[English] 日本語

Yorodumi

- PDB-8y5l: E.coli transcription translation coupling complex in TTC-B state ... -

+
Open data

-
Basic information

Entry

Database: PDB / ID: 8y5l

Title

E.coli transcription translation coupling complex in TTC-B state 1 (subclass1) containing mRNA with 30-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin

Components

(30S ribosomal protein ...) x 20
(50S ribosomal protein ...) x 30
(DNA-directed RNA polymerase subunit ...) x 4
(Transcription termination/antitermination protein ...) x 2
16S rRNA
23S rRNA
5S rRNA
mRNA
non-templete DNA strand
tRNA(Phe)
tRNA(fMet)
templete DNA strand
viomycin

Keywords

RIBOSOME / RNA polymerase / translation / transcription / coupling / transcription-translation coupling / expressome

Function / homology

Function and homology information

RNA polymerase complex / negative regulation of cytoplasmic translational initiation / transcription elongation-coupled chromatin remodeling / submerged biofilm formation / stringent response / cellular response to cell envelope stress / regulation of DNA-templated transcription initiation / protein complex oligomerization / bacterial-type flagellum assembly / ornithine decarboxylase inhibitor activity ...RNA polymerase complex / negative regulation of cytoplasmic translational initiation / transcription elongation-coupled chromatin remodeling / submerged biofilm formation / stringent response / cellular response to cell envelope stress / regulation of DNA-templated transcription initiation / protein complex oligomerization / bacterial-type flagellum assembly / ornithine decarboxylase inhibitor activity / transcription antitermination factor activity, RNA binding / bacterial-type RNA polymerase core enzyme binding / cytosolic DNA-directed RNA polymerase complex / misfolded RNA binding / Group I intron splicing / RNA folding / bacterial-type flagellum-dependent cell motility / transcriptional attenuation / endoribonuclease inhibitor activity / positive regulation of ribosome biogenesis / RNA-binding transcription regulator activity / nitrate assimilation / translational termination / negative regulation of cytoplasmic translation / four-way junction DNA binding / DnaA-L2 complex / translation repressor activity / negative regulation of translational initiation / regulation of mRNA stability / negative regulation of DNA-templated DNA replication initiation / mRNA regulatory element binding translation repressor activity / assembly of large subunit precursor of preribosome / positive regulation of RNA splicing / ribosome assembly / transcription elongation factor complex / regulation of DNA-templated transcription elongation / cytosolic ribosome assembly / response to reactive oxygen species / DNA endonuclease activity / transcription antitermination / translational initiation / DNA-templated transcription initiation / cell motility / regulation of cell growth / DNA-templated transcription termination / response to radiation / maintenance of translational fidelity / mRNA 5'-UTR binding / ribonucleoside binding / DNA-directed RNA polymerase / DNA-directed RNA polymerase activity / ribosome biogenesis / large ribosomal subunit / regulation of translation / transferase activity / ribosome binding / response to heat / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / small ribosomal subunit rRNA binding / protein-containing complex assembly / ribosomal large subunit assembly / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / cytosolic large ribosomal subunit / intracellular iron ion homeostasis / cytoplasmic translation / tRNA binding / protein dimerization activity / negative regulation of translation / rRNA binding / structural constituent of ribosome / ribosome / translation / DNA-binding transcription factor activity / protein domain specific binding / response to antibiotic / nucleotide binding / negative regulation of DNA-templated transcription / mRNA binding / magnesium ion binding / DNA binding / RNA binding / zinc ion binding / membrane / cytosol / cytoplasm
Similarity search - Function

