACCGCAAGGU UGAAACUCAA AGGAAUUGAC GGGGACCCGC ACAAGCGGUG GAGCAUGUGG U UUAAUUCG AAGCAACGCG AAGAACCUUA CCAAAUCUUG ACAUCCUUUG ACAACUCUAG AGAUAGAGCC UUCCCCUUCG GG GGACAAA GUGACAGGUG GUGCAUGGUU GUCGUCAGCU CGUGUCGUGA GAUGUUGGGU UAAGUCCCGC AACGAGCGCA ACC CUUAAG CUUAGUUGCC AUCAUUAAGU UGGGCACUCU AAGUUGACUG CCGGUGACAA ACCGGAGGAA GGUGGGGAUG ACGU CAAAU CAUCAUGCCC CUUAUGAUUU GGGCUACACA CGUGCUACAA UGGACAAUAC AAAGGGCAGC GAAACCGCGA GGUCA AGCA AAUCCCAUAA AGUUGUUCUC AGUUCGGAUU GUAGUCUGCA ACUCGACUAC AUGAAGCUGG AAUCGCUAGU AAUCGU AGA UCAGCAUGCU ACGGUGAAUA CGUUCCCGGG UCUUGUACAC ACCGCCCGUC ACACCACGAG AGUUUGUAAC ACCCGAA GC CGGUGGAGUA ACCUUUUAGG AGCUAGCCGU CGAAGGUGGG ACAAAUGAUU GGGGUGAAGU CGUAACAAGG UAGCCGUA U CGGAAGGUGC GGCUGGAUCA CCUCCUU

GENBANK: GENBANK: CP043918.1

+
Macromolecule #3: Large ribosomal subunit protein uL2

MacromoleculeName: Large ribosomal subunit protein uL2 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 29.827607 KDa
SequenceString: AIKKYKPITN GRRNMTSLDF AEITKTTPEK SLLKPLPKKA GRNNQGKLTV RHHGGGHKRQ YRVIDFKRNK DGINAKVDSI QYDPNRSAN IALVVYADGE KRYIIAPKGL EVGQIVESGA EADIKVGNAL PLQNIPVGTV VHNIELKPGK GGQIARSAGA S AQVLGKEG ...String:
AIKKYKPITN GRRNMTSLDF AEITKTTPEK SLLKPLPKKA GRNNQGKLTV RHHGGGHKRQ YRVIDFKRNK DGINAKVDSI QYDPNRSAN IALVVYADGE KRYIIAPKGL EVGQIVESGA EADIKVGNAL PLQNIPVGTV VHNIELKPGK GGQIARSAGA S AQVLGKEG KYVLIRLRSG EVRMILSTCR ATIGQVGNLQ HELVNVGKAG RSRWKGIRPT VRGSVMNPND HPHGGGEGRA PI GRPSPMS PWGKPTLGKK TRRGKKSSDK LIVRGRK

UniProtKB: Large ribosomal subunit protein uL2

+
Macromolecule #4: Large ribosomal subunit protein uL3

MacromoleculeName: Large ribosomal subunit protein uL3 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 23.199545 KDa
SequenceString: TKGILGRKIG MTQVFGENGE LIPVTVVEAK ENVVLQKKTV EVDGYNAIQV GFEDKKAYKK DAKSNKYANK PAEGHAKKAD AAPKRFIRE FRNVDVDAYE VGQEVSVDTF VAGDVIDVTG VSKGKGFQGA IKRHGQSRGP MSHGSHFHRA PGSVGMASDA S RVFKGQKM ...String:
TKGILGRKIG MTQVFGENGE LIPVTVVEAK ENVVLQKKTV EVDGYNAIQV GFEDKKAYKK DAKSNKYANK PAEGHAKKAD AAPKRFIRE FRNVDVDAYE VGQEVSVDTF VAGDVIDVTG VSKGKGFQGA IKRHGQSRGP MSHGSHFHRA PGSVGMASDA S RVFKGQKM PGRMGGNTVT VQNLEVVQVD TENKVILVKG NVPGPKKGLV EIRTSIK

