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- EMDB-6923: M. smegmatis P/P state 30S ribosomal subunit -

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Basic information

Entry
Database: EMDB / ID: EMD-6923
TitleM. smegmatis P/P state 30S ribosomal subunit
Map data30S masked map of translating-state ribosome of M. smegmatis
Sample
  • Complex: Translating-state 30S ribosome structure from M.smegmatis
    • Complex: 30S ribosome
      • RNA: x 1 types
      • Protein or peptide: x 20 types
    • Complex: P-tRNAfMet
      • RNA: x 1 types
Function / homology
Function and homology information


small ribosomal subunit / tRNA binding / rRNA binding / ribosome / structural constituent of ribosome / ribonucleoprotein complex / translation / mRNA binding / zinc ion binding / cytoplasm
Similarity search - Function
Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial domain of unknown function (DUF1713) / Ribosomal protein S14, type Z / Ribosomal protein S16, conserved site / Ribosomal protein S16 signature. / Ribosomal protein S14/S29 / Ribosomal protein S3, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. ...Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial domain of unknown function (DUF1713) / Ribosomal protein S14, type Z / Ribosomal protein S16, conserved site / Ribosomal protein S16 signature. / Ribosomal protein S14/S29 / 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 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 / Ribosomal protein S17, conserved site / K homology domain superfamily, prokaryotic type / Ribosomal protein S19 / Ribosomal protein S2 signature 1. / Ribosomal protein S13, conserved site / Ribosomal protein S2, conserved site / Ribosomal protein S13 / 30s ribosomal protein S13, C-terminal / Ribosomal protein S2 / Ribosomal protein S2, flavodoxin-like domain superfamily / 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 S11, conserved site / Ribosomal protein S7 signature. / Ribosomal protein S10p/S20e / Ribosomal protein S13-like, H2TH / 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 S17 signature. / Ribosomal protein S5, C-terminal domain / S4 RNA-binding domain / Ribosomal protein S11 / RNA-binding S4 domain
Similarity search - Domain/homology
30S ribosomal protein S6 / Conserved domain protein / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS19 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein uS14B / Small ribosomal subunit protein uS8 ...30S ribosomal protein S6 / Conserved domain protein / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS19 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein uS14B / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS9 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein uS2 / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein bS18B
Similarity search - Component
Biological speciesMycobacterium smegmatis str. MC2 155 (bacteria) / Escherichia coli (E. coli) / Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.7 Å
AuthorsMishra S / Ahmed T / Tyagi A / Shi J / Bhushan S
Funding support Singapore, 1 items
OrganizationGrant numberCountry
Ministry of Education (Singapore) Singapore
CitationJournal: Sci Rep / Year: 2018
Title: Structures of Mycobacterium smegmatis 70S ribosomes in complex with HPF, tmRNA, and P-tRNA.
Authors: Satabdi Mishra / Tofayel Ahmed / Anu Tyagi / Jian Shi / Shashi Bhushan /
Abstract: Ribosomes are the dynamic protein synthesis machineries of the cell. They may exist in different functional states in the cell. Therefore, it is essential to have structural information on these ...Ribosomes are the dynamic protein synthesis machineries of the cell. They may exist in different functional states in the cell. Therefore, it is essential to have structural information on these different functional states of ribosomes to understand their mechanism of action. Here, we present single particle cryo-EM reconstructions of the Mycobacterium smegmatis 70S ribosomes in the hibernating state (with HPF), trans-translating state (with tmRNA), and the P/P state (with P-tRNA) resolved to 4.1, 12.5, and 3.4 Å, respectively. A comparison of the P/P state with the hibernating state provides possible functional insights about the Mycobacteria-specific helix H54a rRNA segment. Interestingly, densities for all the four OB domains of bS1 protein is visible in the hibernating 70S ribosome displaying the molecular details of bS1-70S interactions. Our structural data shows a Mycobacteria-specific H54a-bS1 interaction which seems to prevent subunit dissociation and degradation during hibernation without the formation of 100S dimer. This indicates a new role of bS1 protein in 70S protection during hibernation in Mycobacteria in addition to its conserved function during translation initiation.
History
DepositionFeb 28, 2018-
Header (metadata) releaseSep 26, 2018-
Map releaseSep 26, 2018-
UpdateNov 6, 2019-
Current statusNov 6, 2019Processing site: PDBj / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.05
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 0.05
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-5zeu
  • Surface level: 0.06
  • Imaged by UCSF Chimera
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  • Simplified surface model + fitted atomic model
  • Atomic modelsPDB-5zeu
  • Imaged by Jmol
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_6923.png