Transcription termination factor NusA, C-terminal duplication / Transcription termination factor NusA / Transcription factor NusA, N-terminal / KH domain, NusA-like / NusA, N-terminal domain superfamily / NusA N-terminal domain / NusA-like KH domain / Transcription termination/antitermination protein NusA, bacterial / : / Transcription antitermination protein, NusG ...Transcription termination factor NusA, C-terminal duplication / Transcription termination factor NusA / Transcription factor NusA, N-terminal / KH domain, NusA-like / NusA, N-terminal domain superfamily / NusA N-terminal domain / NusA-like KH domain / Transcription termination/antitermination protein NusA, bacterial / : / Transcription antitermination protein, NusG / Transcription antitermination protein, NusG, bacteria, conserved site / Transcription termination factor nusG signature. / NusG-like / Transcription termination factor nusG / NusG, N-terminal / In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. / DNA repair Rad51/transcription factor NusA, alpha-helical / Type-1 KH domain profile. / NusG, N-terminal domain superfamily / Helix-hairpin-helix domain / S1 domain profile. / DNA-directed RNA polymerase, omega subunit / DNA-directed RNA polymerase, subunit beta-prime, bacterial type / DNA-directed RNA polymerase, beta subunit, external 1 domain superfamily / DNA-directed RNA polymerase, beta subunit, external 1 domain / RNA polymerase beta subunit external 1 domain / RNA polymerase, alpha subunit, C-terminal / Bacterial RNA polymerase, alpha chain C terminal domain / DNA-directed RNA polymerase, alpha subunit / DNA-directed RNA polymerase beta subunit, bacterial-type / Ribosomal protein S21, conserved site / Ribosomal protein S21 signature. / Ribosomal protein L11, bacterial-type / Ribosomal protein L25, short-form / Ribosomal protein S14, bacterial/plastid / Ribosomal protein S1-like RNA-binding domain / S1 RNA binding domain / Ribosomal protein L31 type A / Ribosomal protein S21 superfamily / S1 domain / Ribosomal protein S21 / Ribosomal protein S16, conserved site / Ribosomal protein S16 signature. / Ribosomal protein L31 signature. / Ribosomal protein S21 / Ribosomal protein L31 / Ribosomal protein L31 superfamily / Ribosomal protein L31 / Ribosomal protein L11, conserved site / Ribosomal protein L11 signature. / Ribosomal protein L16 signature 1. / Ribosomal protein L21, conserved site / Ribosomal protein L21 signature. / Ribosomal protein L16 signature 2. / Ribosomal protein L16, conserved site / Ribosomal protein L6, conserved site / Ribosomal protein L6 signature 1. / : / Ribosomal protein L9 signature. / Ribosomal protein L9, bacteria/chloroplast / Ribosomal protein L9, C-terminal / Ribosomal protein L9, C-terminal domain / Ribosomal protein L9, C-terminal domain superfamily / Ribosomal protein L11, N-terminal / Ribosomal protein L11, N-terminal domain / Ribosomal protein L17 signature. / Ribosomal protein L11/L12 / Ribosomal protein L11, C-terminal / Ribosomal protein L11, C-terminal domain superfamily / Ribosomal protein L11/L12, N-terminal domain superfamily / Ribosomal protein L11/L12 / Ribosomal protein L11, RNA binding domain / Ribosomal L25p family / Ribosomal protein L25 / Ribosomal protein L36 signature. / Ribosomal protein L32p, bacterial type / Ribosomal protein L28/L24 superfamily / Ribosomal protein L25/Gln-tRNA synthetase, N-terminal / Ribosomal protein L25/Gln-tRNA synthetase, anti-codon-binding domain superfamily / Ribosomal protein L9, N-terminal domain superfamily / Ribosomal protein L9 / : / Ribosomal protein L9, N-terminal / Ribosomal protein L9, N-terminal domain / Ribosomal protein L33, conserved site / Ribosomal protein L33 signature. / Ribosomal protein L35, conserved site / Ribosomal protein L35 signature. / Ribosomal protein L28 / Ribosomal protein L35, non-mitochondrial / Ribosomal protein L18, bacterial-type / : / Ribosomal protein L6, bacterial-type / Ribosomal protein S19, bacterial-type / Ribosomal protein S3, bacterial-type / Ribosomal protein S13, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein L9/RNase H1, N-terminal / Ribosomal protein S7, bacterial/organellar-type
Similarity search - Domain/homology

