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- EMDB-13680: Cryo-EM structure of small subunit of Giardia lamblia ribosome at... -

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Basic information

Entry
Database: EMDB / ID: EMD-13680
TitleCryo-EM structure of small subunit of Giardia lamblia ribosome at 2.9 A resolution
Map data
Sample
  • Complex: Giardia lamblia small subunit
    • Protein or peptide: x 31 types
    • RNA: x 1 types
  • Ligand: x 2 types
Keywordsribosome / giardia / parasite
Function / homology
Function and homology information


endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / ribosomal small subunit biogenesis / small ribosomal subunit rRNA binding / ribosomal small subunit assembly / small ribosomal subunit / cytosolic small ribosomal subunit / rRNA binding ...endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / ribosomal small subunit biogenesis / small ribosomal subunit rRNA binding / ribosomal small subunit assembly / small ribosomal subunit / cytosolic small ribosomal subunit / rRNA binding / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / mRNA binding / nucleolus / RNA binding / zinc ion binding / nucleus / cytosol
Similarity search - Function
Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S26e / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S21e / Ribosomal protein S21e superfamily / Ribosomal protein S21e / Ribosomal protein S2, eukaryotic / 40S Ribosomal protein S10 / Plectin/S10, N-terminal ...Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S26e / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S21e / Ribosomal protein S21e superfamily / Ribosomal protein S21e / Ribosomal protein S2, eukaryotic / 40S Ribosomal protein S10 / Plectin/S10, N-terminal / Plectin/S10 domain / Ribosomal protein S25 / S25 ribosomal protein / Ribosomal protein S2, eukaryotic/archaeal / Ribosomal protein S30 / Ribosomal protein S30 / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal protein S19e / Ribosomal protein S19e / Ribosomal_S19e / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal protein S4e signature. / 40S ribosomal protein S4, C-terminal domain / 40S ribosomal protein S4 C-terminus / Ribosomal protein S19A/S15e / Ribosomal protein S17e / Ribosomal protein S17e-like superfamily / Ribosomal S17 / Ribosomal protein S6, eukaryotic / : / 40S ribosomal protein S1/3, eukaryotes / Ribosomal protein S4e, N-terminal / RS4NT (NUC023) domain / 40S ribosomal protein S11, N-terminal / Ribosomal_S17 N-terminal / Ribosomal protein S4, KOW domain / Ribosomal protein S4e / Ribosomal protein S4e, central region / Ribosomal protein S4e, central domain superfamily / Ribosomal family S4e / Ribosomal protein S6/S6e/A/B/2, conserved site / Ribosomal protein S6e signature. / Ribosomal protein S23, eukaryotic/archaeal / Ribosomal protein S24e / Ribosomal protein S24e / Ribosomal protein S27 / Ribosomal protein S27, zinc-binding domain superfamily / Ribosomal protein S27 / Ribosomal protein S8e / Ribosomal protein S17, archaeal/eukaryotic / Ribosomal protein S28e conserved site / Ribosomal protein S28e signature. / Ribosomal protein S3Ae / Ribosomal S3Ae family / Ribosomal S3Ae family / Ribosomal protein S28e / Ribosomal protein S28e / Ribosomal protein S6e / Ribosomal protein S5/S7, eukaryotic/archaeal / Ribosomal protein S6e / Ribosomal protein S6e / Ribosomal protein S13/S15, N-terminal / Ribosomal protein S15P / Ribosomal S13/S15 N-terminal domain / Ribosomal S13/S15 N-terminal domain / Ribosomal protein S4/S9, eukaryotic/archaeal / Ribosomal protein S8e/ribosomal biogenesis NSA2 / Ribosomal protein S8e / Ribosomal protein S14/S29 / Ribosomal protein S2 signature 2. / Ribosomal protein S2 signature 1. / Ribosomal protein S3, C-terminal / Ribosomal protein S3, C-terminal domain / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein S10 / Ribosomal protein S19/S15 / Ribosomal protein S19/S15, superfamily / Ribosomal protein S19 / Ribosomal protein S2, conserved site / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein S5 signature. / Ribosomal protein S2 / Ribosomal protein S2, flavodoxin-like domain superfamily / Ribosomal protein S2 / Ribosomal protein S5 / Ribosomal protein S17, conserved site / Ribosomal protein S17 signature. / S5 double stranded RNA-binding domain profile. / K homology domain superfamily, prokaryotic type / Ribosomal protein S5, N-terminal / Ribosomal protein S5, N-terminal domain / Ribosomal protein S5, C-terminal / Ribosomal protein S5, C-terminal domain / Ribosomal protein S13, conserved site / Ribosomal protein S13 signature. / Ribosomal protein S13 / 30s ribosomal protein S13, C-terminal / Ribosomal protein S13/S18 / Ribosomal protein S13 family profile.
Similarity search - Domain/homology
40S ribosomal protein S30 / Ribosomal protein S19e / 40S ribosomal protein S8 / 40S ribosomal protein S21 / Ribosomal protein S28 / Ribosomal protein S20 / Ribosomal protein S24 / 40S ribosomal protein S6 / Ribosomal protein S29A / 40S ribosomal protein S25 ...40S ribosomal protein S30 / Ribosomal protein S19e / 40S ribosomal protein S8 / 40S ribosomal protein S21 / Ribosomal protein S28 / Ribosomal protein S20 / Ribosomal protein S24 / 40S ribosomal protein S6 / Ribosomal protein S29A / 40S ribosomal protein S25 / 40S ribosomal protein S3 / Ribosomal protein S15 / Ribosomal protein S13 / Small ribosomal subunit protein uS2 / 40S ribosomal protein S4 / Ribosomal protein S27 / Ribosomal protein S16 / Ribosomal protein S9 / Ribosomal protein S2 / 40S ribosomal protein S26 / Ribosomal protein S17 / Ribosomal protein S10B / Small ribosomal subunit protein eS1 / Ribosomal protein S23 / Ribosomal protein S18 / Ribosomal protein S5 / Ribosomal protein S15A / Ribosomal protein S14 / SSU ribosomal protein S17P
Similarity search - Component
Biological speciesGiardia lamblia ATCC 50803 (eukaryote)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.85 Å
AuthorsHiregange DG / Rivalta A / Bose T / Breiner-Goldstein E / Samiya S / Cimicata G / Kulakova L / Zimmerman E / Bashan A / Herzberg O / Yonath A
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)AI119788 United States
CitationJournal: Nucleic Acids Res / Year: 2022
Title: Cryo-EM structure of the ancient eukaryotic ribosome from the human parasite Giardia lamblia.
Authors: Disha-Gajanan Hiregange / Andre Rivalta / Tanaya Bose / Elinor Breiner-Goldstein / Sarit Samiya / Giuseppe Cimicata / Liudmila Kulakova / Ella Zimmerman / Anat Bashan / Osnat Herzberg / Ada Yonath /
Abstract: Giardiasis is a disease caused by the protist Giardia lamblia. As no human vaccines have been approved so far against it, and resistance to current drugs is spreading, new strategies for combating ...Giardiasis is a disease caused by the protist Giardia lamblia. As no human vaccines have been approved so far against it, and resistance to current drugs is spreading, new strategies for combating giardiasis need to be developed. The G. lamblia ribosome may provide a promising therapeutic target due to its distinct sequence differences from ribosomes of most eukaryotes and prokaryotes. Here, we report the cryo-electron microscopy structure of the G. lamblia (WB strain) ribosome determined at 2.75 Å resolution. The ribosomal RNA is the shortest known among eukaryotes, and lacks nearly all the eukaryote-specific ribosomal RNA expansion segments. In contrast, the ribosomal proteins are typically eukaryotic with some species-specific insertions/extensions. Most typical inter-subunit bridges are maintained except for one missing contact site. Unique structural features are located mainly at the ribosome's periphery. These may be exploited as target sites for the design of new compounds that inhibit selectively the parasite's ribosomal activity.
History
DepositionOct 6, 2021-
Header (metadata) releaseMay 25, 2022-
Map releaseMay 25, 2022-
UpdateOct 16, 2024-
Current statusOct 16, 2024Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_13680.png

