[English] 日本語
Yorodumi
- EMDB-32799: Cryo-EM structure of a human pre-40S ribosomal subunit - State UTP14 -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: EMDB / ID: EMD-32799
TitleCryo-EM structure of a human pre-40S ribosomal subunit - State UTP14
Map data
Sample
  • Complex: Yeast pre-40S ribosomal subunit
    • RNA: x 1 types
    • Protein or peptide: x 22 types
Keywordsribosome biogenesis / 40S ribosome / RIBOSOME
Function / homology
Function and homology information


18S rRNA (adenine1779-N6/adenine1780-N6)-dimethyltransferase / 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity / peptidyl-glutamine methylation / tRNA (m2G10) methyltransferase complex / rRNA (guanine-N7)-methylation / tRNA methyltransferase activator activity / rRNA (guanine) methyltransferase activity / rRNA (adenine-N6,N6-)-dimethyltransferase activity / tRNA modification in the nucleus and cytosol / endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) ...18S rRNA (adenine1779-N6/adenine1780-N6)-dimethyltransferase / 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity / peptidyl-glutamine methylation / tRNA (m2G10) methyltransferase complex / rRNA (guanine-N7)-methylation / tRNA methyltransferase activator activity / rRNA (guanine) methyltransferase activity / rRNA (adenine-N6,N6-)-dimethyltransferase activity / tRNA modification in the nucleus and cytosol / endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / Methylation / protein methyltransferase activity / tRNA methylation / positive regulation of rRNA processing / rRNA methylation / negative regulation of RNA splicing / positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator / neural crest cell differentiation / U3 snoRNA binding / negative regulation of bicellular tight junction assembly / rRNA modification in the nucleus and cytosol / Formation of the ternary complex, and subsequently, the 43S complex / erythrocyte homeostasis / preribosome, small subunit precursor / negative regulation of ubiquitin protein ligase activity / Ribosomal scanning and start codon recognition / Translation initiation complex formation / Protein hydroxylation / TOR signaling / SARS-CoV-1 modulates host translation machinery / mTORC1-mediated signalling / cellular response to ethanol / Peptide chain elongation / Selenocysteine synthesis / Formation of a pool of free 40S subunits / Eukaryotic Translation Termination / ubiquitin ligase inhibitor activity / Response of EIF2AK4 (GCN2) to amino acid deficiency / negative regulation of ubiquitin-dependent protein catabolic process / SRP-dependent cotranslational protein targeting to membrane / Viral mRNA Translation / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / 90S preribosome / GTP hydrolysis and joining of the 60S ribosomal subunit / L13a-mediated translational silencing of Ceruloplasmin expression / Major pathway of rRNA processing in the nucleolus and cytosol / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / maturation of LSU-rRNA / Nuclear events stimulated by ALK signaling in cancer / rough endoplasmic reticulum / translation regulator activity / positive regulation of cell cycle / translation initiation factor binding / Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal / Mitotic Prometaphase / cytosolic ribosome / EML4 and NUDC in mitotic spindle formation / stress granule assembly / transcription initiation-coupled chromatin remodeling / Resolution of Sister Chromatid Cohesion / Transferases; Transferring one-carbon groups; Methyltransferases / positive regulation of translation / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / innate immune response in mucosa / erythrocyte differentiation / mRNA 3'-UTR binding / methyltransferase activity / maturation of SSU-rRNA / neural tube closure / translational initiation / small-subunit processome / modification-dependent protein catabolic process / RHO GTPases Activate Formins / protein tag activity / Regulation of expression of SLITs and ROBOs / response to insulin / maintenance of translational fidelity / GABA-ergic synapse / mRNA 5'-UTR binding / response to virus / cytoplasmic ribonucleoprotein granule / Separation of Sister Chromatids / rRNA processing / antimicrobial humoral immune response mediated by antimicrobial peptide / antibacterial humoral response / glucose homeostasis / presynapse / chromatin organization / cell body / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / SARS-CoV-2 modulates host translation machinery / nuclear membrane / cytoplasmic translation / cell differentiation / protein ubiquitination / defense response to Gram-positive bacterium
Similarity search - Function
Ribosome biogenesis protein Slx9-like / Ribosome biogenesis protein SLX9 / Uncharacterised domain NUC173 / : / Ribosomal RNA-processing protein 12, HEAT repeats / 18S rRNA (guanine(1575)-N(7))-methyltransferase Bud23, C-terminal / 18S rRNA (guanine(1575)-N(7))-methyltransferase Bud23-like / Methyltransferase involved in Williams-Beuren syndrome / Multifunctional methyltransferase subunit Trm112 / Trm112-like ...Ribosome biogenesis protein Slx9-like / Ribosome biogenesis protein SLX9 / Uncharacterised domain NUC173 / : / Ribosomal RNA-processing protein 12, HEAT repeats / 18S rRNA (guanine(1575)-N(7))-methyltransferase Bud23, C-terminal / 18S rRNA (guanine(1575)-N(7))-methyltransferase Bud23-like / Methyltransferase involved in Williams-Beuren syndrome / Multifunctional methyltransferase subunit Trm112 / Trm112-like / Trm112p-like protein / Tsr1, G-like domain / Methyltransferase type 11 / Small-subunit processome, Utp14 / Utp14 protein / Methyltransferase domain / Ribosomal RNA adenine dimethylase / Ribosomal RNA adenine methylase transferase, conserved site / Ribosomal RNA adenine dimethylases