Viomycin / : / : / : / : / DNA / DNA (> 10) / polypeptide(D) / RNA / RNA (> 10) ...Viomycin / : / : / : / : / DNA / DNA (> 10) / polypeptide(D) / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein bS6 / Small ribosomal subunit protein uS7 / Large ribosomal subunit protein uL15 / Large ribosomal subunit protein uL11 / Large ribosomal subunit protein bL19 / Large ribosomal subunit protein bL20 / Large ribosomal subunit protein bL27 / Large ribosomal subunit protein bL28 / Large ribosomal subunit protein uL29 / Large ribosomal subunit protein bL31 / Large ribosomal subunit protein bL32 / Large ribosomal subunit protein bL33 / Large ribosomal subunit protein bL34 / Large ribosomal subunit protein bL35 / Large ribosomal subunit protein bL36A / Large ribosomal subunit protein bL9 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein bS18 / Small ribosomal subunit protein uS19 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS2 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS9 / DNA-directed RNA polymerase subunit alpha / DNA-directed RNA polymerase subunit omega / DNA-directed RNA polymerase subunit beta' / DNA-directed RNA polymerase subunit beta / Large ribosomal subunit protein uL13 / Large ribosomal subunit protein uL14 / Large ribosomal subunit protein uL16 / Large ribosomal subunit protein uL23 / Small ribosomal subunit protein uS15 / Transcription termination/antitermination protein NusA / Transcription termination/antitermination protein NusG / Large ribosomal subunit protein bL17 / Large ribosomal subunit protein bL21 / Large ribosomal subunit protein uL30 / Large ribosomal subunit protein uL6 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS17 / Large ribosomal subunit protein uL18 / Large ribosomal subunit protein uL2 / Large ribosomal subunit protein uL3 / Large ribosomal subunit protein uL24 / Large ribosomal subunit protein uL4 / Large ribosomal subunit protein uL22 / Large ribosomal subunit protein uL5 / Small ribosomal subunit protein bS21 / Large ribosomal subunit protein bL25
Similarity search - Component

Biological species

Escherichia coli K-12 (bacteria)
synthetic construct (others)

Method

ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.7 Å

Authors

Zhang, J. / Lu, G. / Wang, C. / Lin, J.

Funding support

China, 2items

Citation

Journal: To be published
Title: E.coli transcription translation coupling complex in TTC-B state 1 (subclass1) containing mRNA with 30-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin
Authors: Zhang, J. / Lu, G. / Ebright, R.H. / Lin, J. / Wang, C.

History

Deposition	Jan 31, 2024	Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0	Aug 13, 2025	Provider: repository / Type: Initial release
Revision 1.0	Aug 13, 2025	Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release
Revision 1.0	Aug 13, 2025	Data content type: FSC / Data content type: FSC / Provider: repository / Type: Initial release
Revision 1.0	Aug 13, 2025	Data content type: Half map / Part number: 1 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0	Aug 13, 2025	Data content type: Half map / Part number: 2 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0	Aug 13, 2025	Data content type: Image / Data content type: Image / Provider: repository / Type: Initial release
Revision 1.0	Aug 13, 2025	Data content type: Mask / Part number: 1 / Data content type: Mask / Provider: repository / Type: Initial release
Revision 1.0	Aug 13, 2025	Data content type: Primary map / Data content type: Primary map / Provider: repository / Type: Initial release

-
Structure visualization

Structure viewer	Molecule: MolmilJmol/JSmol

-
Downloads & links

-
Download

PDBx/mmCIF format	8y5l.cif.gz	3.9 MB	Display	PDBx/mmCIF format
PDB format	pdb8y5l.ent.gz		Display	PDB format
PDBx/mmJSON format	8y5l.json.gz		Tree view	PDBx/mmJSON format
Others	Other downloads

-
Validation report

Summary document	8y5l_validation.pdf.gz	1.7 MB	Display	wwPDB validaton report
Full document	8y5l_full_validation.pdf.gz	2 MB	Display
Data in XML	8y5l_validation.xml.gz	318.9 KB	Display
Data in CIF	8y5l_validation.cif.gz	564.7 KB	Display
Arichive directory	https://data.pdbj.org/pub/pdb/validation_reports/y5/8y5l ftp://data.pdbj.org/pub/pdb/validation_reports/y5/8y5l	HTTPS FTP

-
Related structure data

Related structure data	38941MC M: map data used to model this data C: citing same article (ref.)
Similar structure data	Similarity search - Function & homologyF&H Search Similarity search - FunctionF&H Search Similarity search - HomologyF&H Search