Downloads & links

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Map

FileDownload / File: emd_13680.map.gz / Format: CCP4 / Size: 325 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.85 Å/pix.
x 440 pix.
= 374. Å		0.85 Å/pix.
x 440 pix.
= 374. Å		0.85 Å/pix.
x 440 pix.
= 374. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.85 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.027
Minimum - Maximum-0.09472674 - 0.18585093
Average (Standard dev.)0.00016582714 (±0.003954274)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions440440440
Spacing440440440
CellA=B=C: 374.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Giardia lamblia small subunit

EntireName: Giardia lamblia small subunit
Components
  • Complex: Giardia lamblia small subunit
    • Protein or peptide: Ribosomal protein S29A
    • Protein or peptide: Ribosomal protein S19e
    • Protein or peptide: Ribosomal protein S13
    • Protein or peptide: Ribosomal protein S9
    • Protein or peptide: Ribosomal protein S3
    • Protein or peptide: Ribosomal protein S23
    • Protein or peptide: Ribosomal protein S18
    • Protein or peptide: Ribosomal protein S16
    • Protein or peptide: Ribosomal protein S2
    • Protein or peptide: 40S ribosomal protein SA
    • Protein or peptide: 40S ribosomal protein S3a
    • Protein or peptide: Ribosomal protein S24
    • Protein or peptide: Ribosomal protein S27
    • Protein or peptide: 40S ribosomal protein S26
    • Protein or peptide: 40S ribosomal protein S25
    • Protein or peptide: 40S ribosomal protein S21
    • Protein or peptide: Ribosomal protein S15
    • Protein or peptide: Ribosomal protein S17
    • Protein or peptide: Ribosomal protein S10B
    • Protein or peptide: 40S ribosomal protein S8
    • Protein or peptide: 40S ribosomal protein S30
    • Protein or peptide: Ribosomal protein eS7
    • Protein or peptide: Ribosomal protein eL41
    • Protein or peptide: Ribosomal protein S28
    • Protein or peptide: Ribosomal protein S14
    • Protein or peptide: Ribosomal protein S15A
    • Protein or peptide: 40S ribosomal protein S4
    • RNA: rRNA 18S
    • Protein or peptide: SSU ribosomal protein S17P
    • Protein or peptide: Ribosomal protein S20
    • Protein or peptide: 40S ribosomal protein S6
    • Protein or peptide: Ribosomal protein S5
  • Ligand: POTASSIUM ION
  • Ligand: MAGNESIUM ION

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Supramolecule #1: Giardia lamblia small subunit

SupramoleculeName: Giardia lamblia small subunit / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#32
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote)

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Macromolecule #1: Ribosomal protein S29A

MacromoleculeName: Ribosomal protein S29A / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 15.49978 KDa
SequenceString:
MRSALDTGVA ADRIGRPQTF AELRVDKVDD IGTQRHIEHL GPRKLRNLGS CGAEDLDSRV HPSTIFWPTE ADNINLASGV PKKGPSMRE TEFCTHIAHK RECRICGNYN SVYRKYGLFI CRRCFKENAG KIGFVKLH

UniProtKB: Ribosomal protein S29A

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Macromolecule #2: Ribosomal protein S19e

MacromoleculeName: Ribosomal protein S19e / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 15.46391 KDa
SequenceString:
MSSVTRVPAD VFINSFAAHL KNRGIIKCPA FTDYVKTGVS RQYAPRDADW FYIKAASVIR HFYISGSHSI GVAGLARKYS SLQKGKTTP HHTKRASCKV IRSIVSQFLG QKLLIAGERG RHISPNGRKM VEDFAEGLQK

UniProtKB: Ribosomal protein S19e

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Macromolecule #3: Ribosomal protein S13

MacromoleculeName: Ribosomal protein S13 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 17.627873 KDa
SequenceString:
MGRMHSKGKG ISRSAIPYTR APAPWNKYTP EDVCEQICKL AKKGTPPSRI GLILRDQFAI GQVKNVTGSK IVRILKAKGL APEIPEDLY CMIKKAVAIR KHLERSRRDK DSKFRLILVE SRIHRLARYY RQARRLPPTF RYKSDQAAAL LATYA

UniProtKB: Ribosomal protein S13

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Macromolecule #4: Ribosomal protein S9

MacromoleculeName: Ribosomal protein S9 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 21.699322 KDa
SequenceString:
MPRISRHRNS SKTYSTPKKP FTKPRLDAEL KLCGEYGLKC KREIYRARYM LAKIRRTARN LLTLDENDIK RRFEGAALLR RLHMLGILD EEKDQLDYVL GLRIEDIFKR RLQSVIVESK LAKSVHHARN MIKARHISVG GQIVNIPSYM VRISNTSRVA I ADTSSLAP NGKPGRTKRA AARRQSSGDN E

UniProtKB: Ribosomal protein S9

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Macromolecule #5: Ribosomal protein S3

MacromoleculeName: Ribosomal protein S3 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 24.779148 KDa
SequenceString: MPRIVRRDEE NVYYSKYLND CIMEAELHEF FSRELVDAGY ASCSLCRTID SICVIIQCAE PEVVMGDNHY RLHKIEYLLA GRFMCDPKN FNIWVDKIIK RGLSAEIMVD NLRAKLEEAM PIRRAAYSII RTAMRAGAAG CEVIVAGKLR AQRARANKFK E GCLISTGH ...String:
MPRIVRRDEE NVYYSKYLND CIMEAELHEF FSRELVDAGY ASCSLCRTID SICVIIQCAE PEVVMGDNHY RLHKIEYLLA GRFMCDPKN FNIWVDKIIK RGLSAEIMVD NLRAKLEEAM PIRRAAYSII RTAMRAGAAG CEVIVAGKLR AQRARANKFK E GCLISTGH PKRIFLAEAT RHIKMRQGVI GVKVRIYNPN IRGAVMPDKI EIGAFSRQK