signature. / : / : / Eukaryotic type KH-domain (KH-domain type I) (327.11.2) / Ribosomal RNA adenine methylase transferase, N-terminal / Ribosomal RNA adenine dimethylases / Ribosome biogenesis protein BMS1/TSR1, C-terminal / AARP2CN / Bms1/Tsr1-type G domain / Ribosome biogenesis protein Bms1/Tsr1 / 40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal / AARP2CN (NUC121) domain / Bms1-type guanine nucleotide-binding (G) domain profile. / AARP2CN (NUC121) domain / Protein of unknown function (DUF663) / Ribosomal RNA adenine methyltransferase KsgA/Erm / Ribosomal RNA adenine dimethylase / rRNA adenine N(6)-methyltransferase family profile. / K Homology domain, type 1 superfamily / Ubiquitin-like protein FUBI / : / Ribosomal protein S7e signature. / Ribosomal protein S8e subdomain, eukaryotes / Ribosomal protein S3Ae, conserved site / Ribosomal protein S3Ae signature. / Ribosomal protein S30 / Ribosomal protein S30 / Ribosomal protein S27e signature. / 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 S8e, conserved site / Ribosomal protein S8e signature. / Ribosomal protein S6, eukaryotic / Ribosomal protein S7e / Ribosomal protein S7e / 40S ribosomal protein S1/3, eukaryotes / 40S ribosomal protein S11, N-terminal / Ribosomal_S17 N-terminal / : / Ribosomal S24e conserved site / Ribosomal protein S24e signature. / Ribosomal protein S4e, N-terminal / RS4NT (NUC023) domain / Ribosomal protein S4, KOW domain / Ribosomal protein S4e / Ribosomal protein S4e, central region / Ribosomal protein S4e, central domain superfamily / Ribosomal family S4e / Ribosomal protein S23, eukaryotic/archaeal / Ribosomal protein S6/S6e/A/B/2, conserved site / Ribosomal protein S6e signature. / Ribosomal protein S24e / Ribosomal protein S24e / Ribosomal protein S27 / Ribosomal protein S27, zinc-binding domain superfamily / Ribosomal protein S27 / Ribosomal protein S17, archaeal/eukaryotic / Ribosomal protein S8e / Ribosomal protein S3Ae / Ribosomal S3Ae family / Ribosomal S3Ae family / Ribosomal protein S6e / 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 / Ubiquitin domain / Ubiquitin domain signature. / Ubiquitin conserved site / K Homology domain / K homology RNA-binding domain / Armadillo-like helical / Ubiquitin family / Ubiquitin homologues / Ubiquitin domain profile.
Similarity search - Domain/homology
18S rRNA (guanine-N(7))-methyltransferase / Small ribosomal subunit protein eS27 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein eS1 / Small ribosomal subunit protein eS7 / Small ribosomal subunit protein eS8 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS15 ...18S rRNA (guanine-N(7))-methyltransferase / Small ribosomal subunit protein eS27 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein eS1 / Small ribosomal subunit protein eS7 / Small ribosomal subunit protein eS8 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein eS4, X isoform / Small ribosomal subunit protein eS6 / Small ribosomal subunit protein eS24 / Ubiquitin-like FUBI-ribosomal protein eS30 fusion protein / Pre-rRNA-processing protein TSR1 homolog / RRP12-like protein / U3 small nucleolar RNA-associated protein 14 homolog A / RNA-binding protein PNO1 / Ribosome biogenesis protein SLX9 homolog / Multifunctional methyltransferase subunit TRM112-like protein / Dimethyladenosine transferase
Similarity search - Component
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.2 Å
AuthorsCheng J / Lau B / Thoms M / Ameismeier M / Berninghausen O / Hurt E / Beckmann R
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: Nucleic Acids Res / Year: 2022
Title: The nucleoplasmic phase of pre-40S formation prior to nuclear export.
Authors: Jingdong Cheng / Benjamin Lau / Matthias Thoms / Michael Ameismeier / Otto Berninghausen / Ed Hurt / Roland Beckmann /
Abstract: Biogenesis of the small ribosomal subunit in eukaryotes starts in the nucleolus with the formation of a 90S precursor and ends in the cytoplasm. Here, we elucidate the enigmatic structural ...Biogenesis of the small ribosomal subunit in eukaryotes starts in the nucleolus with the formation of a 90S precursor and ends in the cytoplasm. Here, we elucidate the enigmatic structural transitions of assembly intermediates from human and yeast cells during the nucleoplasmic maturation phase. After dissociation of all 90S factors, the 40S body adopts a close-to-mature conformation, whereas the 3' major domain, later forming the 40S head, remains entirely immature. A first coordination is facilitated by the assembly factors TSR1 and BUD23-TRMT112, followed by re-positioning of RRP12 that is already recruited early to the 90S for further head rearrangements. Eventually, the uS2 cluster, CK1 (Hrr25 in yeast) and the export factor SLX9 associate with the pre-40S to provide export competence. These exemplary findings reveal the evolutionary conserved mechanism of how yeast and humans assemble the 40S ribosomal subunit, but reveal also a few minor differences.
History
DepositionFeb 5, 2022-
Header (metadata) releaseOct 19, 2022-
Map releaseOct 19, 2022-
UpdateJun 26, 2024-
Current statusJun 26, 2024Processing site: PDBj / Status: Released

-
Structure visualization

Supplemental images

emd_32799.png

Downloads & links

-
Map

FileDownload / File: emd_32799.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.06 Å/pix.
x 360 pix.
= 381.24 Å		1.06 Å/pix.
x 360 pix.
= 381.24 Å		1.06 Å/pix.
x 360 pix.
= 381.24 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.059 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.02
Minimum - Maximum-0.26343754 - 0.59878737
Average (Standard dev.)0.0008767929 (±0.011256147)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions360360360
Spacing360360360
CellA=B=C: 381.24 Å
α=β=γ: 90.0 °