Downloads & links

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Map

FileDownload / File: emd_6923.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation30S masked map of translating-state ribosome of M. smegmatis
Voxel sizeX=Y=Z: 1.05 Å
Density
Contour LevelBy AUTHOR: 0.05 / Movie #1: 0.05
Minimum - Maximum-0.38313174 - 0.6431281
Average (Standard dev.)0.0016057834 (±0.015320822)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions400400400
Spacing400400400
CellA=B=C: 419.99997 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.051.051.05
M x/y/z400400400
origin x/y/z0.0000.0000.000
length x/y/z420.000420.000420.000
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS400400400
D min/max/mean-0.3830.6430.002

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Supplemental data

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Sample components

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Entire : Translating-state 30S ribosome structure from M.smegmatis

EntireName: Translating-state 30S ribosome structure from M.smegmatis
Components
  • Complex: Translating-state 30S ribosome structure from M.smegmatis
    • Complex: 30S ribosome
      • RNA: 16S rRNA
      • Protein or peptide: 30S ribosomal protein S3
      • Protein or peptide: 30S ribosomal protein S5
      • 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 S15
      • Protein or peptide: 30S ribosomal protein S17
      • Protein or peptide: 30S ribosomal protein S18 2Ribosome
      • Protein or peptide: 30S ribosomal protein S19
      • Protein or peptide: 30S ribosomal protein S20
      • Protein or peptide: 30S ribosomal protein S14 type ZRibosome
      • Protein or peptide: 30S ribosomal protein S2
      • Protein or peptide: 30S ribosomal protein S4
      • Protein or peptide: 30S ribosomal protein S6
      • Protein or peptide: 30S ribosomal protein S13
      • Protein or peptide: 30S ribosomal protein S16
      • Protein or peptide: Conserved domain proteinProtein domain
    • Complex: P-tRNAfMet
      • RNA: P-tRNAfMet

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Supramolecule #1: Translating-state 30S ribosome structure from M.smegmatis

SupramoleculeName: Translating-state 30S ribosome structure from M.smegmatis
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#22

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Supramolecule #2: 30S ribosome

SupramoleculeName: 30S ribosome / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #1-#14, #16-#22
Source (natural)Organism: Mycobacterium smegmatis str. MC2 155 (bacteria) / Location in cell: cytoplasm

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Supramolecule #3: P-tRNAfMet

SupramoleculeName: P-tRNAfMet / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #15
Source (natural)Organism: Escherichia coli (E. coli)

