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- EMDB-21034: Cryo-EM structure of the Acinetobacter baumannii Ribosome: 30S subunit -

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Basic information

Entry
Database: EMDB / ID: EMD-21034
TitleCryo-EM structure of the Acinetobacter baumannii Ribosome: 30S subunit
Map data30S composite map created with two separate masked refinements (30S head and 30S core).
Sample
  • Complex: Acinetobacter baumannii Small ribosomal subunit
    • RNA: x 1 types
    • Protein or peptide: x 19 types
Function / homology
Function and homology information


small ribosomal subunit / tRNA binding / rRNA binding / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / mRNA binding / cytoplasm
Similarity search - Function
Ribosomal protein S14, bacterial/plastid / Ribosomal protein S16, conserved site / Ribosomal protein S16 signature. / Ribosomal protein S3, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein S19, bacterial-type / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein S11, bacterial-type / Ribosomal protein S13, bacterial-type ...Ribosomal protein S14, bacterial/plastid / Ribosomal protein S16, conserved site / Ribosomal protein S16 signature. / Ribosomal protein S3, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein S19, bacterial-type / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein S11, bacterial-type / Ribosomal protein S13, bacterial-type / 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 S6, plastid/chloroplast / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein S18, conserved site / Ribosomal protein S18 signature. / Ribosomal protein S16 / Ribosomal protein S16 / Ribosomal protein S16 domain superfamily / Ribosomal protein S15, bacterial-type / Ribosomal protein S2 signature 2. / Ribosomal protein S6 / Ribosomal protein S6 / Ribosomal protein S6 superfamily / Ribosomal protein S12, bacterial-type / Translation elongation factor EF1B/ribosomal protein S6 / Ribosomal protein S18 / Ribosomal protein S18 / Ribosomal protein S18 superfamily / K Homology domain / K homology RNA-binding domain / Ribosomal protein S3, conserved site / Ribosomal protein S14, conserved site / Ribosomal protein S10, conserved site / : / K Homology domain, type 2 / Ribosomal protein S3, C-terminal / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein S15/S19, conserved site / KH domain / Ribosomal protein S19/S15 / Ribosomal protein S19/S15, superfamily / Ribosomal protein S10 / Ribosomal protein S3, C-terminal domain / Ribosomal protein S3 signature. / Ribosomal protein S10 signature. / Ribosomal protein S14 signature. / Ribosomal protein S7, conserved site / K homology domain superfamily, prokaryotic type / Ribosomal protein S17, conserved site / Ribosomal protein S19 / Ribosomal protein S2 signature 1. / Ribosomal protein S2, conserved site / Ribosomal protein S13, conserved site / Ribosomal protein S2 / Ribosomal protein S2, flavodoxin-like domain superfamily / Ribosomal protein S13 / 30s ribosomal protein S13, C-terminal / Ribosomal protein S2 / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein S14 / Ribosomal protein S4/S9, N-terminal / Ribosomal protein S4, conserved site / Type-2 KH domain profile. / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein S13/S18 / Ribosomal protein S4/S9 / Ribosomal protein S19 signature. / K homology domain-like, alpha/beta / Ribosomal protein S14p/S29e / Ribosomal protein S8 / Ribosomal protein S8 superfamily / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein S5 signature. / Ribosomal protein S5 / Ribosomal protein S5, N-terminal / Ribosomal protein S7 signature. / Ribosomal protein S10p/S20e / S5 double stranded RNA-binding domain profile. / Ribosomal protein S5, C-terminal / Ribosomal protein S9, conserved site / Ribosomal protein S5, N-terminal domain / Ribosomal protein S8 / Ribosomal protein S10 domain / Ribosomal protein S10 domain superfamily / Ribosomal protein S13-like, H2TH / Ribosomal protein S17 signature. / Ribosomal protein S5, C-terminal domain / S4 RNA-binding domain / RNA-binding S4 domain / Ribosomal protein S13 signature. / Ribosomal protein S5/S7 / Ribosomal protein S7 domain / Ribosomal protein S7 domain superfamily / RNA-binding S4 domain superfamily
Similarity search - Domain/homology
Small ribosomal subunit protein uS11 / Small ribosomal subunit protein bS18 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS13 ...Small ribosomal subunit protein uS11 / Small ribosomal subunit protein bS18 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein uS19 / Small ribosomal subunit protein bS6 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS9 / Small ribosomal subunit protein uS2
Similarity search - Component
Biological speciesAcinetobacter baumannii AB0057 (bacteria) / Acinetobacter baumannii (bacteria) / Acinetobacter baumannii (strain AB0057) (bacteria) / Acinetobacter sp. ANC 5600 (bacteria) / Acinetobacter sp. 263903-1 (bacteria) / Acinetobacter venetianus (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.4 Å
AuthorsMorgan CE / Yu EW
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI) United States
CitationJournal: mBio / Year: 2020
Title: Cryo-electron Microscopy Structure of the Acinetobacter baumannii 70S Ribosome and Implications for New Antibiotic Development.
Authors: Christopher E Morgan / Wei Huang / Susan D Rudin / Derek J Taylor / James E Kirby / Robert A Bonomo / Edward W Yu /
Abstract: Antimicrobial resistance is a major health threat as it limits treatment options for infection. At the forefront of this serious issue is , a Gram-negative opportunistic pathogen that exhibits the ...Antimicrobial resistance is a major health threat as it limits treatment options for infection. At the forefront of this serious issue is , a Gram-negative opportunistic pathogen that exhibits the remarkable ability to resist antibiotics through multiple mechanisms. As bacterial ribosomes represent a target for multiple distinct classes of existing antimicrobial agents, we here use single-particle cryo-electron microscopy (cryo-EM) to elucidate five different structural states of the ribosome, including the 70S, 50S, and 30S forms. We also determined interparticle motions of the 70S ribosome in different tRNA bound states using three-dimensional (3D) variability analysis. Together, our structural data further our understanding of the ribosome from and other Gram-negative pathogens and will enable structure-based drug discovery to combat antibiotic-resistant bacterial infections. is a severe nosocomial threat largely due to its intrinsic antibiotic resistance and remarkable ability to acquire new resistance determinants. The bacterial ribosome serves as a major target for modern antibiotics and the design of new therapeutics. Here, we present cryo-EM structures of the 70S ribosome, revealing several unique species-specific structural features that may facilitate future drug development to combat this recalcitrant bacterial pathogen.
History
DepositionNov 25, 2019-
Header (metadata) releaseJan 1, 2020-
Map releaseFeb 5, 2020-
UpdateFeb 5, 2020-
Current statusFeb 5, 2020Processing site: RCSB / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.25
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 0.25
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-6v3e
  • Surface level: 0.25
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_21034.png