UniProtKB: Large ribosomal subunit protein uL3

+
Macromolecule #5: Large ribosomal subunit protein uL4

MacromoleculeName: Large ribosomal subunit protein uL4 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 22.364504 KDa
SequenceString: ANYDVLKLDG TKSGSIELSD AVFGIEPNNS VLFEAINLQR ASLRQGTHAV KNRSAVSGGG RKPWKQKGTG RARQGTIRAP QWRGGGIVF GPTPRSYAYK MPKKMRRLAL RSALSFKAQE NGLTVVDAFN FEAPKTKEFK NVLSTLEQPK KVLVVTENED V NVELSARN ...String:
ANYDVLKLDG TKSGSIELSD AVFGIEPNNS VLFEAINLQR ASLRQGTHAV KNRSAVSGGG RKPWKQKGTG RARQGTIRAP QWRGGGIVF GPTPRSYAYK MPKKMRRLAL RSALSFKAQE NGLTVVDAFN FEAPKTKEFK NVLSTLEQPK KVLVVTENED V NVELSARN IPGVQVTTAQ GLNVLDITNA DSLVITEAAA KKVEEVLG

UniProtKB: Large ribosomal subunit protein uL4

+
Macromolecule #6: Large ribosomal subunit protein uL5

MacromoleculeName: Large ribosomal subunit protein uL5 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 19.731893 KDa
SequenceString:
NRLKEKFNTE VTENLMKKFN YSSVMEVPKI DKIVVNMGVG DAVQNSKVLD NAVEELELIT GQKPLVTKAK KSIATFRLRE GMPIGAKVT LRGERMYEFL DKLISVSLPR VRDFQGVSKK AFDGRGNYTL GVKEQLIFPE IDYDKVSKVR GMDIVIVTTA N TDEEAREL LANFGMP

UniProtKB: Large ribosomal subunit protein uL5

+
Macromolecule #7: Large ribosomal subunit protein uL6

MacromoleculeName: Large ribosomal subunit protein uL6 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 19.501154 KDa
SequenceString:
SRVGKKIIDI PSDVTVTFDG NHVTVKGPKG ELSRTLNERM TFKQEENTIE VVRPSDSKED RTNHGTTRAL LNNMVQGVSQ GYVKVLELV GVGYRAQMQG KDLILNVGYS HPVEIKAEEN ITFSVEKNTV VKVEGISKEQ VGALASNIRS VRPPEPYKGK G IRYQGEYV RRKEGKT

UniProtKB: Large ribosomal subunit protein uL6

+
Macromolecule #8: Large ribosomal subunit protein uL13

MacromoleculeName: Large ribosomal subunit protein uL13 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 16.359427 KDa
SequenceString:
MRQTFMANES NIERKWYVID AEGQTLGRLS SEVASILRGK NKVTYTPHVD TGDYVIVINA SKIEFTGNKE TDKVYYRHSN HPGGIKSIT AGELRRTNPE RLIENSIKGM LPSTRLGEKQ GKKLFVYGGA EHPHAAQQPE NYELRG

UniProtKB: Large ribosomal subunit protein uL13

+
Macromolecule #9: Large ribosomal subunit protein uL14

MacromoleculeName: Large ribosomal subunit protein uL14 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 13.157342 KDa
SequenceString:
MIQQETRLKV ADNSGAREVL TIKVLGGSGR KTANIGDVIV CTVKNATPGG VVKKGDVVKA VIVRTKSGVR RNDGSYIKFD ENACVIIRD DKGPRGTRIF GPVARELREG NFMKIVSLAP EVL