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Macromolecule #1: 16S rRNA

MacromoleculeName: 16S rRNA / type: rna / ID: 1 / Number of copies: 1
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 495.373656 KDa
SequenceString: UUUUUGUUUG GAGAGUUUGA UCCUGGCUCA GGACGAACGC UGGCGGCGUG CUUAACACAU GCAAGUCGAA CGGAAAGGCC CUUUCGGGG GUACUCGAGU GGCGAACGGG UGAGUAACAC GUGGGUGAUC UGCCCUGCAC UUUGGGAUAA GCCUGGGAAA C UGGGUCUA ...String:
UUUUUGUUUG GAGAGUUUGA UCCUGGCUCA GGACGAACGC UGGCGGCGUG CUUAACACAU GCAAGUCGAA CGGAAAGGCC CUUUCGGGG GUACUCGAGU GGCGAACGGG UGAGUAACAC GUGGGUGAUC UGCCCUGCAC UUUGGGAUAA GCCUGGGAAA C UGGGUCUA AUACCGAAUA CACCCUGCUG GUCGCAUGGC CUGGUAGGGG AAAGCUUUUG CGGUGUGGGA UGGGCCCGCG GC CUAUCAG CUUGUUGGUG GGGUGAUGGC CUACCAAGGC GACGACGGGU AGCCGGCCUG AGAGGGUGAC CGGCCACACU GGG ACUGAG AUACGGCCCA GACUCCUACG GGAGGCAGCA GUGGGGAAUA UUGCACAAUG GGCGCAAGCC UGAUGCAGCG ACGC CGCGU GAGGGAUGAC GGCCUUCGGG UUGUAAACCU CUUUCAGCAC AGACGAAGCG CAAGUGACGG UAUGUGCAGA AGAAG GACC GGCCAACUAC GUGCCAGCAG CCGCGGUAAU ACGUAGGGUC CGAGCGUUGU CCGGAAUUAC UGGGCGUAAA GAGCUC GUA GGUGGUUUGU CGCGUUGUUC GUGAAAACUC ACAGCUUAAC UGUGGGCGUG CGGGCGAUAC GGGCAGACUA GAGUACU GC AGGGGAGACU GGAAUUCCUG GUGUAGCGGU GGAAUGCGCA GAUAUCAGGA GGAACACCGG UGGCGAAGGC GGGUCUCU G GGCAGUAACU GACGCUGAGG AGCGAAAGCG UGGGGAGCGA ACAGGAUUAG AUACCCUGGU AGUCCACGCC GUAAACGGU GGGUACUAGG UGUGGGUUUC CUUCCUUGGG AUCCGUGCCG UAGCUAACGC AUUAAGUACC CCGCCUGGGG AGUACGGCCG CAAGGCUAA AACUCAAAGG AAUUGACGGG GGCCCGCACA AGCGGCGGAG CAUGUGGAUU AAUUCGAUGC AACGCGAAGA A CCUUACCU GGGUUUGACA UGCACAGGAC GCCGGCAGAG AUGUCGGUUC CCUUGUGGCC UGUGUGCAGG UGGUGCAUGG CU GUCGUCA GCUCGUGUCG UGAGAUGUUG GGUUAAGUCC CGCAACGAGC GCAACCCUUG UCUCAUGUUG CCAGCACGUU AUG GUGGGG ACUCGUGAGA GACUGCCGGG GUCAACUCGG AGGAAGGUGG GGAUGACGUC AAGUCAUCAU GCCCCUUAUG UCCA GGGCU UCACACAUGC UACAAUGGCC GGUACAAAGG GCUGCGAUGC CGUGAGGUGG AGCGAAUCCU UUCAAAGCCG GUCUC AGUU CGGAUCGGGG UCUGCAACUC GACCCCGUGA AGUCGGAGUC GCUAGUAAUC GCAGAUCAGC AACGCUGCGG UGAAUA CGU UCCCGGGCCU UGUACACACC GCCCGUCACG UCAUGAAAGU CGGUAACACC CGAAGCCGGU GGCCUAACCC UUGUGGA GG GAGCCGUCGA AGGUGGGAUC GGCGAUUGGG ACGAAGUCGU AACAAGGUAG CCGUACCGGA AGGUGCGGCU GGAUCACC U CCUUUCU

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Macromolecule #15: P-tRNAfMet

MacromoleculeName: P-tRNAfMet / type: rna / ID: 15 / Number of copies: 1
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 24.786785 KDa
SequenceString:
CGCGGGGUGG AGCAGCCUGG UAGCUCGUCG GGCUCAUAAC CCGAAGAUCG UCGGUUCAAA UCCGGCCCCC GCAACCA