UniProtKB: 40S ribosomal protein S3

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Macromolecule #6: Ribosomal protein S23

MacromoleculeName: Ribosomal protein S23 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 15.89784 KDa
SequenceString:
MSKTSGLYTA RKLRTVRRVN RWADKKYRKA HLGTWLKANP LEGACMARGI VTQKIGISAK QPNSAVRKAV RVQLTKNSKK ITAFVPRDG SITYIDNNDE VLVAGFGRAG RAVGDIPGCR FKVIKVAGIG LLALFLRKRE KRAR

UniProtKB: Ribosomal protein S23

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Macromolecule #7: Ribosomal protein S18

MacromoleculeName: Ribosomal protein S18 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 17.510338 KDa
SequenceString:
MTTIVQPNDY RDLLRMFNTN IQGKVVLECA LVGIKGIGRR FANVALKKAN IDVHKRAGEL TAAEEDALMK VLEDPLSHGI PAWMLNRNN DFESGKDMHI LVNTIASTHR ADLERLRKTR CERGVRHHHN LKVRGQHTKS TGRRGHVVGV QRKKK

UniProtKB: Ribosomal protein S18

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Macromolecule #8: Ribosomal protein S16

MacromoleculeName: Ribosomal protein S16 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 17.634584 KDa
SequenceString:
MAKGNRRDLL ERNDIEVRER DKYTVHTLGK KKNSVAVAFV KAGKGDILVN NVPLALVRPE ILRTKVSEPI MILGESLFKG LDMNIKVAG GGHVSQIYAV RQAISRGVLA SVKDEAARSE LRAKLVSYDR QLVVSDPRRC EAKKFGGRGA RARRQKSYR

UniProtKB: Ribosomal protein S16

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Macromolecule #9: Ribosomal protein S2

MacromoleculeName: Ribosomal protein S2 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 26.765695 KDa
SequenceString: MQAESAPRPE RPERGERGPR QMEEEEWHPS TKLGRLVKAG KIESLYDIFK YSLPIKETEI IDYFFPKSEL AEEVCNIMSV QKQTTAGQR TRFRAHVIVG NRDGFIGYGA GVSKEVANAI KKAAKNARLN IVPVRRGFWG GKLGDPHTVS SKLSGKCGSV R VRLIPAPR ...String:
MQAESAPRPE RPERGERGPR QMEEEEWHPS TKLGRLVKAG KIESLYDIFK YSLPIKETEI IDYFFPKSEL AEEVCNIMSV QKQTTAGQR TRFRAHVIVG NRDGFIGYGA GVSKEVANAI KKAAKNARLN IVPVRRGFWG GKLGDPHTVS SKLSGKCGSV R VRLIPAPR GAGIVASPTV AKVLEFAGVS DVFTRQSGHS RTLMNSVGAV YNALKSSYSI LTPDLWKKEQ LDHVQDIRTM SL AD

UniProtKB: Ribosomal protein S2

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Macromolecule #10: 40S ribosomal protein SA

MacromoleculeName: 40S ribosomal protein SA / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 28.101803 KDa
SequenceString: MSTEKTSQAS KEYQLKEADV KKMLVATTHL GVRNIDRRMQ FYIFDRQKDG TFVFNLQKVW AKIVFAARIL VTIDDPAEIA VVANRPDAQ RAILKFCKYT HATAFPGRFI PGNFTNRMNP NYCEPRLLLV NDPVVDRQAI LEASYVNIPT ISLCNSDANL K FIDVAIPC ...String:
MSTEKTSQAS KEYQLKEADV KKMLVATTHL GVRNIDRRMQ FYIFDRQKDG TFVFNLQKVW AKIVFAARIL VTIDDPAEIA VVANRPDAQ RAILKFCKYT HATAFPGRFI PGNFTNRMNP NYCEPRLLLV NDPVVDRQAI LEASYVNIPT ISLCNSDANL K FIDVAIPC NNKTPMSIGL IYWLLAREVL RLKGSISRTE EWDVKPDLFV ALPEEIPDEE ESEDFYDDDE EEDEEFSAGN GN LFDEY

UniProtKB: Small ribosomal subunit protein uS2

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Macromolecule #11: 40S ribosomal protein S3a