UniProtKB: Large ribosomal subunit protein uL14

+
Macromolecule #10: Large ribosomal subunit protein uL15

MacromoleculeName: Large ribosomal subunit protein uL15 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 15.62889 KDa
SequenceString:
MKLHELKPAE GSRKERNRVG RGVATGNGKT SGRGHKGQKA RSGGGVRPGF EGGQLPLFRR LPKRGFTNIN RKEYAIVNLD QLNKFEDGT EVTPALLVES GVVKNEKSGI KILGNGSLDK KLTVKAHKFS ASAAEAIDAK GGAHEVI

UniProtKB: Large ribosomal subunit protein uL15

+
Macromolecule #11: Large ribosomal subunit protein uL16

MacromoleculeName: Large ribosomal subunit protein uL16 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 15.599435 KDa
SequenceString:
MLLPKRVKYR RQHRPKTTGR SKGGNYVTFG EFGLQATTTS WITSRQIESA RIAMTRYMKR GGKVWIKIFP HTPYTKKPLE VRMGAGKGA VEGWIAVVKP GRILFEVAGV SEEVAREALR LASHKLPVKT KFVKREEL

UniProtKB: Large ribosomal subunit protein uL16

+
Macromolecule #12: Large ribosomal subunit protein bL17

MacromoleculeName: Large ribosomal subunit protein bL17 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 13.583523 KDa
SequenceString:
YRKLGRTSDQ RKAMLRDLAT SLIISERIET TEARAKEVRS VVEKLITLGK KGDLASRRNA AKTLRNVEIL NEDETTQTAL QKLFGEIAE RYTERQGGYT RILKQGPRRG DGAESVIIEL V

UniProtKB: Large ribosomal subunit protein bL17

+
Macromolecule #13: Large ribosomal subunit protein uL18

MacromoleculeName: Large ribosomal subunit protein uL18 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 13.124093 KDa
SequenceString:
MISKIDKNKV RLKRHARVRT NLSGTAEKPR LNVYRSNKHI YAQIIDDNKG VTLAQASSKD SDIATTATKV ELATKVGEAI AKKAADKGI KEIVFDRGGY LYHGRVKALA EAARESGLEF

UniProtKB: Large ribosomal subunit protein uL18

+
Macromolecule #14: Large ribosomal subunit protein bL19

MacromoleculeName: Large ribosomal subunit protein bL19 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 13.104381 KDa
SequenceString:
TNHKLIEAVT KSQLRTDLPS FRPGDTLRVH VRIIEGTRER IQVFEGVVIK RRGGGVSETF TVRKISSGVG VERTFPLHTP KIEKIEVKR RGKVRRAKLY YLRSLRGKAA RIQEI

UniProtKB: Large ribosomal subunit protein bL19

+
Macromolecule #15: Large ribosomal subunit protein bL20

MacromoleculeName: Large ribosomal subunit protein bL20 / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 13.459919 KDa
SequenceString:
PRVKGGTVTR ARRKKTIKLA KGYFGSKHTL YKVAKQQVMK SGQYAFRDRR QRKRDFRKLW ITRINAAARQ HEMSYSRLMN GLKKAGIDI NRKMLSEIAI SDEKAFAQLV TKAKDAL

UniProtKB: Large ribosomal subunit protein bL20

+
Macromolecule #16: Large ribosomal subunit protein bL21

MacromoleculeName: Large ribosomal subunit protein bL21 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 11.354081 KDa
SequenceString:
MFAIIETGGK QIKVEEGQEI FVEKLDVNEG DTFTFDKVLF VGGDSVKVGA PTVEGATVTA TVNKQGRGKK ITVFTYKRRK NSKRKKGHR QPYTKLTIDK INA

UniProtKB: Large ribosomal subunit protein bL21

+
Macromolecule #17: Large ribosomal subunit protein uL22

MacromoleculeName: Large ribosomal subunit protein uL22 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 12.857922 KDa
SequenceString:
MEAKAVARTI RIAPRKVRLV LDLIRGKNAA EAIAILKLTN KASSPVIEKV LMSALANAEH NYDMNTDELV VKEAYANEGP TLKRFRPRA QGRASAINKR TSHITIVVSD GKEEAKEA