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Macromolecule #2: 30S ribosomal protein S3

MacromoleculeName: 30S ribosomal protein S3 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 30.191227 KDa
SequenceString: MGQKINPHGF RLGITTEWKS RWYADKQYKD YVKEDVAIRK LLATGLERAG IADVEIERTR DRVRVDIHTA RPGIVIGRRG TEADRIRAD LEKLTGKQVQ LNILEVKNPE SQAQLVAQGV AEQLSNRVAF RRAMRKAIQS AMRQPNVKGI RVQCSGRLGG A EMSRSEFY ...String:
MGQKINPHGF RLGITTEWKS RWYADKQYKD YVKEDVAIRK LLATGLERAG IADVEIERTR DRVRVDIHTA RPGIVIGRRG TEADRIRAD LEKLTGKQVQ LNILEVKNPE SQAQLVAQGV AEQLSNRVAF RRAMRKAIQS AMRQPNVKGI RVQCSGRLGG A EMSRSEFY REGRVPLHTL RADIDYGLYE AKTTFGRIGV KVWIYKGDIV GGKRELAAAA PASDRPRRER PSGTRPRRSG SA GTTATST EAGRAATSDA PAAGTAAAAE APAESTES

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Macromolecule #3: 30S ribosomal protein S5

MacromoleculeName: 30S ribosomal protein S5 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 21.94609 KDa
SequenceString: MAEQAGAGSA QDNRGGRGRR DDRGGRGRDG GDKSNYIERV VSINRVSKVV KGGRRFSFTA LVIVGDGKGM VGVGYGKAKE VPAAIAKGV EEARKNFFRV PLIGSTITHP VQGEAAAGVV MLRPASPGTG VIAGGAARAV LECAGVHDIL AKSLGSDNAI N VVHATVAA ...String:
MAEQAGAGSA QDNRGGRGRR DDRGGRGRDG GDKSNYIERV VSINRVSKVV KGGRRFSFTA LVIVGDGKGM VGVGYGKAKE VPAAIAKGV EEARKNFFRV PLIGSTITHP VQGEAAAGVV MLRPASPGTG VIAGGAARAV LECAGVHDIL AKSLGSDNAI N VVHATVAA LKLLQRPEEV AARRGLPIED VAPAGMLKAR RESEALAAAA AREGSA

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Macromolecule #4: 30S ribosomal protein S7

MacromoleculeName: 30S ribosomal protein S7 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 17.660375 KDa
SequenceString:
MPRKGPAPKR PLVNDPVYGS QLVTQLVNKV LLEGKKSLAE RIVYGALEQA REKTGTDPVV TLKRALDNVK PALEVRSRRV GGATYQVPV EVRPDRSTTL ALRWLVNFSR QRREKTMVER LANEILDASN GLGASVKRRE DTHKMAEANR AFAHYRW

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Macromolecule #5: 30S ribosomal protein S8

MacromoleculeName: 30S ribosomal protein S8 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 14.492638 KDa
SequenceString:
MTMTDPIADF LTRLRNANSA YHDEVTLPHS KLKANIAEIL KREGYISDYR TEDARVGKSL VVQLKYGPSR ERSIAGLRRV SKPGLRVYA KSTNLPRVLG GLGVAIISTS SGLLTDRQAA RQGVGGEVLA YVW

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Macromolecule #6: 30S ribosomal protein S9

MacromoleculeName: 30S ribosomal protein S9 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 16.794365 KDa
SequenceString:
MTDVTETEVV TESAEPREPV IIDRPIQTVG RRKEAVVRVR LVPGTGQFNL DGRTLENYFP NKVHQQLIKA PLVTVDRVDQ FDIYAHLDG GGPSGQAGAL RLAIARALIL VQPEDRPALK KAGFLTRDPR AIERKKYGLK KARKAPQYSK R