Downloads & links

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Map

FileDownload / File: emd_21034.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation30S composite map created with two separate masked refinements (30S head and 30S core).
Voxel sizeX=Y=Z: 1.064 Å
Density
Contour LevelBy AUTHOR: 0.25 / Movie #1: 0.25
Minimum - Maximum-0.32376146 - 1.7774217
Average (Standard dev.)0.0023092674 (±0.032587904)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 544.768 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.0641.0641.064
M x/y/z512512512
origin x/y/z0.0000.0000.000
length x/y/z544.768544.768544.768
α/β/γ90.00090.00090.000
start NX/NY/NZ29921935
NX/NY/NZ271234450
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS512512512
D min/max/mean-0.3241.7770.002

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Supplemental data

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Sample components

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Entire : Acinetobacter baumannii Small ribosomal subunit

EntireName: Acinetobacter baumannii Small ribosomal subunit
Components
  • Complex: Acinetobacter baumannii Small ribosomal subunit
    • RNA: 16s Ribosomal RNA
    • Protein or peptide: 30S ribosomal protein S2
    • Protein or peptide: 30S ribosomal protein S3
    • Protein or peptide: 30S ribosomal protein S4
    • Protein or peptide: 30S ribosomal protein S5
    • Protein or peptide: 30S ribosomal protein S6
    • Protein or peptide: 30S ribosomal protein S7
    • Protein or peptide: 30S ribosomal protein S8
    • Protein or peptide: 30S ribosomal protein S9
    • Protein or peptide: 30S ribosomal protein S10
    • Protein or peptide: 30S ribosomal protein S11
    • Protein or peptide: 30S ribosomal protein S12
    • Protein or peptide: 30S ribosomal protein S13
    • Protein or peptide: 30S ribosomal protein S14
    • Protein or peptide: 30S ribosomal protein S15
    • Protein or peptide: 30S ribosomal protein S16
    • Protein or peptide: 30S ribosomal protein S17
    • Protein or peptide: 30S ribosomal protein S18
    • Protein or peptide: 30S ribosomal protein S19
    • Protein or peptide: 30S ribosomal protein S20