-
Links

PDB pages	PDBj / wwPDB / NCBI
Related items in Molecule of the Month	#253 - Jan 2021 Expressome similarity (120) #157 - Jan 2013 Transfer-Messenger RNA similarity (83) #262 - Oct 2021 Fifty Years of Open Access to PDB Structures similarity (82) #121 - Jan 2010 70S Ribosomes similarity (20) #181 - Jan 2015 Cascade and CRISPR similarity (2) #130 - Oct 2010 Riboswitches similarity (2) #16 - Apr 2001 Aminoacyl-tRNA Synthetases similarity (1) #67 - Jul 2005 TATA-Binding Protein similarity (1) #260 - Aug 2021 Ribonuclease P similarity (2) #10 - Oct 2000 Ribosome similarity (5) #255 - Mar 2021 Cisplatin and DNA similarity (4) #168 - Dec 2013 DNA Helicase similarity (1) #87 - Mar 2007 Zinc Fingers similarity (2) #91 - Jul 2007 Thymine Dimers similarity (1) #229 - Jan 2019 Fluorescent RNA Aptamers similarity (1) #146 - Feb 2012 Aminoglycoside Antibiotics similarity (3) #48 - Dec 2003 Catabolite Activator Protein similarity (13) #172 - Apr 2014 RecA and Rad51 similarity (3) #227 - Nov 2018 Telomerase similarity (3) #122 - Feb 2010 Enhanceosome similarity (1) #15 - Mar 2001 Transfer RNA similarity (1) #249 - Sep 2020 SARS-CoV-2 RNA-dependent RNA Polymerase similarity (1) #112 - Apr 2009 Oct and Sox Transcription Factors similarity (1) #135 - Mar 2011 Integrase similarity (1) #150 - Jun 2012 Sliding Clamps similarity (1) #180 - Dec 2014 TAL Effectors similarity (1) #40 - Apr 2003 RNA Polymerase similarity (2) #84 - Dec 2006 Transposase similarity (1) #210 - Jun 2017 Adenine Riboswitch in Action similarity (1) #226 - Oct 2018 Aminoglycoside Antibiotics and Resistance similarity (3) #245 - May 2020 Spliceosomes similarity (2) #65 - May 2005 Self-splicing RNA similarity (2) #139 - Jul 2011 DNA Methyltransferase similarity (1) #155 - Nov 2012 Vitamin D Receptor similarity (1) #3 - Mar 2000 DNA Polymerase similarity (1) #73 - Jan 2006 Topoisomerase similarity (1) #105 - Sep 2008 Ribonuclease A similarity (1) #98 - Feb 2008 Small Interfering RNA similarity (1) #266 - Feb 2022 Oligosaccharyltransferase similarity (5) #161 - May 2013 Ricin similarity (3) #55 - Jul 2004 DNA Ligase similarity (2) #119 - Nov 2009 Designed DNA Crystal similarity (1) #125 - May 2010 Parvoviruses similarity (1) #131 - Nov 2010 Inteins similarity (1) #160 - Apr 2013 Actinomycin similarity (1) #190 - Oct 2015 Two-component Systems similarity (1) #23 - Nov 2001 DNA similarity (1) #240 - Dec 2019 Hypoxia-Inducible Factors similarity (1) #257 - May 2021 Fetal Hemoglobin similarity (1) #258 - Jun 2021 Glucocorticoid Receptor and Dexamethasone similarity (1) #31 - Jul 2002 p53 Tumor Suppressor similarity (1) #33 - Sep 2002 HIV Reverse Transcriptase similarity (1) #39 - Mar 2003 lac Repressor similarity (1) #45 - Sep 2003 Estrogen Receptor similarity (1) #7 - Jul 2000 Nucleosome similarity (1) #8 - Aug 2000 Restriction Enzymes similarity (1) #92 - Aug 2007 Anabolic Steroids similarity (1) #104 - Aug 2008 Selenocysteine Synthase similarity (1) #106 - Oct 2008 Poly(A) Polymerase similarity (1) #143 - Nov 2011 Toll-like Receptors similarity (1) #230 - Feb 2019 Initiation Factor eIF4E similarity (1) #81 - Sep 2006 Elongation Factors similarity (1) #89 - May 2007 Aconitase and Iron Regulatory Protein 1 similarity (1) #241 - Jan 2020 Twenty Years of Molecules similarity (6) #86 - Feb 2007 Exosomes similarity (1)