UniProtKB: Large ribosomal subunit protein uL22

+
Macromolecule #18: Large ribosomal subunit protein uL23

MacromoleculeName: Large ribosomal subunit protein uL23 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 10.3801 KDa
SequenceString:
EARDILKRPV ITEKSSEAMA EDKYTFDVDT RVNKTQVKMA VEEIFNVKVA SVNIMNYKPK KKRMGRYQGY TNKRRKAIVT LKEGSIDLF

UniProtKB: Large ribosomal subunit protein uL23

+
Macromolecule #19: Large ribosomal subunit protein uL24

MacromoleculeName: Large ribosomal subunit protein uL24 / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 11.316205 KDa
SequenceString:
HIKKGDNVKV IAGKDKGKEG KVIATLPKKD RVVVEGVNIM KKHQKPTQLN PEGGILETEA AIHVSNVQLL DPKTNEPTRV GYKFVDGKK VRIAKKSGEE IKSN

UniProtKB: Large ribosomal subunit protein uL24

+
Macromolecule #20: Large ribosomal subunit protein bL25

MacromoleculeName: Large ribosomal subunit protein bL25 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 10.4622 KDa
SequenceString:
ASLKSIIRQG KQTRSDLKQL RKSGKVPAVV YGYGTKNVSV KVDEVEFIKV IREVGRNGVI ELGVGSKTIK VMVADYQFDP LKNQITHID FLAIN

UniProtKB: Large ribosomal subunit protein bL25

+
Macromolecule #21: Large ribosomal subunit protein bL27

MacromoleculeName: Large ribosomal subunit protein bL27 / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 8.911099 KDa
SequenceString:
KKGVSSTKNG RDSESKRLGA KRADGQFVTG GSILYRQRGT KIYPGENVGR GGDDTLFAKI DGVVKFERKG RDKKQVSVYA VA

UniProtKB: Large ribosomal subunit protein bL27

+
Macromolecule #22: Large ribosomal subunit protein bL28

MacromoleculeName: Large ribosomal subunit protein bL28 / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 6.550716 KDa
SequenceString:
KQCFVTGRKA STGNRRSHAL NSTKRRWNAN LQKVRILVDG KPKKVWVSAR ALKSGKVT

UniProtKB: Large ribosomal subunit protein bL28

+
Macromolecule #23: Large ribosomal subunit protein uL29

MacromoleculeName: Large ribosomal subunit protein uL29 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 7.845942 KDa
SequenceString:
KAKEIRDLTT SEIEEQIKSS KEELFNLRFQ LATGQLEETA RIRTVRKTIA RLKTVARERE IEQSKAN

UniProtKB: Large ribosomal subunit protein uL29

+
Macromolecule #24: Large ribosomal subunit protein uL30

MacromoleculeName: Large ribosomal subunit protein uL30 / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 6.434487 KDa
SequenceString:
AKLQITLTRS VIGRPETQRK TVEALGLKKT NSSVVVEDNP AIRGQINKVK HLVTVEEK

UniProtKB: Large ribosomal subunit protein uL30

+
Macromolecule #25: Large ribosomal subunit protein bL31B

MacromoleculeName: Large ribosomal subunit protein bL31B / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 6.909694 KDa
SequenceString:
MKQGIHPEYH QVIFLDTTTN FKFLSGSTKT SSEMMEWEDG KEYPVIRLDI SSDSHPFYT

UniProtKB: Large ribosomal subunit protein bL31B

+
Macromolecule #26: Large ribosomal subunit protein bL32

MacromoleculeName: Large ribosomal subunit protein bL32 / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 5.569565 KDa
SequenceString:
AVPKRRTSKT RKNKRRTHFK ISVPGMTECP NCGEYKLSHR VCKNCGSY

UniProtKB: Large ribosomal subunit protein bL32

+
Macromolecule #27: Large ribosomal subunit protein bL33B

MacromoleculeName: Large ribosomal subunit protein bL33B / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 5.684561 KDa
SequenceString:
RVNVTLACTE CGDRNYITTK NKRNNPERIE MKKYCPRLNK YTLHRET