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Supramolecule #1: Acinetobacter baumannii Small ribosomal subunit

SupramoleculeName: Acinetobacter baumannii Small ribosomal subunit / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Acinetobacter baumannii AB0057 (bacteria)
Molecular weightTheoretical: 2.3 MDa

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Macromolecule #1: 16s Ribosomal RNA

MacromoleculeName: 16s Ribosomal RNA / type: rna / ID: 1 / Number of copies: 1
Source (natural)Organism: Acinetobacter baumannii (bacteria)
Molecular weightTheoretical: 500.297531 KDa
SequenceString: UUUAACUGAA GAGUUUGAUC AUGGCUCAGA UUGAACGCUG GCGGCAGGCU UAACACAUGC AAGUCGAGCG GGGGAAGGUA GCUUGCUAC CGGACCUAGC GGCGGACGGG UGAGUAAUGC UUAGGAAUCU GCCUAUUAGU GGGGGACAAC AUCUCGAAAG G GAUGCUAA ...String:
UUUAACUGAA GAGUUUGAUC AUGGCUCAGA UUGAACGCUG GCGGCAGGCU UAACACAUGC AAGUCGAGCG GGGGAAGGUA GCUUGCUAC CGGACCUAGC GGCGGACGGG UGAGUAAUGC UUAGGAAUCU GCCUAUUAGU GGGGGACAAC AUCUCGAAAG G GAUGCUAA UACCGCAUAC GUCCUACGGG AGAAAGCAGG GGAUCUUCGG ACCUUGCGCU AAUAGAUGAG CCUAAGUCGG AU UAGCUAG UUGGUGGGGU AAAGGCCUAC CAAGGCGACG AUCUGUAGCG GGUCUGAGAG GAUGAUCCGC CACACUGGGA CUG AGACAC GGCCCAGACU CCUACGGGAG GCAGCAGUGG GGAAUAUUGG ACAAUGGGGG GAACCCUGAU CCAGCCAUGC CGCG UGUGU GAAGAAGGCC UUAUGGUUGU AAAGCACUUU AAGCGAGGAG GAGGCUACUC UAGUUAAUAC CUAGGGAUAG UGGAC GUUA CUCGCAGAAU AAGCACCGGC UAACUCUG(PSU)G CCAGCAGCC(7MG) CGGUAAUACA GAGGGUGCGA GCGUUAAU C GGAUUUACUG GGCGUAAAGC GUGCGUAGGC GGCUUAUUAA GUCGGAUGUG AAAUCCCCGA GCUUAACUUG GGAAUUGCA UUCGAUACUG GUGAGCUAGA GUAUGGGAGA GGAUGGUAGA AUUCCAGGUG UAGCGGUGAA AUGCGUAGAG AUCUGGAGGA AUACCGAUG GCGAAGGCAG CCAUCUGGCC UAAUACUGAC GCUGAGGUAC GAAAGCAUGG GGAGCAAACA GGAUUAGAUA C CCUGGUAG UCCAUGCCGU AAACGAUGUC UACUAGCCGU UGGGGCCUUU GAGGCUUUAG UGGCGCAGCU AACGCGAUAA GU AGACCGC CUGGGGAGUA CGGUCGCAAG ACUAAAACUC AAAUGAAUUG ACGGGGGCCC GCACAAGCGG UGGAGCAUGU GGU UUAAUU CGAU(2MG)(5MC)AACG CGAAGAACCU UACCUGGCCU UGACAUACUA GAAACUUUCC AGAGAUGGAU UGGUGC CUU CGGGAAUCUA GAUACAGGUG CUGCAUGGCU GUCGUCAGCU CGUGUCGUGA GAUGUUGGGU UAAGUCCCGC AACGAGC GC AACCCUUUUC CUUACUUGCC AGCAUUUCGG AUGGGAACUU UAAGGAUACU GCCAGUGACA AACUGGAGGA AGGCGGGG A CGACGUCAAG UCAUCAUG(2MG)C CCUUACGGCC AGGGCUACAC ACGUGCUACA AUGGUCGGUA CAAAGGGUUG CUACA CAGC GAUGUGAUGC UAAUCUCAAA AAGCCGAUCG UAGUCCGGAU UGGAGUCUGC AACUCGACUC CAUGAAGUCG GAAUCG CUA GUAAUCGCGG AUCAGAAUGC CGCGGUGAAU ACGUUCCCGG GCCUUGUACA CACCG(4OC)CCGU CACACCAUGG GAG UUUGUU GCACCAGAAG UAGCUAGCCU AACUGCAAAG AGGGCGGUUA CCACGGUGUG GCCGAUGACU GGGGUGAAGU CG (UR3)AACAAG GUAGCCGUAG GGG(MA6)(MA6)CCUGC GGCUGGAUCA CCUCCUUAAC GAA