MacromoleculeName: 40S ribosomal protein S3a / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 28.413148 KDa
SequenceString: MAIGGNKTGK KKITQRKNPD PYLKKEWYPV IAPAHFKSRH IGQTPVTKTA GLRVATDVIN HRVYEVNLGD LNPGAEDLNG NTKFYLQTQ LVSDGKCLTN FHGMDITRHK YGSLFRKGCD CIDVFMDIPT TDGYLLRVFV IAFTDRFRFQ RRKNCHVKGR V IRMMRAGI ...String:
MAIGGNKTGK KKITQRKNPD PYLKKEWYPV IAPAHFKSRH IGQTPVTKTA GLRVATDVIN HRVYEVNLGD LNPGAEDLNG NTKFYLQTQ LVSDGKCLTN FHGMDITRHK YGSLFRKGCD CIDVFMDIPT TDGYLLRVFV IAFTDRFRFQ RRKNCHVKGR V IRMMRAGI YETLHNELGK VSIPVLVTKL SNFEVNAKLT EALQKITMCR DVMIRRVKVV KRPRNTMELL STMHDSNQVR NL AEGQSIQ Q

UniProtKB: Small ribosomal subunit protein eS1

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Macromolecule #12: Ribosomal protein S24

MacromoleculeName: Ribosomal protein S24 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 14.872646 KDa
SequenceString:
MPEITVKVRK VLNNPLLQRQ QCVVDVLHPG CTYESKEAIK AKVAQQLKVA DQKNIVLYGF KTSFGGGHTV GFCNAYQNMD ALMKYEPGF RKIRCGLIEA PKPVSRKQLK NLKNRRLKKR GTEKATVTLG AKK

UniProtKB: Ribosomal protein S24

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Macromolecule #13: Ribosomal protein S27

MacromoleculeName: Ribosomal protein S27 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 14.117312 KDa
SequenceString:
MTPFSRFGEH CQLNINHAVY TLKLQTNPNK FKFKSELRGA KVSMNVDLLY PDPVEEQRKH KLKRLVQGPN SYFLEIKCAG CQDIVVVYS HANTPVFCPG CTSQISIPTG GKCAFTSQVE RYRQK

UniProtKB: Ribosomal protein S27

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Macromolecule #14: 40S ribosomal protein S26

MacromoleculeName: 40S ribosomal protein S26 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 12.791023 KDa
SequenceString:
MPVKRRNNGR SKYNCGHTNI VRCQNCHRCV PKDKVIKRFT IRNIVDNTIA DDVLNACVIQ GFAIPKLYNK VQYCVSCSIH NHIVRVRSR EDRKIRTPPK RFPRNSSQKK

UniProtKB: 40S ribosomal protein S26

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Macromolecule #15: 40S ribosomal protein S25

MacromoleculeName: 40S ribosomal protein S25 / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 10.121098 KDa
SequenceString:
MSSKKWTKKA VKEKVDYPTL FADEAAMNEA LKFIKNSKCI THTQICERLR VSVALAKRVM RQLVKSGDFA IVSKSSRMTI FKNMTKKE

UniProtKB: 40S ribosomal protein S25

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Macromolecule #16: 40S ribosomal protein S21

MacromoleculeName: 40S ribosomal protein S21 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 9.686149 KDa
SequenceString:
MQSDDIGMKN SSGVVVDAYI PRKCSATNRL IGPKDHAAVQ LSVARVNDKG KMIENNYVTF AFCGAIRSRG GVDSAFMLLA QEHGLMERL

UniProtKB: 40S ribosomal protein S21

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Macromolecule #17: Ribosomal protein S15

MacromoleculeName: Ribosomal protein S15 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 16.728102 KDa
SequenceString:
MTDQVKTRRR GLAQPNFRGV EVEKLATMKI TDILPKLNAR CRRRIGKHGL SMKHLRFVNK LRLRRAAQPS QKPKIVRTHL RDMIIFPEM IGMTVSVYNG RQFIPVEIKP PMVGRALREY SMSYKIVSHG KVGIGATRSS KFVPLR

UniProtKB: Ribosomal protein S15

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Macromolecule #18: Ribosomal protein S17

MacromoleculeName: Ribosomal protein S17 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 15.757351 KDa
SequenceString:
MGKVRTKTIK RAARKIVENN YESLKPKDFQ NNKAICSKRN VAIIPSKRLR NKVAGYVTTL MNRVVKGPVH GISLRLQEEE RERRDNYAP KKSEFDVENI TVSGATQQMI DSIGFKCMST SLKVIDPTMR KRARDTRE

UniProtKB: Ribosomal protein S17

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Macromolecule #19: Ribosomal protein S10B