UniProtKB: Large ribosomal subunit protein bL33B

+
Macromolecule #28: Large ribosomal subunit protein bL34

MacromoleculeName: Large ribosomal subunit protein bL34 / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 5.252369 KDa
SequenceString:
VKRTYQPNKR KHSKVHGFRK RMSTKNGRKV LARRRRKGRK VLS

UniProtKB: Large ribosomal subunit protein bL34

+
Macromolecule #29: Large ribosomal subunit protein bL35

MacromoleculeName: Large ribosomal subunit protein bL35 / type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 7.461992 KDa
SequenceString:
PKMKTHRGAA KRVKRTASGQ LKRSRAFTSH LFANKSTKQK RQLRKARLVS KSDMKRVKQL LAYK

UniProtKB: Large ribosomal subunit protein bL35

+
Macromolecule #30: Large ribosomal subunit protein bL36

MacromoleculeName: Large ribosomal subunit protein bL36 / type: protein_or_peptide / ID: 30 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 4.318422 KDa
SequenceString:
MKVRPSVKPI CEKCKVIKRK GKVMVICENP KHKQRQG

UniProtKB: Large ribosomal subunit protein bL36

+
Macromolecule #32: Small ribosomal subunit protein uS2

MacromoleculeName: Small ribosomal subunit protein uS2 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 26.588031 KDa
SequenceString: MAVISMKQLL EAGVHFGHQT RRWNPKMKKY IFTERNGIYI IDLQKTVKKV DEAYNFLKQV SEDGGQVLFV GTKKQAQESV KSEAERAGQ FYINQRWLGG LLTNYKTISK RIKRISEIEK MEEDGLFEVL PKKEVVELKK EYDRLIKFLG GIRDMKSMPQ A LFVVDPRK ...String:
MAVISMKQLL EAGVHFGHQT RRWNPKMKKY IFTERNGIYI IDLQKTVKKV DEAYNFLKQV SEDGGQVLFV GTKKQAQESV KSEAERAGQ FYINQRWLGG LLTNYKTISK RIKRISEIEK MEEDGLFEVL PKKEVVELKK EYDRLIKFLG GIRDMKSMPQ A LFVVDPRK ERNAIAEARK LNIPIVGIVD TNCDPDEIDY VIPANDDAIR AVKLLTAKMA DAILEGQQGV LMKK

UniProtKB: Small ribosomal subunit protein uS2

+
Macromolecule #33: Small ribosomal subunit protein uS3

MacromoleculeName: Small ribosomal subunit protein uS3 / type: protein_or_peptide / ID: 33 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 24.143867 KDa
SequenceString: MGQKINPIGL RVGIIRDWEA KWYAEKDFAS LLHEDLKIRK FIDNELKEAS VSHVEIERAA NRINIAIHTG KPGMVIGKGG SEIEKLRNK LNALTDKKVH INVIEIKKVD LDARLVAENI ARQLENRASF RRVQKQAITR AMKLGAKGIK TQVSGRLGGA D IARAEQYS ...String:
MGQKINPIGL RVGIIRDWEA KWYAEKDFAS LLHEDLKIRK FIDNELKEAS VSHVEIERAA NRINIAIHTG KPGMVIGKGG SEIEKLRNK LNALTDKKVH INVIEIKKVD LDARLVAENI ARQLENRASF RRVQKQAITR AMKLGAKGIK TQVSGRLGGA D IARAEQYS EGTVPLHTLR ADIDYAHAEA DTTYGKLGVK VWIYRGEVLP TKNTSGGGK