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Macromolecule #7: 30S ribosomal protein S10

MacromoleculeName: 30S ribosomal protein S10 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 11.454313 KDa
SequenceString:
MAGQKIRIRL KAYDHEAIDA SARKIVETVT RTGASVVGPV PLPTEKNVYC VIRSPHKYKD SREHFEMRTH KRLIDILDPT PKTVDALMR IDLPASVDVN IQ

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Macromolecule #8: 30S ribosomal protein S11

MacromoleculeName: 30S ribosomal protein S11 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 14.671762 KDa
SequenceString:
MAQAKKGGTA AKKGQKTRRR EKKNVPHGAA HIKSTFNNTI VSITDPQGNV IAWASSGHVG FKGSRKSTPF AAQLAAENAA RKAQEHGVK KVDVFVKGPG SGRETAIRSL QAAGLEVGTI SDVTPQPHNG CRPPKRRRV

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Macromolecule #9: 30S ribosomal protein S12

MacromoleculeName: 30S ribosomal protein S12 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 13.896366 KDa
SequenceString:
MPTIQQLVRK GRRDKIAKVK TAALKGSPQR RGVCTRVYTT TPKKPNSALR KVARVKLTSQ VEVTAYIPGE GHNLQEHSMV LVRGGRVKD LPGVRYKIIR GSLDTQGVKN RKQARSRYGA KKEKS

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Macromolecule #10: 30S ribosomal protein S15

MacromoleculeName: 30S ribosomal protein S15 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 10.368097 KDa
SequenceString:
MALTAEQKKE ILGQYGLHDT DTGSPEAQVA LLTKRIQDLT EHLKVHKHDH HSRRGLLLLV GRRRRLLKYV AQVDVARYRS LIERLGLRR

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Macromolecule #11: 30S ribosomal protein S17

MacromoleculeName: 30S ribosomal protein S17 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 11.127002 KDa
SequenceString:
MADQKGPKYT PAAEKPRGRR KTAIGYVVSD KMQKTIVVEL EDRKSHPLYG KIIRTTKKVK AHDENGEAGI GDRVSLMETR PLSATKRWR LVEILEKAK

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Macromolecule #12: 30S ribosomal protein S18 2

MacromoleculeName: 30S ribosomal protein S18 2 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 9.524188 KDa
SequenceString:
MAKSNKRRPA PEKPVKTRKC VFCSKKGQTI DYKDTALLRT YISERGKIRA RRVTGNCVQH QRDIAVAVKN AREVALLPFG SSTR

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Macromolecule #13: 30S ribosomal protein S19

MacromoleculeName: 30S ribosomal protein S19 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 10.800602 KDa
SequenceString:
MPRSLKKGPF VDDHLLKKVD VQNEKNTKQV IKTWSRRSTI IPDFIGHTFA VHDGRKHVPV FVTEAMVGHK LGEFAPTRTF KGHIKDDRK SKRR

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Macromolecule #14: 30S ribosomal protein S20

MacromoleculeName: 30S ribosomal protein S20 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 9.556104 KDa
SequenceString:
MANIKSQIKR IRTNERRRLR NQSVKSSLRT AIRGFREAVD AGDKDKASEL LHATSRKLDK AASKGVIHPN QAANKKSALA LALNKL

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Macromolecule #16: 30S ribosomal protein S14 type Z

MacromoleculeName: 30S ribosomal protein S14 type Z / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 6.976409 KDa
SequenceString:
MAKKALVHKA NKKPKFAVRA YTRCNKCGRP HSVYRKFGLC RICLREMAHA GELPGVQKSS W

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Macromolecule #17: 30S ribosomal protein S2