-
Supplemental data

-
Sample components

+
Entire : Yeast pre-40S ribosomal subunit

EntireName: Yeast pre-40S ribosomal subunit
Components
  • Complex: Yeast pre-40S ribosomal subunit
    • RNA: 18S rRNA
    • Protein or peptide: 40S ribosomal protein S27
    • Protein or peptide: 40S ribosomal protein S3a
    • Protein or peptide: 40S ribosomal protein S4, X isoform
    • Protein or peptide: 40S ribosomal protein S30
    • Protein or peptide: 40S ribosomal protein S7
    • Protein or peptide: 40S ribosomal protein S6
    • Protein or peptide: 40S ribosomal protein S24
    • Protein or peptide: RNA-binding protein PNO1
    • Protein or peptide: 40S ribosomal protein S23
    • Protein or peptide: 40S ribosomal protein S15a
    • Protein or peptide: Pre-rRNA-processing protein TSR1 homolog
    • Protein or peptide: 40S ribosomal protein S14
    • Protein or peptide: 40S ribosomal protein S13
    • Protein or peptide: 40S ribosomal protein S11
    • Protein or peptide: 40S ribosomal protein S9
    • Protein or peptide: 40S ribosomal protein S8
    • Protein or peptide: Multifunctional methyltransferase subunit TRM112-like protein
    • Protein or peptide: Probable 18S rRNA (guanine-N(7))-methyltransferase
    • Protein or peptide: RRP12-like protein
    • Protein or peptide: Ribosome biogenesis protein SLX9 homolog
    • Protein or peptide: U3 small nucleolar RNA-associated protein 14 homolog A
    • Protein or peptide: Probable dimethyladenosine transferase

+
Supramolecule #1: Yeast pre-40S ribosomal subunit

SupramoleculeName: Yeast pre-40S ribosomal subunit / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)

+
Macromolecule #1: 18S rRNA

MacromoleculeName: 18S rRNA / type: rna / ID: 1 / Number of copies: 1
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 604.10275 KDa
SequenceString: UACCUGGUUG AUCCUGCCAG UAGCAUAUGC UUGUCUCAAA GAUUAAGCCA UGCAUGUCUA AGUACGCACG GCCGGUACAG UGAAACUGC GAAUGGCUCA UUAAAUCAGU UAUGGUUCCU UUGGUCGCUC GCUCCUCUCC UACUUGGAUA ACUGUGGUAA U UCUAGAGC ...String:
UACCUGGUUG AUCCUGCCAG UAGCAUAUGC UUGUCUCAAA GAUUAAGCCA UGCAUGUCUA AGUACGCACG GCCGGUACAG UGAAACUGC GAAUGGCUCA UUAAAUCAGU UAUGGUUCCU UUGGUCGCUC GCUCCUCUCC UACUUGGAUA ACUGUGGUAA U UCUAGAGC UAAUACAUGC CGACGGGCGC UGACCCCCUU CGCGGGGGGG AUGCGUGCAU UUAUCAGAUC AAAACCAACC CG GUCAGCC CCUCUCCGGC CCCGGCCGGG GGGCGGGCGC CGGCGGCUUU GGUGACUCUA GAUAACCUCG GGCCGAUCGC ACG CCCCCC GUGGCGGCGA CGACCCAUUC GAACGUCUGC CCUAUCAACU UUCGAUGGUA GUCGCCGUGC CUACCAUGGU GACC ACGGG UGACGGGGAA UCAGGGUUCG AUUCCGGAGA GGGAGCCUGA GAAACGGCUA CCACAUCCAA GGAAGGCAGC AGGCG CGCA AAUUACCCAC UCCCGACCCG GGGAGGUAGU GACGAAAAAU AACAAUACAG GACUCUUUCG AGGCCCUGUA AUUGGA AUG AGUCCACUUU AAAUCCUUUA ACGAGGAUCC AUUGGAGGGC AAGUCUGGUG CCAGCAGCCG CGGUAAUUCC AGCUCCA AU AGCGUAUAUU AAAGUUGCUG CAGUUAAAAA GCUCGUAGUU GGAUCUUGGG AGCGGGCGGG CGGUCCGCCG CGAGGCGA G CCACCGCCCG UCCCCGCCCC UUGCCUCUCG GCGCCCCCUC GAUGCUCUUA GCUGAGUGUC CCGCGGGGCC CGAAGCGUU UACUUUGAAA AAAUUAGAGU GUUCAAAGCA GGCCCGAGCC GCCUGGAUAC CGCAGCUAGG AAUAAUGGAA UAGGACCGCG GUUCUAUUU UGUUGGUUUU CGGAACUGAG GCCAUGAUUA AGAGGGACGG CCGGGGGCAU UCGUAUUGCG CCGCUAGAGG U GAAAUUCU UGGACCGGCG CAAGACGGAC CAGAGCGAAA GCAUUUGCCA AGAAUGUUUU CAUUAAUCAA GAACGAAAGU CG GAGGUUC GAAGACGAUC AGAUACCGUC GUAGUUCCGA CCAUAAACGA UGCCGACCGG CGAUGCGGCG GCGUUAUUCC CAU GACCCG CCGGGCAGCU UCCGGGAAAC CAAAGUCUUU GGGUUCCGGG GGGAGUAUGG UUGCAAAGCU GAAACUUAAA GGAA UUGAC GGAAGGGCAC CACCAGGAGU GGAGCCUGCG GCUUAAUUUG ACUCAACACG GGAAACCUCA CCCGGCCCGG ACACG GACA GGAUUGACAG AUUGAUAGCU CUUUCUCGAU UCCGUGGGUG GUGGUGCAUG GCCGUUCUUA GUUGGUGGAG CGAUUU GUC UGGUUAAUUC CGAUAACGAA CGAGACUCUG GCAUGCUAAC UAGUUACGCG ACCCCCGAGC GGUCGGCGUC CCCCAAC UU CUUAGAGGGA CAAGUGGCGU UCAGCCACCC GAGAUUGAGC AAUAACAGGU CUGUGAUGCC CUUAGAUGUC CGGGGCUG C ACGCGCGCUA CACUGACUGG CUCAGCGUGU GCCUACCCUA CGCCGGCAGG CGCGGGUAAC CCGUUGAACC CCAUUCGUG AUGGGGAUCG GGGAUUGCAA UUAUUCCCCA UGAACGAGGA AUUCCCAGUA AGUGCGGGUC AUAAGCUUGC GUUGAUUAAG UCCCUGCCC UUUGUACACA CCGCCCGUCG CUACUACCGA UUGGAUGGUU UAGUGAGGCC CUCGGAUCGG CCCCGCCGGG G UCGGCCCA CGGCCCUGGC GGAGCGCUGA GAAGACGGUC GAACUUGACU AUCUAGAGGA AGUAAAAGUC GUAACAAGGU UU CCGUAGG UGAACCUGCG GAAGGAUCAU UAACGG