MacromoleculeName: Ribosomal protein S10B / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 15.406633 KDa
SequenceString:
MVHIPKAVYK AVYAHLYENA SLALKEYWRV GNVPGITYVD ENGKLCNPTY LHVNCIMQSL ESRGVVKDTF AWRHHYYLLT EKGEQFIRK ELDLTDDVLP TPYSKPSIKP PQYAQCFSSK GKPDRAPQPK PDEAK

UniProtKB: Ribosomal protein S10B

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Macromolecule #20: 40S ribosomal protein S8

MacromoleculeName: 40S ribosomal protein S8 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 19.451555 KDa
SequenceString:
MGITHDKMYK RSKTGAVQGK WHKKRKYNLG RQPANTKLIV KVTSKKNEGQ KISTIRCRGG NIKRRALRLS HGSFAWGSAD ISHKARILQ VVYNSTSNEL VRTNTLVKGC VVQIDSAPFK SALSNDTLDK EILDQIRGDH ILARISSRPG QVGTADGYIL E GPELLFYQ KKLAPK

UniProtKB: 40S ribosomal protein S8

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Macromolecule #21: 40S ribosomal protein S30

MacromoleculeName: 40S ribosomal protein S30 / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 7.932407 KDa
SequenceString:
MARAHGGLTS AGKVRKCTPK KEKKEKPRPP RGRAYKRLLY NKNFVDDTLI HNGRRLGPNN LLIRQKLGF

UniProtKB: 40S ribosomal protein S30

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Macromolecule #22: Ribosomal protein eS7

MacromoleculeName: Ribosomal protein eS7 / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote)
Molecular weightTheoretical: 21.786453 KDa
SequenceString:
MTFPAQRKIR KPFEKLSELE KQVAGTLLKL EDDPDLREMG LGTLYISSVK EIAVDGDKKA AVVYVPYPML QSFQKNSEAL ILKLEKNHS GHRFIIVANR TIMKNAYVFT GKKSIRRPRS RTMTSVYNCI LDDICYPIHV IGKRTLYPAG SNPRLQVVLP K AVYNEVSE RTKTYSAVYK ALTERDTEFI FM

+
Macromolecule #23: Ribosomal protein eL41

MacromoleculeName: Ribosomal protein eL41 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote)
Molecular weightTheoretical: 5.194272 KDa
SequenceString:
MNTEKPCTEE NFENEIMRAK WAKKRMRKLK RKRRHMKARS K

+
Macromolecule #24: Ribosomal protein S28

MacromoleculeName: Ribosomal protein S28 / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 7.358642 KDa
SequenceString:
MPEPINARVI EVLGRTSSRG GITQVKVEFM TGEKRQIIRN VIGPVRKDDI LVLMESEREA RRLR

UniProtKB: Ribosomal protein S28

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Macromolecule #25: Ribosomal protein S14

MacromoleculeName: Ribosomal protein S14 / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 15.755995 KDa
SequenceString:
MSRKVTYAPE NLPAKNNNSE AFAVCHIYAG KNDTFIHVTD LSGRETIGRV SGGMKVKRHC DEPSAYAAMQ ATQDLIEIIT DRGITAVHI KIRADGGTGK RVYGQGGSAA IRALVRGGIK IGRIEDSTPI PTDRTRHKGG RRGRRL

UniProtKB: Ribosomal protein S14

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Macromolecule #26: Ribosomal protein S15A

MacromoleculeName: Ribosomal protein S15A / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 14.770346 KDa
SequenceString:
MVRINVLRDA LKSICNAQRI GKKQVIVRPS SKVIIEFLQL MQKNGYISDF AVVDNHRSNR IVVNLIGRLN KAGVISPRFD IPANDIEKW VVNLLPSRLF GHIILTTSQG IMDHIEAQHR QIGGKVIGYF Y

UniProtKB: Ribosomal protein S15A

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Macromolecule #27: 40S ribosomal protein S4

MacromoleculeName: 40S ribosomal protein S4 / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 30.464781 KDa
SequenceString: MARGVRKHLK RLNAPKHWLL DKMGGIWAPR PTNGPHGLRE CIPLILILRN RLHYANTYAE TSMILQDKNV LIDGKPRTDP TFPVGFMDV FEIPKVHKTF RVLYDVKGRF TLVPIQSNEA GFKLCRVQKI FLGDKGMPYL STHDARTIRF PHPDIKTNDT I KINLKTGK ...String:
MARGVRKHLK RLNAPKHWLL DKMGGIWAPR PTNGPHGLRE CIPLILILRN RLHYANTYAE TSMILQDKNV LIDGKPRTDP TFPVGFMDV FEIPKVHKTF RVLYDVKGRF TLVPIQSNEA GFKLCRVQKI FLGDKGMPYL STHDARTIRF PHPDIKTNDT I KINLKTGK IDEWYKFDIG KIVMVTGGRN CGRIGTIQAI DKHMGSYTMI RMKDTEGTEF LTRLCNVFVI GNDSPAVAIP TT KGIRPDI IKNRELRLRS IAKRGGGASY E