MacromoleculeName: 30S ribosomal protein S2 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 30.14523 KDa
SequenceString: MAVVTMKQLL DSGAHFGHQT RRWNPKMKRF IFTDRNGIYI IDLQQTLTYI DKAYEFVKET VAHGGTVLFV GTKKQAQESI AEEATRVGM PYVNQRWLGG MLTNFSTVHK RLQRLKELEA MEQTGGFEGR TKKEILMLTR EKNKLERSLG GIRDMQKVPS A VWVVDTNK ...String:
MAVVTMKQLL DSGAHFGHQT RRWNPKMKRF IFTDRNGIYI IDLQQTLTYI DKAYEFVKET VAHGGTVLFV GTKKQAQESI AEEATRVGM PYVNQRWLGG MLTNFSTVHK RLQRLKELEA MEQTGGFEGR TKKEILMLTR EKNKLERSLG GIRDMQKVPS A VWVVDTNK EHIAVGEARK LGIPVIAILD TNCDPDVVDY PIPGNDDAIR SAALLTKVIA SAVAEGLQAR AGQGSGEKPA EG AEPLAEW EQELLAGATA GAADASAEGA AAPESSTDAS

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Macromolecule #18: 30S ribosomal protein S4

MacromoleculeName: 30S ribosomal protein S4 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 23.415787 KDa
SequenceString: MARYTGPATR KSRRLGVDLV GGDQSFEKRP YPPGQHGRAR IKESEYRQQL QEKQKARFSY GVMEKQFRRY YEEANRQPGK TGDNLLRIL ESRLDNVVYR AGLARTRRMA RQLVSHGHFL VNGVKVDIPS YRVSQYDIID VKEKSLNTLP FQIARETAGE R PIPSWLQV ...String:
MARYTGPATR KSRRLGVDLV GGDQSFEKRP YPPGQHGRAR IKESEYRQQL QEKQKARFSY GVMEKQFRRY YEEANRQPGK TGDNLLRIL ESRLDNVVYR AGLARTRRMA RQLVSHGHFL VNGVKVDIPS YRVSQYDIID VKEKSLNTLP FQIARETAGE R PIPSWLQV VGERQRILVH QLPERAQIDV PLTEQLIVEL YSK

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Macromolecule #19: 30S ribosomal protein S6

MacromoleculeName: 30S ribosomal protein S6 / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 10.991637 KDa
SequenceString:
MRPYEIMVIL DPTLDERTVA PSLETFLNVI RKDGGTVDKV DIWGRRRLAY EIAKHAEGIY AVIDVKAEPA TVSELDRQLN LNESVLRTK VLRTDKH

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Macromolecule #20: 30S ribosomal protein S13

MacromoleculeName: 30S ribosomal protein S13 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 14.249619 KDa
SequenceString:
MARLVGVDLP RDKRMEIALT YIYGIGRTRS NEILAATGID KNMRTKDLTD DQVTVLRDYI EGNLKVEGDL RREVQADIRR KIEIGCYQG LRHRRGLPVR GQRTKTNART RKGPKRTIAG KKKAR

+
Macromolecule #21: 30S ribosomal protein S16

MacromoleculeName: 30S ribosomal protein S16 / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 16.795207 KDa
SequenceString:
MAVKIKLTRL GKIRNPQYRI IVADARTRRD GRAIEVIGRY HPKEEPSLIQ IDSERAQYWL GVGAQPTEPV LALLKITGDW QKFKGLPGA EGTLKVKEPK PSKLDLFNAA LAEAESGTTA AATTPKKKKA PKKDEAAEAP AEAAEAPAEA ADAASES

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Macromolecule #22: Conserved domain protein

MacromoleculeName: Conserved domain protein / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) (bacteria)
Strain: ATCC 700084 / mc(2)155
Molecular weightTheoretical: 4.1643 KDa
SequenceString:
MGSVIKKRRK RMSKKKHRKL LRRTRVQRRK LGK

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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: 7.5
GridMaterial: COPPER
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm
Image recordingFilm or detector model: FEI FALCON II (4k x 4k) / Average electron dose: 1.5 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 391837

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