+
Macromolecule #2: 40S ribosomal protein S27

MacromoleculeName: 40S ribosomal protein S27 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 9.480186 KDa
SequenceString:
MPLAKDLLHP SPEEEKRKHK KKRLVQSPNS YFMDVKCPGC YKITTVFSHA QTVVLCVGCS TVLCQPTGGK ARLTEGCSFR RKQH

UniProtKB: Small ribosomal subunit protein eS27

+
Macromolecule #3: 40S ribosomal protein S3a

MacromoleculeName: 40S ribosomal protein S3a / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 30.002061 KDa
SequenceString: MAVGKNKRLT KGGKKGAKKK VVDPFSKKDW YDVKAPAMFN IRNIGKTLVT RTQGTKIASD GLKGRVFEVS LADLQNDEVA FRKFKLITE DVQGKNCLTN FHGMDLTRDK MCSMVKKWQT MIEAHVDVKT TDGYLLRLFC VGFTKKRNNQ IRKTSYAQHQ Q VRQIRKKM ...String:
MAVGKNKRLT KGGKKGAKKK VVDPFSKKDW YDVKAPAMFN IRNIGKTLVT RTQGTKIASD GLKGRVFEVS LADLQNDEVA FRKFKLITE DVQGKNCLTN FHGMDLTRDK MCSMVKKWQT MIEAHVDVKT TDGYLLRLFC VGFTKKRNNQ IRKTSYAQHQ Q VRQIRKKM MEIMTREVQT NDLKEVVNKL IPDSIGKDIE KACQSIYPLH DVFVRKVKML KKPKFELGKL MELHGEGSSS GK ATGDETG AKVERADGYE PPVQESV

UniProtKB: Small ribosomal subunit protein eS1

+
Macromolecule #4: 40S ribosomal protein S4, X isoform

MacromoleculeName: 40S ribosomal protein S4, X isoform / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 29.654869 KDa
SequenceString: MARGPKKHLK RVAAPKHWML DKLTGVFAPR PSTGPHKLRE CLPLIIFLRN RLKYALTGDE VKKICMQRFI KIDGKVRTDI TYPAGFMDV ISIDKTGENF RLIYDTKGRF AVHRITPEEA KYKLCKVRKI FVGTKGIPHL VTHDARTIRY PDPLIKVNDT I QIDLETGK ...String:
MARGPKKHLK RVAAPKHWML DKLTGVFAPR PSTGPHKLRE CLPLIIFLRN RLKYALTGDE VKKICMQRFI KIDGKVRTDI TYPAGFMDV ISIDKTGENF RLIYDTKGRF AVHRITPEEA KYKLCKVRKI FVGTKGIPHL VTHDARTIRY PDPLIKVNDT I QIDLETGK ITDFIKFDTG NLCMVTGGAN LGRIGVITNR ERHPGSFDVV HVKDANGNSF ATRLSNIFVI GKGNKPWISL PR GKGIRLT IAEERDKRLA AKQSSG

UniProtKB: Small ribosomal subunit protein eS4, X isoform

+
Macromolecule #5: 40S ribosomal protein S30

MacromoleculeName: 40S ribosomal protein S30 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 6.668938 KDa
SequenceString:
KVHGSLARAG KVRGQTPKVA KQEKKKKKTG RAKRRMQYNR RFVNVVPTFG KKKGPNANS

UniProtKB: Ubiquitin-like FUBI-ribosomal protein eS30 fusion protein

+
Macromolecule #6: 40S ribosomal protein S7

MacromoleculeName: 40S ribosomal protein S7 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 22.168914 KDa
SequenceString: MFSSSAKIVK PNGEKPDEFE SGISQALLEL EMNSDLKAQL RELNITAAKE IEVGGGRKAI IIFVPVPQLK SFQKIQVRLV RELEKKFSG KHVVFIAQRR ILPKPTRKSR TKNKQKRPRS RTLTAVHDAI LEDLVFPSEI VGKRIRVKLD GSRLIKVHLD K AQQNNVEH ...String:
MFSSSAKIVK PNGEKPDEFE SGISQALLEL EMNSDLKAQL RELNITAAKE IEVGGGRKAI IIFVPVPQLK SFQKIQVRLV RELEKKFSG KHVVFIAQRR ILPKPTRKSR TKNKQKRPRS RTLTAVHDAI LEDLVFPSEI VGKRIRVKLD GSRLIKVHLD K AQQNNVEH KVETFSGVYK KLTGKDVNFE FPEFQL