UniProtKB: 40S ribosomal protein S4

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Macromolecule #29: SSU ribosomal protein S17P

MacromoleculeName: SSU ribosomal protein S17P / type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote)
Molecular weightTheoretical: 23.244973 KDa
SequenceString: MSATKDKPQD SATAKVNGRH PLRPDPDRER RALERAENLR KAAYEMAENQ HERAYHKQSQ IFQGRFLRKD NARCLRFYKS IGMGYHTPI TAINGTYIDK KCPFTGNVSI RGRILRGVVH SAKMQRSIIV RRDYLHFVQK YKRYERRHKH VAAHLSPCFR V KEGDIVTI ...String:
MSATKDKPQD SATAKVNGRH PLRPDPDRER RALERAENLR KAAYEMAENQ HERAYHKQSQ IFQGRFLRKD NARCLRFYKS IGMGYHTPI TAINGTYIDK KCPFTGNVSI RGRILRGVVH SAKMQRSIIV RRDYLHFVQK YKRYERRHKH VAAHLSPCFR V KEGDIVTI GECRPLSKTI RFNVIKVEPV SEAAKKRFSP F

UniProtKB: SSU ribosomal protein S17P

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Macromolecule #30: Ribosomal protein S20

MacromoleculeName: Ribosomal protein S20 / type: protein_or_peptide / ID: 30 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 14.073192 KDa
SequenceString:
MAESVSTGGV NLADHKDGKD MHQKYTIIVV GKDLKLVERY VKSIVKEGRA FGISGPCRAP VRRLTITTRK SPCGEGTNTW HRFELRMYK RTFWVTCGGN DISTILSKTV VIPGIQVTVE VEEPDNE

UniProtKB: Ribosomal protein S20

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Macromolecule #31: 40S ribosomal protein S6

MacromoleculeName: 40S ribosomal protein S6 / type: protein_or_peptide / ID: 31 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 28.084123 KDa
SequenceString: MPKGSFCKVN ISNPVTGANK SLMIEDFRKS QTIHGLRMAS EFDGAALGEE YAGCTFRITG GNDAQGFPMY QGVLKSQRAR LLLRQGAKC YLHRRNGERK RKSIRGCIVG PDLHALSVVL VDAGDKTLPG LTDVVVPKRL VPKRASKIRR LFGLPTTKVD P KDQMLVCE ...String:
MPKGSFCKVN ISNPVTGANK SLMIEDFRKS QTIHGLRMAS EFDGAALGEE YAGCTFRITG GNDAQGFPMY QGVLKSQRAR LLLRQGAKC YLHRRNGERK RKSIRGCIVG PDLHALSVVL VDAGDKTLPG LTDVVVPKRL VPKRASKIRR LFGLPTTKVD P KDQMLVCE LIKELGHEVT LKNGEKKLKY PKVQRVVTDE KYARKQRVIA EKKEIMRKSL QQLEEYKALL SRMGKQHNIR IY KPAKRTV E

UniProtKB: 40S ribosomal protein S6

+
Macromolecule #32: Ribosomal protein S5

MacromoleculeName: Ribosomal protein S5 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote) / Strain: ATCC 50803 / WB clone C6
Molecular weightTheoretical: 21.058275 KDa
SequenceString:
MSLEVALFNK WPLTDVKCQD ESLEAYISID NHSFVPHSAG RWSAKRFRKA KCPVVERLTN SLMMHGRNSG KKLMAMKTVG EAFELINLY TGKNPVQVLV DAVANSGPRE DSCRIGKGGQ VRRQSVDVSP LRRVNIGIYN IATGARKAAF RKVRPFAECL A EEIMNAAA GADKSYAISQ RNSVERIAVS NR