UniProtKB: Small ribosomal subunit protein uS3

+
Macromolecule #34: Small ribosomal subunit protein uS4

MacromoleculeName: Small ribosomal subunit protein uS4 / type: protein_or_peptide / ID: 34 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 23.051416 KDa
SequenceString: MARFRGSNWK KSRRLGISLS GTGKELEKRP YAPGQHGPNQ RKKLSEYGLQ LREKQKLRYL YGMTERQFRN TFDIAGKKFG VHGENFMIL LASRLDAVVY SLGLARTRRQ ARQLVNHGHI LVDGKRVDIP SYSVKPGQTI SVREKSQKLN IIVESVEINN F VPEYLNFD ...String:
MARFRGSNWK KSRRLGISLS GTGKELEKRP YAPGQHGPNQ RKKLSEYGLQ LREKQKLRYL YGMTERQFRN TFDIAGKKFG VHGENFMIL LASRLDAVVY SLGLARTRRQ ARQLVNHGHI LVDGKRVDIP SYSVKPGQTI SVREKSQKLN IIVESVEINN F VPEYLNFD ADSLTGTFVR LPERSELPAE INEQLIVEYY SR

UniProtKB: Small ribosomal subunit protein uS4

+
Macromolecule #35: Small ribosomal subunit protein uS5

MacromoleculeName: Small ribosomal subunit protein uS5 / type: protein_or_peptide / ID: 35 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 17.770512 KDa
SequenceString:
MARREEETKE FEERVVTINR VAKVVKGGRR FRFTALVVVG DKNGRVGFGT GKAQEVPEAI KKAVEAAKKD LVVVPRVEGT TPHTITGRY GSGSVFMKPA APGTGVIAGG PVRAVLELAG ITDILSKSLG SNTPINMVRA TIDGLQNLKN AEDVAKLRGK T VEELYN

UniProtKB: Small ribosomal subunit protein uS5

+
Macromolecule #36: Small ribosomal subunit protein bS6

MacromoleculeName: Small ribosomal subunit protein bS6 / type: protein_or_peptide / ID: 36 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 11.613146 KDa
SequenceString:
MRTYEVMYIV RPNIEEDAKK ALVERFNGIL ATEGAEVLEA KDWGKRRLAY EINDFKDGFY NIVRVKSDNN KATDEFQRLA KISDDIIRY MVIREDEDK

UniProtKB: Small ribosomal subunit protein bS6

+
Macromolecule #37: Small ribosomal subunit protein uS7

MacromoleculeName: Small ribosomal subunit protein uS7 / type: protein_or_peptide / ID: 37 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 17.826555 KDa
SequenceString:
MPRKGSVPKR DVLPDPIHNS KLVTKLINKI MLDGKRGTAQ RILYSAFDLV EQRSGRDALE VFEEAINNIM PVLEVKARRV GGSNYQVPV EVRPERRTTL GLRWLVNYAR LRGEKTMEDR LANEILDAAN NTGGAVKKRE DTHKMAEANK AFAHYRW

UniProtKB: Small ribosomal subunit protein uS7

+
Macromolecule #38: Small ribosomal subunit protein uS8

MacromoleculeName: Small ribosomal subunit protein uS8 / type: protein_or_peptide / ID: 38 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 14.854315 KDa
SequenceString:
MTMTDPIADM LTRVRNANMV RHEKLELPAS NIKKEIAEIL KSEGFIKNVE YVEDDKQGVL RLFLKYGQND ERVITGLKRI SKPGLRVYA KASEMPKVLN GLGIALVSTS EGVITDKEAR KRNVGGEIIA YVW

UniProtKB: Small ribosomal subunit protein uS8

+
Macromolecule #39: Small ribosomal subunit protein uS9

MacromoleculeName: Small ribosomal subunit protein uS9 / type: protein_or_peptide / ID: 39 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 14.642725 KDa
SequenceString:
MAQVEYRGTG RRKNSVARVR LVPGEGNITV NNRDVREYLP FESLILDLNQ PFDVTETKGN YDVLVNVHGG GFTGQAQAIR HGIARALLE ADPEYRGSLK RAGLLTRDPR MKERKKPGLK AARRSPQFSK R