PDB pages

PDBj /

wwPDB /

NCBI

Related items in Molecule of the Month

#253 - Jan 2021
Expressome
similarity (120)
#157 - Jan 2013
Transfer-Messenger RNA
similarity (83)
#262 - Oct 2021
Fifty Years of Open Access to PDB Structures
similarity (82)
#121 - Jan 2010
70S Ribosomes
similarity (20)
#181 - Jan 2015
Cascade and CRISPR
similarity (2)
#130 - Oct 2010
Riboswitches
similarity (2)
#16 - Apr 2001
Aminoacyl-tRNA Synthetases
similarity (1)
#67 - Jul 2005
TATA-Binding Protein
similarity (1)
#260 - Aug 2021
Ribonuclease P
similarity (2)
#10 - Oct 2000
Ribosome
similarity (5)
#255 - Mar 2021
Cisplatin and DNA
similarity (4)
#168 - Dec 2013
DNA Helicase
similarity (1)
#87 - Mar 2007
Zinc Fingers
similarity (2)
#91 - Jul 2007
Thymine Dimers
similarity (1)
#229 - Jan 2019
Fluorescent RNA Aptamers
similarity (1)
#146 - Feb 2012
Aminoglycoside Antibiotics
similarity (3)
#48 - Dec 2003
Catabolite Activator Protein
similarity (13)
#172 - Apr 2014
RecA and Rad51
similarity (3)
#227 - Nov 2018
Telomerase
similarity (3)
#122 - Feb 2010
Enhanceosome
similarity (1)
#15 - Mar 2001
Transfer RNA
similarity (1)
#249 - Sep 2020
SARS-CoV-2 RNA-dependent RNA Polymerase
similarity (1)
#112 - Apr 2009
Oct and Sox Transcription Factors
similarity (1)
#135 - Mar 2011
Integrase
similarity (1)
#150 - Jun 2012
Sliding Clamps
similarity (1)
#180 - Dec 2014
TAL Effectors
similarity (1)
#40 - Apr 2003
RNA Polymerase
similarity (2)
#84 - Dec 2006
Transposase
similarity (1)
#210 - Jun 2017
Adenine Riboswitch in Action
similarity (1)
#226 - Oct 2018
Aminoglycoside Antibiotics and Resistance
similarity (3)
#245 - May 2020
Spliceosomes
similarity (2)
#65 - May 2005
Self-splicing RNA
similarity (2)
#139 - Jul 2011
DNA Methyltransferase
similarity (1)
#155 - Nov 2012
Vitamin D Receptor
similarity (1)
#3 - Mar 2000
DNA Polymerase
similarity (1)
#73 - Jan 2006
Topoisomerase
similarity (1)
#105 - Sep 2008
Ribonuclease A
similarity (1)
#98 - Feb 2008
Small Interfering RNA
similarity (1)
#266 - Feb 2022
Oligosaccharyltransferase
similarity (5)
#161 - May 2013
Ricin
similarity (3)
#55 - Jul 2004
DNA Ligase
similarity (2)
#119 - Nov 2009
Designed DNA Crystal
similarity (1)
#125 - May 2010
Parvoviruses
similarity (1)
#131 - Nov 2010
Inteins
similarity (1)
#160 - Apr 2013
Actinomycin
similarity (1)
#190 - Oct 2015
Two-component Systems
similarity (1)
#23 - Nov 2001
DNA
similarity (1)
#240 - Dec 2019
Hypoxia-Inducible Factors
similarity (1)
#257 - May 2021
Fetal Hemoglobin
similarity (1)
#258 - Jun 2021
Glucocorticoid Receptor and Dexamethasone
similarity (1)
#31 - Jul 2002
p53 Tumor Suppressor
similarity (1)
#33 - Sep 2002
HIV Reverse Transcriptase
similarity (1)
#39 - Mar 2003
lac Repressor
similarity (1)
#45 - Sep 2003
Estrogen Receptor
similarity (1)
#7 - Jul 2000
Nucleosome
similarity (1)
#8 - Aug 2000
Restriction Enzymes
similarity (1)
#92 - Aug 2007
Anabolic Steroids
similarity (1)
#104 - Aug 2008
Selenocysteine Synthase
similarity (1)
#106 - Oct 2008
Poly(A) Polymerase
similarity (1)
#143 - Nov 2011
Toll-like Receptors
similarity (1)
#230 - Feb 2019
Initiation Factor eIF4E
similarity (1)
#81 - Sep 2006
Elongation Factors
similarity (1)
#89 - May 2007
Aconitase and Iron Regulatory Protein 1
similarity (1)
#241 - Jan 2020
Twenty Years of Molecules
similarity (6)
#86 - Feb 2007
Exosomes
similarity (1)