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Macromolecule #2: 30S ribosomal protein S2

MacromoleculeName: 30S ribosomal protein S2 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (bacteria)
Molecular weightTheoretical: 27.680357 KDa
SequenceString: MADYNVSMRD LLQAGAHFGH QTRFWNPKMR QYIFGARNKI HIINLEHTVP ALNDALNFAN QLASKKNKVL FVGTKRAASN IIREQAQRA GQPYVDHRWL GGMLTNWKTL RQSINRLKDL QTQSQDGTFA KLTKREALER TREMEKLERS LGGVKNMGGL P DALFVIDV ...String:
MADYNVSMRD LLQAGAHFGH QTRFWNPKMR QYIFGARNKI HIINLEHTVP ALNDALNFAN QLASKKNKVL FVGTKRAASN IIREQAQRA GQPYVDHRWL GGMLTNWKTL RQSINRLKDL QTQSQDGTFA KLTKREALER TREMEKLERS LGGVKNMGGL P DALFVIDV DHEAIAIKEA KNLGIPVIGI VDTNSNPDNV DYVIPGNDDA IRAVTLYASA MADAILAGKE YAQSQANAQA KG DDAAKDA SEA

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Macromolecule #3: 30S ribosomal protein S3

MacromoleculeName: 30S ribosomal protein S3 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (bacteria)
Molecular weightTheoretical: 27.972461 KDa
SequenceString: MGQKVHPIGI RLGVVKRHNA NWYANPKQYA EYLLKDLQVR EFLTKKLKNA MVSNILIERP SGAAKVTIST ARPGIVIGKK GEDIEKLQR ELTNIMGVPA QVSINEIDRP DLDARLVAEA IASQLEKRVM FRRAMKRAVQ NTMRAGAKGI KVEVSGRLGG A EIARTEWY ...String:
MGQKVHPIGI RLGVVKRHNA NWYANPKQYA EYLLKDLQVR EFLTKKLKNA MVSNILIERP SGAAKVTIST ARPGIVIGKK GEDIEKLQR ELTNIMGVPA QVSINEIDRP DLDARLVAEA IASQLEKRVM FRRAMKRAVQ NTMRAGAKGI KVEVSGRLGG A EIARTEWY REGRVPLHTL RADIDYATMR AETTYGTIGV KVWIFRGEIL GGMKQVMNPA PAEERPAKRG RGRGEGQERR GR RGDRAAD KGE

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Macromolecule #4: 30S ribosomal protein S4