UniProtKB: Small ribosomal subunit protein uS9

+
Macromolecule #40: Small ribosomal subunit protein uS10

MacromoleculeName: Small ribosomal subunit protein uS10 / type: protein_or_peptide / ID: 40 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 11.598503 KDa
SequenceString:
MAKQKIRIRL KAYDHRVIDQ SAEKIVETAK RSGADVSGPI PLPTEKSVYT IIRAVHKYKD SREQFEQRTH KRLIDIVNPT PKTVDALMG LNLPSGVDIE IKL

UniProtKB: Small ribosomal subunit protein uS10

+
Macromolecule #41: Small ribosomal subunit protein uS11

MacromoleculeName: Small ribosomal subunit protein uS11 / type: protein_or_peptide / ID: 41 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 13.907978 KDa
SequenceString:
MARKQVSRKR RVKKNIENGV AHIRSTFNNT IVTITDEFGN ALSWSSAGAL GFKGSKKSTP FAAQMASETA SKSAMEHGLK TVEVTVKGP GPGRESAIRA LQSAGLEVTA IRDVTPVPHN GCRPPKRRRV

UniProtKB: Small ribosomal subunit protein uS11

+
Macromolecule #42: Small ribosomal subunit protein uS12

MacromoleculeName: Small ribosomal subunit protein uS12 / type: protein_or_peptide / ID: 42 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 16.813574 KDa
SequenceString:
MGLKSEERRT YHMPTINQLV RKPRQSKIKK SDSPALNKGF NSKKKKFTDL NSPQKRGVCT RVGTMTPKKP NSALRKYARV RLSNNIEIN AYIPGIGHNL QEHSVVLVRG GRVKDLPGVR YHIVRGALDT SGVDGRRQGR SLYGTKKPKN

UniProtKB: Small ribosomal subunit protein uS12

+
Macromolecule #43: Small ribosomal subunit protein uS13

MacromoleculeName: Small ribosomal subunit protein uS13 / type: protein_or_peptide / ID: 43 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 13.747919 KDa
SequenceString:
MARIAGVDIP REKRVVISLT YIYGIGTSTA QKILEEANVS ADTRVKDLTD DELGRIREVV DGYKVEGDLR RETNLNIKRL MEISSYRGI RHRRGLPVRG QKTKNNARTR KGPVKTVANK KK

UniProtKB: Small ribosomal subunit protein uS13

+
Macromolecule #44: Small ribosomal subunit protein uS14B

MacromoleculeName: Small ribosomal subunit protein uS14B / type: protein_or_peptide / ID: 44 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 7.317769 KDa
SequenceString:
MAKTSMVAKQ QKKQKYAVRE YTRCERCGRP HSVYRKFKLC RICFRELAYK GQIPGVRKAS W

UniProtKB: Small ribosomal subunit protein uS14B

+
Macromolecule #45: Small ribosomal subunit protein uS15

MacromoleculeName: Small ribosomal subunit protein uS15 / type: protein_or_peptide / ID: 45 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 10.63433 KDa
SequenceString:
MAISQERKNE IIKEYRVHET DTGSPEVQIA VLTAEINAVN EHLRTHKKDH HSRRGLLKMV GRRRHLLNYL RSKDIQRYRE LIKSLGIRR

UniProtKB: Small ribosomal subunit protein uS15

+
Macromolecule #46: Small ribosomal subunit protein bS16

MacromoleculeName: Small ribosomal subunit protein bS16 / type: protein_or_peptide / ID: 46 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 10.253886 KDa
SequenceString:
MAVKIRLTRL GSKRNPFYRI VVADARSPRD GRIIEQIGTY NPTSANAPEI KVDEALALKW LNDGAKPTDT VHNILSKEGI MKKFDEQKK AK

UniProtKB: Small ribosomal subunit protein bS16

+
Macromolecule #47: Small ribosomal subunit protein uS17

MacromoleculeName: Small ribosomal subunit protein uS17 / type: protein_or_peptide / ID: 47 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 10.196888 KDa
SequenceString:
MSERNDRKVY VGKVVSDKMD KTITVLVETY KTHKLYGKRV KYSKKYKTHD ENNSAKLGDI VKIQETRPLS ATKRFRLVEI VEESVII