UniProtKB: Small ribosomal subunit protein eS7

+
Macromolecule #7: 40S ribosomal protein S6

MacromoleculeName: 40S ribosomal protein S6 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 28.751906 KDa
SequenceString: MKLNISFPAT GCQKLIEVDD ERKLRTFYEK RMATEVAADA LGEEWKGYVV RISGGNDKQG FPMKQGVLTH GRVRLLLSKG HSCYRPRRT GERKRKSVRG CIVDANLSVL NLVIVKKGEK DIPGLTDTTV PRRLGPKRAS RIRKLFNLSK EDDVRQYVVR K PLNKEGKK ...String:
MKLNISFPAT GCQKLIEVDD ERKLRTFYEK RMATEVAADA LGEEWKGYVV RISGGNDKQG FPMKQGVLTH GRVRLLLSKG HSCYRPRRT GERKRKSVRG CIVDANLSVL NLVIVKKGEK DIPGLTDTTV PRRLGPKRAS RIRKLFNLSK EDDVRQYVVR K PLNKEGKK PRTKAPKIQR LVTPRVLQHK RRRIALKKQR TKKNKEEAAE YAKLLAKRMK EAKEKRQEQI AKRRRLSSLR AS TSKSESS QK

UniProtKB: Small ribosomal subunit protein eS6

+
Macromolecule #8: 40S ribosomal protein S24

MacromoleculeName: 40S ribosomal protein S24 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 15.463333 KDa
SequenceString:
MNDTVTIRTR KFMTNRLLQR KQMVIDVLHP GKATVPKTEI REKLAKMYKT TPDVIFVFGF RTHFGGGKTT GFGMIYDSLD YAKKNEPKH RLARHGLYEK KKTSRKQRKE RKNRMKKVRG TAKANVGAGK KPKE

UniProtKB: Small ribosomal subunit protein eS24

+
Macromolecule #9: RNA-binding protein PNO1

MacromoleculeName: RNA-binding protein PNO1 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 27.970355 KDa
SequenceString: MESEMETQSA RAEEGFTQVT RKGGRRAKKR QAEQLSAAGE GGDAGRMDTE EARPAKRPVF PPLCGDGLLS GKEETRKIPV PANRYTPLK ENWMKIFTPI VEHLGLQIRF NLKSRNVEIR TCKETKDVSA LTKAADFVKA FILGFQVEDA LALIRLDDLF L ESFEITDV ...String:
MESEMETQSA RAEEGFTQVT RKGGRRAKKR QAEQLSAAGE GGDAGRMDTE EARPAKRPVF PPLCGDGLLS GKEETRKIPV PANRYTPLK ENWMKIFTPI VEHLGLQIRF NLKSRNVEIR TCKETKDVSA LTKAADFVKA FILGFQVEDA LALIRLDDLF L ESFEITDV KPLKGDHLSR AIGRIAGKGG KTKFTIENVT RTRIVLADVK VHILGSFQNI KMARTAICNL ILGNPPSKVY GN IRAVASR SADRF

UniProtKB: RNA-binding protein PNO1

+
Macromolecule #10: 40S ribosomal protein S23

MacromoleculeName: 40S ribosomal protein S23 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 15.844666 KDa
SequenceString:
MGKCRGLRTA RKLRSHRRDQ KWHDKQYKKA HLGTALKANP FGGASHAKGI VLEKVGVEAK QPNSAIRKCV RVQLIKNGKK ITAFVPNDG CLNFIEENDE VLVAGFGRKG HAVGDIPGVR FKVVKVANVS LLALYKGKKE RPRS

UniProtKB: Small ribosomal subunit protein uS12

+
Macromolecule #11: 40S ribosomal protein S15a

MacromoleculeName: 40S ribosomal protein S15a / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 14.865555 KDa
SequenceString:
MVRMNVLADA LKSINNAEKR GKRQVLIRPC SKVIVRFLTV MMKHGYIGEF EIIDDHRAGK IVVNLTGRLN KCGVISPRFD VQLKDLEKW QNNLLPSRQF GFIVLTTSAG IMDHEEARRK HTGGKILGFF F