UniProtKB: Ribosomal protein S5

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Macromolecule #28: rRNA 18S

MacromoleculeName: rRNA 18S / type: rna / ID: 28 / Number of copies: 1
Source (natural)Organism: Giardia lamblia ATCC 50803 (eukaryote)
Molecular weightTheoretical: 471.124531 KDa
SequenceString: CAUCCGGUCG AUCCUGCCGG AGCGCGACGC UCUCCCCAAG GACGAAGCCA UGCAUGCCCG CUCACCCGGG ACGCGGCGGA CGGCUC(A2M)GG ACAACGGUUG CACC(OMC)CCCGU GGCGGUCCCU GCUAGCCGGA CACCGCUGGC AACCCGGCGC CAA GACGUG ...String:
CAUCCGGUCG AUCCUGCCGG AGCGCGACGC UCUCCCCAAG GACGAAGCCA UGCAUGCCCG CUCACCCGGG ACGCGGCGGA CGGCUC(A2M)GG ACAACGGUUG CACC(OMC)CCCGU GGCGGUCCCU GCUAGCCGGA CACCGCUGGC AACCCGGCGC CAA GACGUG CGCGCAAGGG CGGGCGCCCG CGGGCGAGCA GCGUGACGCA GCGACGGCCC GCCCGGGCUU CCGGGGCAUC ACCC GGUCG GCGCGGUCGC GGCGCGCCGA GGGCCCGACG CCUGGCGGAG AAUCAGGGUU CGACUCCGGA GAGCGGGCCU GCGAG ACGG CCCGCACAUC CAAGGACGGC AGCAGGCGCG G(A2M)ACUUGCCC AAUGCGCGGC GCGC(OMG)GCGGC GCGACGGG G UGCGCGCGAG UCAGGCGGGC CCACCCCGAC CGCCGCGGAG CGCCAGGGCA AGGUCUGGUG CCAGCAGCCG CGGUAAUUC CAGCUCGGCG AGCGUCGCGC GGCGCUGCUG CAGUUGAAAC GCCCGUAGUU GGCCCCCCGC CGCCACGAGG AAACGGGAGC GCUCCAGGC AGGCCCGUUG GACCCGCCGC GUGGGACCGC GCAGCGGGCC CGGCGCGCCG CGGCAGCCCC GAGGAGAGCG G GCGGGGGC ACCGGUACCG GCCGGGGACG GGUGAAACAG GAUGAUCCCG CCGAGACCGC CGGCCGCGCA GGCGCCUGCC AA GACCGCC UCUGUCAAUC AAGGGCGAAG GCCGGGGGCU AGAAGGCGAU CAGACACCAC CGUAUUCCCG GCCGUAAACG GUG CCGCCC CGCGGCCGGC GCGCGCGUCC CGCCGGCCGC CCAGGGAAAC CGGGAGGCUC CGGGCUCUGG GGGGAGUAUG GCCG CAA(OMG)G CUGAAACUUG AAGGCAUUGA CGGAGGGGUA CCACCAGACG UGGAGUCUGC GGCUCAAUCU GAC(C4J)CAA CG CGCGCACCUC ACCAGGCCCG GACGCGCGGA GGACCGACAG CCGGGCGCGC UUUCGCGAUC GCGCGGGCGG UG(OMG)U GCAUG GCCGCUCCCA GCCCGUG(OMG)CG CGAGCCGUCU GCUCCAUUGC GACAACGAGC GAGACCCCGG CCGCGGGCGC C GCGGGACG GCCCGCGCGA GCGGGAGGAC GGCGGGGCGA UAGCAGGUCU GUGAUGCCCU CAGACGCCCU GGGCCGCACG CG CGCUACA CUGGCGGGGC CAGCCGGCGC CCGCGAGGAC GCGCGGAGCC CCCGCCGUGG CCGGGACCGC GGGCUGGAAC GCC CCCGCG CACCAG(7MG)AAU GUCUUGUAGG CGCCCGCCCC CACCGCGCGC CGGACGCGUC CCUGCCCCU(OMU) GUACAC ACC G(4OC)CCGUCGCU CCUACCGACU GGGCGCUGCG GCGAGCGCCC CGGACGCGGG AAGGGCCGCG AGCCCC(M7A)GC GCCUGGAGGA AGGAGAAGUC GUAACAAGGU AUC(4AC)GUAGGU G(MA6)(MA6)CCUGCGG AUGGAUCCCU

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Macromolecule #33: POTASSIUM ION

MacromoleculeName: POTASSIUM ION / type: ligand / ID: 33 / Number of copies: 266 / Formula: K
Molecular weightTheoretical: 39.098 Da

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Macromolecule #34: MAGNESIUM ION

MacromoleculeName: MAGNESIUM ION / type: ligand / ID: 34 / Number of copies: 37 / Formula: MG
Molecular weightTheoretical: 24.305 Da

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

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 1.0 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

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Image processing

Startup modelType of model: INSILICO MODEL
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.85 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.1) / Number images used: 91058
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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