MacromoleculeName: 30S ribosomal protein S4 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 23.311818 KDa
SequenceString: MARYIGPKCK LSRREGTDLQ LKSGVKPFDV KTKKANKAPG QHGQARGGKQ SEYSLQLREK QKVRRIYGVL ERQFSNYYKE AARVKGATG ENLLKLLESR LDNVVYRMGF GSTRAEARQL VSHRSITLNG RRVNIASIQV KAGDVIAVHE GAKQQLRIKN A IELAAQRG ...String:
MARYIGPKCK LSRREGTDLQ LKSGVKPFDV KTKKANKAPG QHGQARGGKQ SEYSLQLREK QKVRRIYGVL ERQFSNYYKE AARVKGATG ENLLKLLESR LDNVVYRMGF GSTRAEARQL VSHRSITLNG RRVNIASIQV KAGDVIAVHE GAKQQLRIKN A IELAAQRG IPAWIEVDHS KLEGTFKAAP DRSDLPAEIN ESLIVELYSK

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Macromolecule #5: 30S ribosomal protein S5

MacromoleculeName: 30S ribosomal protein S5 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 17.181766 KDa
SequenceString:
MAKVEQNEGL VEKLVAVDRV AKVVKGGRIF SFTALTVVGD GNGRVGFGRG KAREVPAAIS KALEAARRNM ITVDLAGTTL QHPVNARHG ASRVYMQPAS EGTGVIAGGA MRAVLEAAGV HNVLAKCYGS TNAANVVNAT FKGLRDMTSP EKVAAKRGKS V EEIQG

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Macromolecule #6: 30S ribosomal protein S6

MacromoleculeName: 30S ribosomal protein S6 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 14.986952 KDa
SequenceString:
MRHYEIVLLV HPDQSDQVVG MVERYISQIK EADGQIHRLE DWGRRQLAYP INKIHKAHYI LMNVECGQST LDELEELFRY NDAIIRNLI IRREHAITEE SLLAKSAEEK RARKAQREEA QQVAQEAE

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Macromolecule #7: 30S ribosomal protein S7

MacromoleculeName: 30S ribosomal protein S7 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 17.733699 KDa
SequenceString:
MPRRRVVAAR EILPDPKFSS QTIAKFMNHV MQDGKKSIAE SIVYGALERV QEKNKVDPVE FFETTLEKVR PMVEVKARRV GGATYQVPM EVRPSRRTAL AMRWLVDAAA KRSEKTMALR LAGELLDAAE GKGAAIKKRE DVHRMAEANK AFSHYRF

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Macromolecule #8: 30S ribosomal protein S8

MacromoleculeName: 30S ribosomal protein S8 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 14.250667 KDa
SequenceString:
MSMQDTVADM LTRVRNAQMA KKQTVSMPSS KLKVAIANVL QQEGYISNVE VAQEETKSTL TITLKYFEGK PVIEMVKRVS RPGLRQYRG KDKLPSVKQG LGIAIVSTSK GIMTDRAARA AGIGGEVIAF VS

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Macromolecule #9: 30S ribosomal protein S9

MacromoleculeName: 30S ribosomal protein S9 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (bacteria)
Molecular weightTheoretical: 14.28761 KDa
SequenceString:
MATNYGTGRR KTATARVFLS AGTGKLVINN RTLEQYFGRE TARMVVRQPL ELLEATEKYD LYITVKGGGI GGQAGAIRHG ITRALIAAD ETLKPVLRQA GFVTRDAREV ERKKLGLRKA RKRPQFSKR

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Macromolecule #10: 30S ribosomal protein S10

MacromoleculeName: 30S ribosomal protein S10 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter sp. ANC 5600 (bacteria)
Molecular weightTheoretical: 11.718531 KDa
SequenceString:
MSNQRIRIRL KSFDHRLIDQ SAQEIVETAK RTGAQVCGPI PMPTRIERFN VLTSPHVNKD ARDQYEIRTY KRLIDIVQPT DKTVDALMK LDLAAGVDVQ IALG

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Macromolecule #11: 30S ribosomal protein S11

MacromoleculeName: 30S ribosomal protein S11 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter sp. 263903-1 (bacteria)
Molecular weightTheoretical: 13.558512 KDa
SequenceString:
MAKDTRTRKK VTRTVSEGVA HIHASFNNTI VTITDRQGNA LAWATSGGQG FRGSRKSTPF AAQVAAEVAG KAALDYGLKN LDVLVKGPG PGRESAVRAL GAVGYKINSI TDVTPIPHNG CRPPKKRRV

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Macromolecule #12: 30S ribosomal protein S12