UniProtKB: Small ribosomal subunit protein uS8

+
Macromolecule #12: Pre-rRNA-processing protein TSR1 homolog

MacromoleculeName: Pre-rRNA-processing protein TSR1 homolog / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 91.951188 KDa
SequenceString: MAAHRPGPLK QQNKAHKGGR HRGRGSAQRD GKGRLALKTL SKKVRKELSR VDQRHRASQL RKQKKEAVLA EKRQLGGKDG PPHQVLVVP LHSRISLPEA MQLLQDRDTG TVHLNELGNT QNFMLLCPRL KHRWFFTSAR PGDLHVVLDM AKVADTILFL L DPLEGWDS ...String:
MAAHRPGPLK QQNKAHKGGR HRGRGSAQRD GKGRLALKTL SKKVRKELSR VDQRHRASQL RKQKKEAVLA EKRQLGGKDG PPHQVLVVP LHSRISLPEA MQLLQDRDTG TVHLNELGNT QNFMLLCPRL KHRWFFTSAR PGDLHVVLDM AKVADTILFL L DPLEGWDS TGDYCLSCLF AQGLPTYTLA VQGISGLPLK KQIDTRKKLS KAVEKRFPHD KLLLLDTQQE AGMLLRQLAN QK QQHLAFR DRRAYLFAHA VDFVPSEENN LVGTLKISGY VRGQTLNVNR LLHIVGYGDF QMKQIDAPGD PFPLNPRGIK PQK DPDMAM EICATDAVDD MEEGLKVLMK ADPGRQESLQ AEVIPDPMEG EQTWPTEEEL SEAKDFLKES SKVVKKVPKG TSSY QAEWI LDGGSQSGGE GDEYEYDDME HEDFMEEESQ DESSEEEEEY ETMTIGESVH DDLYDKKVDE EAEAKMLEKY KQERL EEMF PDEVDTPRDV AARIRFQKYR GLKSFRTSPW DPKENLPQDY ARIFQFQNFT NTRKSIFKEV EEKEVEGAEV GWYVTL HVS EVPVSVVECF RQGTPLIAFS LLPHEQKMSV LNMVVRRDPG NTEPVKAKEE LIFHCGFRRF RASPLFSQHT AADKHKL QR FLTADMALVA TVYAPITFPP ASVLLFKQKS NGMHSLIATG HLMSVDPDRM VIKRVVLSGH PFKIFTKMAV VRYMFFNR E DVLWFKPVEL RTKWGRRGHI KEPLGTHGHM KCSFDGKLKS QDTVLMNLYK RVFPKWTYDP YVPEPVPWLK SEISSTVPQ GGME

UniProtKB: Pre-rRNA-processing protein TSR1 homolog

+
Macromolecule #13: 40S ribosomal protein S14

MacromoleculeName: 40S ribosomal protein S14 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 16.302772 KDa
SequenceString:
MAPRKGKEKK EEQVISLGPQ VAEGENVFGV CHIFASFNDT FVHVTDLSGK ETICRVTGGM KVKADRDESS PYAAMLAAQD VAQRCKELG ITALHIKLRA TGGNRTKTPG PGAQSALRAL ARSGMKIGRI EDVTPIPSDS TRRKGGRRGR RL

UniProtKB: Small ribosomal subunit protein uS11

+
Macromolecule #14: 40S ribosomal protein S13

MacromoleculeName: 40S ribosomal protein S13 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 17.259389 KDa
SequenceString:
MGRMHAPGKG LSQSALPYRR SVPTWLKLTS DDVKEQIYKL AKKGLTPSQI GVILRDSHGV AQVRFVTGNK ILRILKSKGL APDLPEDLY HLIKKAVAVR KHLERNRKDK DAKFRLILIE SRIHRLARYY KTKRVLPPNW KYESSTASAL VA

UniProtKB: Small ribosomal subunit protein uS15

+
Macromolecule #15: 40S ribosomal protein S11

MacromoleculeName: 40S ribosomal protein S11 / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 18.468826 KDa
SequenceString:
MADIQTERAY QKQPTIFQNK KRVLLGETGK EKLPRYYKNI GLGFKTPKEA IEGTYIDKKC PFTGNVSIRG RILSGVVTKM KMQRTIVIR RDYLHYIRKY NRFEKRHKNM SVHLSPCFRD VQIGDIVTVG ECRPLSKTVR FNVLKVTKAA GTKKQFQKF

UniProtKB: Small ribosomal subunit protein uS17

+
Macromolecule #16: 40S ribosomal protein S9

MacromoleculeName: 40S ribosomal protein S9 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 22.641564 KDa
SequenceString: MPVARSWVCR KTYVTPRRPF EKSRLDQELK LIGEYGLRNK REVWRVKFTL AKIRKAAREL LTLDEKDPRR LFEGNALLRR LVRIGVLDE GKMKLDYILG LKIEDFLERR LQTQVFKLGL AKSIHHARVL IRQRHIRVRK QVVNIPSFIV RLDSQKHIDF S LRSPYGGG ...String:
MPVARSWVCR KTYVTPRRPF EKSRLDQELK LIGEYGLRNK REVWRVKFTL AKIRKAAREL LTLDEKDPRR LFEGNALLRR LVRIGVLDE GKMKLDYILG LKIEDFLERR LQTQVFKLGL AKSIHHARVL IRQRHIRVRK QVVNIPSFIV RLDSQKHIDF S LRSPYGGG RPGRVKRKNA KKGQGGAGAG DDEEED

UniProtKB: Small ribosomal subunit protein uS4

+
Macromolecule #17: 40S ribosomal protein S8

MacromoleculeName: 40S ribosomal protein S8 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 24.263387 KDa
SequenceString: MGISRDNWHK RRKTGGKRKP YHKKRKYELG RPAANTKIGP RRIHTVRVRG GNKKYRALRL DVGNFSWGSE CCTRKTRIID VVYNASNNE LVRTKTLVKN CIVLIDSTPY RQWYESHYAL PLGRKKGAKL TPEEEEILNK KRSKKIQKKY DERKKNAKIS S LLEEQFQQ ...String:
MGISRDNWHK RRKTGGKRKP YHKKRKYELG RPAANTKIGP RRIHTVRVRG GNKKYRALRL DVGNFSWGSE CCTRKTRIID VVYNASNNE LVRTKTLVKN CIVLIDSTPY RQWYESHYAL PLGRKKGAKL TPEEEEILNK KRSKKIQKKY DERKKNAKIS S LLEEQFQQ GKLLACIASR PGQCGRADGY VLEGKELEFY LRKIKARKGK