UniProtKB: Small ribosomal subunit protein uS17

+
Macromolecule #48: Small ribosomal subunit protein bS18

MacromoleculeName: Small ribosomal subunit protein bS18 / type: protein_or_peptide / ID: 48 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 9.332018 KDa
SequenceString:
MAGGPRRGGR RRKKVCYFTA NGITHIDYKD TELLKRFISE RGKILPRRVT GTSAKYQRML TTAIKRSRHM ALLPYVKEEQ

UniProtKB: Small ribosomal subunit protein bS18

+
Macromolecule #49: Small ribosomal subunit protein uS19

MacromoleculeName: Small ribosomal subunit protein uS19 / type: protein_or_peptide / ID: 49 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 12.31934 KDa
SequenceString:
MCGLKLHAHN KKGGAQMARS IKKGPFVDEH LMKKVEAQEG SEKKQVIKTW SRRSTIFPNF IGHTFAVYDG RKHVPVYVTE DMVGHKLGE FAPTRTFKGH VADDKKTRR

UniProtKB: Small ribosomal subunit protein uS19

+
Macromolecule #50: Small ribosomal subunit protein bS20

MacromoleculeName: Small ribosomal subunit protein bS20 / type: protein_or_peptide / ID: 50 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Staphylococcus aureus (bacteria) / Strain: ATCC 29213
Molecular weightTheoretical: 9.039472 KDa
SequenceString:
MANIKSAIKR VKTTEKAEAR NISQKSAMRT AVKNAKTAVS NNADNKNELV SLAVKLVDKA AQSNLIHSNK ADRIKSQLMT ANK

UniProtKB: Small ribosomal subunit protein bS20

+
Macromolecule #51: 7-[4-[3-[[(1~{S},2~{R},5~{R},6~{S},7~{S},8~{R},9~{R},11~{R},13~{R...

MacromoleculeName: 7-[4-[3-[[(1~{S},2~{R},5~{R},6~{S},7~{S},8~{R},9~{R},11~{R},13~{R},14~{R})-8-[(2~{S},3~{R},4~{S},6~{R})-4-(dimethylamino)-6-methyl-3-oxidanyl-oxan-2-yl]oxy-2-ethyl-9-methoxy-1,5,7,9,11,13- ...Name: 7-[4-[3-[[(1~{S},2~{R},5~{R},6~{S},7~{S},8~{R},9~{R},11~{R},13~{R},14~{R})-8-[(2~{S},3~{R},4~{S},6~{R})-4-(dimethylamino)-6-methyl-3-oxidanyl-oxan-2-yl]oxy-2-ethyl-9-methoxy-1,5,7,9,11,13-hexamethyl-4,12,16-tris(oxidanylidene)-3,17-dioxa-15-azabicyclo[12.3.0]heptadecan-6-yl]oxycarbonylamino]propoxy]but-1-ynyl]-1-methyl-4-oxidanylidene-quinoline-3-carboxylic acid
type: ligand / ID: 51 / Number of copies: 1 / Formula: A1D6G
Molecular weightTheoretical: 969.124 Da

+
Macromolecule #52: MAGNESIUM ION

MacromoleculeName: MAGNESIUM ION / type: ligand / ID: 52 / Number of copies: 12 / Formula: MG
Molecular weightTheoretical: 24.305 Da

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE

-
Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.5 µm / Nominal defocus min: 0.5 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

+
Image processing

Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.6 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 27177
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: ANGULAR RECONSTITUTION
FSC plot (resolution estimation)

+
About Yorodumi

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbjlvh1.pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242)：Coronavirus Proteases

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary.
  • This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software).
  • Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

-
Yorodumi

Thousand views of thousand structures

  • Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
  • This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
  • The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.

Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

Read more