MacromoleculeName: 30S ribosomal protein S12 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 13.797134 KDa
SequenceString:
MATTNQLIRK GRTTLVEKSK VPALKACPQR RGVCTRVYTT TPKKPNSAMR KVCRVRLTSG FEVSSYIGGE GHNLQEHSVV LIRGGRVKD LPGVRYHTVR GSLDCAGVKD RNQSRSKYGA KRPKK

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Macromolecule #13: 30S ribosomal protein S13

MacromoleculeName: 30S ribosomal protein S13 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 13.295635 KDa
SequenceString:
MARIAGVNIP DNKHAVISLT YIFGIGRHTA KNILAAVGIT ETTKIRELDD AQLDAIRAEV AKVPTEGDLR REISMNIKRL MDLGCYRGL RHRRSLPVRG QRTKTNARTR KGPRKPIKK

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Macromolecule #14: 30S ribosomal protein S14

MacromoleculeName: 30S ribosomal protein S14 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 11.438427 KDa
SequenceString:
MAKKGMINRE LKREKTVAKY AAKRAELKAT IANVNASDEE RFEAMLKLQA LPRNASPVRL RNRCGLTGRP HGYFRKFGLS RNKLRDTVM QGDVPGVVKA SW

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Macromolecule #15: 30S ribosomal protein S15

MacromoleculeName: 30S ribosomal protein S15 / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 10.1456 KDa
SequenceString:
MALTNADRAE IIAKFARAEN DTGSPEVQVA LLTAQINDLQ GHFKAHKHDH HSRRGLIRMV NQRRKLLDYL NGKDHERYTA LIGALGLRR

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Macromolecule #16: 30S ribosomal protein S16

MacromoleculeName: 30S ribosomal protein S16 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (bacteria)
Molecular weightTheoretical: 11.22306 KDa
SequenceString:
MLPMVGAGII RKNYKAFIMV VIRLARGGAK KRPFYQIVVT DSRNARDGRF IERIGFFNPT AQGQAEKLRL DADRFAHWVS QGAQPSERV ASLAAQAKKA TA

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Macromolecule #17: 30S ribosomal protein S17

MacromoleculeName: 30S ribosomal protein S17 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 9.543101 KDa
SequenceString:
MSEKTVRTLT GKVVSDKMDK SIVVLIERRV QHPLYGKSIR RSTKLHAHDE NNVAKIGDVV TIKESRPISK TKAWTLVEVV EAAAE

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Macromolecule #18: 30S ribosomal protein S18

MacromoleculeName: 30S ribosomal protein S18 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter venetianus (bacteria)
Molecular weightTheoretical: 9.009452 KDa
SequenceString:
MARFYRRRKF CRFTAENVAY IDYKDIDTLK QYITENGKIV PSRITGTKAR YQRQLALAIK QARYLSLIPY TDNHK

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Macromolecule #19: 30S ribosomal protein S19

MacromoleculeName: 30S ribosomal protein S19 / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 10.206957 KDa
SequenceString:
MPRSLKKGPF VDAHLFAKVE AAVASNSRKP IKTWSRRSMI LPDFVGLTIS VHNGRNHVPV IVTEHMVGHK LGEFAPTRTY RGHGVDKKS KR

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Macromolecule #20: 30S ribosomal protein S20

MacromoleculeName: 30S ribosomal protein S20 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Acinetobacter baumannii (strain AB0057) (bacteria)
Strain: AB0057
Molecular weightTheoretical: 9.72342 KDa
SequenceString:
MANSAQAKKR ARQNVKARKH NASLRSMVRT YIKRTLSAIA GGDYAVATEA YKKAVPVIDR MADKGIIHKN KAARHKSRLN AQVKALAN

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.6
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 40.0 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: cryoSPARC
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC
Final 3D classificationSoftware - Name: RELION / Software - details: Focused classification
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC
Final reconstructionResolution.type: BY AUTHOR / Resolution: 4.4 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 10555

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Atomic model buiding 1

Initial modelPDB ID:

5afi

Output model

PDB-6v3e:
Cryo-EM structure of the Acinetobacter baumannii Ribosome: 30S subunit

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