UniProtKB: Small ribosomal subunit protein eS8

+
Macromolecule #18: Multifunctional methyltransferase subunit TRM112-like protein

MacromoleculeName: Multifunctional methyltransferase subunit TRM112-like protein
type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 14.215359 KDa
SequenceString:
MKLLTHNLLS SHVRGVGSRG FPLRLQATEV RICPVEFNPN FVARMIPKVE WSAFLEAADN LRLIQVPKGP VEGYEENEEF LRTMHHLLL EVEVIEGTLQ CPESGRMFPI SRGIPNMLLS EEETES

UniProtKB: Multifunctional methyltransferase subunit TRM112-like protein

+
Macromolecule #19: Probable 18S rRNA (guanine-N(7))-methyltransferase

MacromoleculeName: Probable 18S rRNA (guanine-N(7))-methyltransferase / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
EC number: Transferases; Transferring one-carbon groups; Methyltransferases
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 31.925428 KDa
SequenceString: MASRGRRPEH GGPPELFYDE TEARKYVRNS RMIDIQTRMA GRALELLYLP ENKPCYLLDI GCGTGLSGSY LSDEGHYWVG LDISPAMLD EAVDREIEGD LLLGDMGQGI PFKPGTFDGC ISISAVQWLC NANKKSENPA KRLYCFFASL FSVLVRGSRA V LQLYPENS ...String:
MASRGRRPEH GGPPELFYDE TEARKYVRNS RMIDIQTRMA GRALELLYLP ENKPCYLLDI GCGTGLSGSY LSDEGHYWVG LDISPAMLD EAVDREIEGD LLLGDMGQGI PFKPGTFDGC ISISAVQWLC NANKKSENPA KRLYCFFASL FSVLVRGSRA V LQLYPENS EQLELITTQA TKAGFSGGMV VDYPNSAKAK KFYLCLFSGP STFIPEGLSE NQDEVEPRES VFTNERFPLR MS RRGMVRK SRAWVLEKKE RHRRQGREVR PDTQYTGRKR KPRF

UniProtKB: 18S rRNA (guanine-N(7))-methyltransferase

+
Macromolecule #20: RRP12-like protein

MacromoleculeName: RRP12-like protein / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 143.916516 KDa
SequenceString: MGRSGKLPSG VSAKLKRWKK GHSSDSNPAI CRHRQAARSR FFSRPSGRSD LTVDAVKLHN ELQSGSLRLG KSEAPETPME EEAELVLTE KSSGTFLSGL SDCTNVTFSK VQRFWESNSA AHKEICAVLA AVTEVIRSQG GKETETEYFA ALMTTMEAVE S PESLAAVA ...String:
MGRSGKLPSG VSAKLKRWKK GHSSDSNPAI CRHRQAARSR FFSRPSGRSD LTVDAVKLHN ELQSGSLRLG KSEAPETPME EEAELVLTE KSSGTFLSGL SDCTNVTFSK VQRFWESNSA AHKEICAVLA AVTEVIRSQG GKETETEYFA ALMTTMEAVE S PESLAAVA YLLNLVLKRV PSPVLIKKFS DTSKAFMDIM SAQASSGSTS VLRWVLSCLA TLLRKQDLEA WGYPVTLQVY HG LLSFTVH PKPKIRKAAQ HGVCSVLKGS EFMFEKAPAH HPAAISTAKF CIQEIEKSGG SKEATTTLHM LTLLKDLLPC FPE GLVKSC SETLLRVMTL SHVLVTACAM QAFHSLFHAR PGLSTLSAEL NAQIITALYD YVPSENDLQP LLAWLKVMEK AHIN LVRLQ WDLGLGHLPR FFGTAVTCLL SPHSQVLTAA TQSLKEILKE CVAPHMADIG SVTSSASGPA QSVAKMFRAV EEGLT YKFH AAWSSVLQLL CVFFEACGRQ AHPVMRKCLQ SLCDLRLSPH FPHTAALDQA VGAAVTSMGP EVVLQAVPLE IDGSEE TLD FPRSWLLPVI RDHVQETRLG FFTTYFLPLA NTLKSKAMDL AQAGSTVESK IYDTLQWQMW TLLPGFCTRP TDVAISF KG LARTLGMAIS ERPDLRVTVC QALRTLITKG CQAEADRAEV SRFAKNFLPI LFNLYGQPVA AGDTPAPRRA VLETIRTY L TITDTQLVNS LLEKASEKVL DPASSDFTRL SVLDLVVALA PCADEAAISK LYSTIRPYLE SKAHGVQKKA YRVLEEVCA SPQGPGALFV QSHLEDLKKT LLDSLRSTSS PAKRPRLKCL LHIVRKLSAE HKEFITALIP EVILCTKEVS VGARKNAFAL LVEMGHAFL RFGSNQEEAL QCYLVLIYPG LVGAVTMVSC SILALTHLLF EFKGLMGTST VEQLLENVCL LLASRTRDVV K SALGFIKV AVTVMDVAHL AKHVQLVMEA IGKLSDDMRR HFRMKLRNLF TKFIRKFGFE LVKRLLPEEY HRVLVNIRKA EA RAKRHRA LSQAAVEEEE EEEEEEEPAQ GKGDSIEEIL ADSEDEEDNE EEERSRGKEQ RKLARQRSRA WLKEGGGDEP LNF LDPKVA QRVLATQPGP GRGRKKDHGF KVSADGRLII REEADGNKME EEEGAKGEDE EMADPMEDVI IRNKKHQKLK HQKE AEEEE LEIPPQYQAG GSGIHRPVAK KAMPGAEYKA KKAKGDVKKK GRPDPYAYIP LNRSKLNRRK KMKLQGQFKG LVKAA RRGS QVGHKNRRKD RRP

UniProtKB: RRP12-like protein

+
Macromolecule #21: Ribosome biogenesis protein SLX9 homolog

MacromoleculeName: Ribosome biogenesis protein SLX9 homolog / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 25.503346 KDa
SequenceString: MGKVRGLRAR VHQAAVRPKG EAAPGPAPPA PEATPPPASA AGKDWAFINT NIFARTKIDP SALVQKLELD VRSVTSVRRG EAGSSARSV PSIRRGAEAK TVLPKKEKMK LRREQWLQKI EAIKLAEQKH REERRRRATV VVGDLHPLRD ALPELLGLEA G SRRQARSR ...String:
MGKVRGLRAR VHQAAVRPKG EAAPGPAPPA PEATPPPASA AGKDWAFINT NIFARTKIDP SALVQKLELD VRSVTSVRRG EAGSSARSV PSIRRGAEAK TVLPKKEKMK LRREQWLQKI EAIKLAEQKH REERRRRATV VVGDLHPLRD ALPELLGLEA G SRRQARSR ESNKPRPSEL SRMSAAQRQQ LLEEERTRFQ ELLASPAYRA SPLVAIGQTL ARQMQLEDGG QL

UniProtKB: Ribosome biogenesis protein SLX9 homolog

+
Macromolecule #22: U3 small nucleolar RNA-associated protein 14 homolog A

MacromoleculeName: U3 small nucleolar RNA-associated protein 14 homolog A
type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 88.129125 KDa
SequenceString: MTANRLAESL LALSQQEELA DLPKDYLLSE SEDEGDNDGE RKHQKLLEAI SSLDGKNRRK LAERSEASLK VSEFNVSSEG SGEKLVLAD LLEPVKTSSS LATVKKQLSR VKSKKTVELP LNKEEIERIH REVAFNKTAQ VLSKWDPVVL KNRQAEQLVF P LEKEEPAI ...String:
MTANRLAESL LALSQQEELA DLPKDYLLSE SEDEGDNDGE RKHQKLLEAI SSLDGKNRRK LAERSEASLK VSEFNVSSEG SGEKLVLAD LLEPVKTSSS LATVKKQLSR VKSKKTVELP LNKEEIERIH REVAFNKTAQ VLSKWDPVVL KNRQAEQLVF P LEKEEPAI APIEHVLSGW KARTPLEQEI FNLLHKNKQP VTDPLLTPVE KASLRAMSLE EAKMRRAELQ RARALQSYYE AK ARREKKI KSKKYHKVVK KGKAKKALKE FEQLRKVNPA AALEELEKIE KARMMERMSL KHQNSGKWAK SKAIMAKYDL EAR QAMQEQ LSKNKELTQK LQVASESEEE EGGTEDVEEL LVPDVVNEVQ MNADGPNPWM LRSCTSDTKE AATQEDPEQL PELE AHGVS ESEGEERPVA EEEILLREFE ERRSLRKRSE LSQDAEPAGS QETKDSGSQE VLSELRVLSQ KLKENHQSRK QKASS EGTI PQVQREEPAP EEEEPLLLQR PERVQTLEEL EELGKEECFQ NKELPRPVLE GQQSERTPNN RPDAPKEKKK KEQMID LQN LLTTQSPSVK SLAVPTIEEL EDEEERNHRQ MIKEAFAGDD VIRDFLKEKR EAVEASKPKD VDLTLPGWGE WGGVGLK PS AKKRRRFLIK APEGPPRKDK NLPNVIINEK RNIHAAAHQV RVLPYPFTHH WQFERTIQTP IGSTWNTQRA FQKLTTPK V VTKPGHIINP IKAEDVGYRS SSRSDLSVIQ RNPKRITTRH KKQLKKCSVD

UniProtKB: U3 small nucleolar RNA-associated protein 14 homolog A

+
Macromolecule #23: Probable dimethyladenosine transferase

MacromoleculeName: Probable dimethyladenosine transferase / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
EC number: 18S rRNA (adenine1779-N6/adenine1780-N6)-dimethyltransferase
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 35.292434 KDa
SequenceString: MPKVKSGAIG RRRGRQEQRR ELKSAGGLMF NTGIGQHILK NPLIINSIID KAALRPTDVV LEVGPGTGNM TVKLLEKAKK VVACELDPR LVAELHKRVQ GTPVASKLQV LVGDVLKTDL PFFDTCVANL PYQISSPFVF KLLLHRPFFR CAILMFQREF A LRLVAKPG ...String:
MPKVKSGAIG RRRGRQEQRR ELKSAGGLMF NTGIGQHILK NPLIINSIID KAALRPTDVV LEVGPGTGNM TVKLLEKAKK VVACELDPR LVAELHKRVQ GTPVASKLQV LVGDVLKTDL PFFDTCVANL PYQISSPFVF KLLLHRPFFR CAILMFQREF A LRLVAKPG DKLYCRLSIN TQLLARVDHL MKVGKNNFRP PPKVESSVVR IEPKNPPPPI NFQEWDGLVR ITFVRKNKTL SA AFKSSAV QQLLEKNYRI HCSVHNIIIP EDFSIADKIQ QILTSTGFSD KRARSMDIDD FIRLLHGFNA EGIHFS

UniProtKB: Dimethyladenosine transferase

-
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 K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 44.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

+
Image processing

Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 8843
Initial angle assignmentType: OTHER / Details: Relion
Final angle assignmentType: OTHER / Details: Relion
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://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