-
Assembly

Deposited unit

A: 50S ribosomal protein L31

B: 50S ribosomal protein L32

C: 50S ribosomal protein L33

D: 50S ribosomal protein L34

E: 50S ribosomal protein L35

F: 50S ribosomal protein L36

G: 30S ribosomal protein S2

H: 30S ribosomal protein S3

I: 30S ribosomal protein S4

J: 30S ribosomal protein S5

K: 30S ribosomal protein S6, fully modified isoform

L: 30S ribosomal protein S7

M: 30S ribosomal protein S8

N: 30S ribosomal protein S9

O: 30S ribosomal protein S10

P: 30S ribosomal protein S11

Q: 30S ribosomal protein S12

R: 30S ribosomal protein S13

S: 30S ribosomal protein S14

T: 30S ribosomal protein S15

U: 30S ribosomal protein S16

V: 30S ribosomal protein S17

W: 30S ribosomal protein S18

X: 30S ribosomal protein S19

Y: 30S ribosomal protein S20

Z: 30S ribosomal protein S21

b: 50S ribosomal protein L2

c: 50S ribosomal protein L3

d: 50S ribosomal protein L4

e: 50S ribosomal protein L5

f: 50S ribosomal protein L6

g: 50S ribosomal protein L9

i: 50S ribosomal protein L11

j: 50S ribosomal protein L13

k: 50S ribosomal protein L14

l: 50S ribosomal protein L15

m: 50S ribosomal protein L16

n: 50S ribosomal protein L17

o: 50S ribosomal protein L18

p: 50S ribosomal protein L19

q: 50S ribosomal protein L20

r: 50S ribosomal protein L21

s: 50S ribosomal protein L22

t: 50S ribosomal protein L23

u: 50S ribosomal protein L24

v: 50S ribosomal protein L25

w: 50S ribosomal protein L27

x: 50S ribosomal protein L28

y: 50S ribosomal protein L29

z: 50S ribosomal protein L30

1: 23S rRNA

2: 5S rRNA

3: 16S rRNA

4: mRNA

8: templete DNA strand

9: non-templete DNA strand

A1: DNA-directed RNA polymerase subunit alpha

A2: DNA-directed RNA polymerase subunit alpha

B1: DNA-directed RNA polymerase subunit beta'

B2: DNA-directed RNA polymerase subunit beta

W0: DNA-directed RNA polymerase subunit omega

NA: Transcription termination/antitermination protein NusA

NG: Transcription termination/antitermination protein NusG

5: tRNA(Phe)

6: tRNA(fMet)

7: tRNA(fMet)

h: viomycin

hetero molecules

2.73 MDa, 67 polymers
Search similar-shape structures of this assembly by Omokage search (details)

Idetical with deposited unit
defined by author
Evidence: electron microscopy, not applicable

-
Components

+
50S ribosomal protein ... , 30 types, 30 molecules ABCDEFbcdefgijklmnopqrstuvwxyz

#1: Protein	50S ribosomal protein L31 / Large ribosomal subunit protein bL31-A Mass: 7887.117 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7M9
#2: Protein	50S ribosomal protein L32 / Large ribosomal subunit protein bL32 Mass: 6463.445 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7N4
#3: Protein	50S ribosomal protein L33 / Large ribosomal subunit protein bL33 Mass: 6388.631 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7N9
#4: Protein/peptide	50S ribosomal protein L34 / Large ribosomal subunit protein bL34 Mass: 5397.463 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7P5
#5: Protein	50S ribosomal protein L35 / Large ribosomal subunit protein bL35 / Ribosomal protein A Mass: 7313.032 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7Q1
#6: Protein/peptide	50S ribosomal protein L36 / Large ribosomal subunit protein bL36-A / Ribosomal protein B Mass: 4377.390 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7Q6
#27: Protein	50S ribosomal protein L2 / Large ribosomal subunit protein uL2 Mass: 29923.619 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P60422
#28: Protein	50S ribosomal protein L3 / Large ribosomal subunit protein uL3 Mass: 22277.535 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P60438
#29: Protein	50S ribosomal protein L4 / Large ribosomal subunit protein uL4 Mass: 22121.566 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P60723
#30: Protein	50S ribosomal protein L5 / Large ribosomal subunit protein uL5 Mass: 20333.611 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P62399
#31: Protein	50S ribosomal protein L6 / Large ribosomal subunit protein uL6 Mass: 18932.791 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0AG55
#32: Protein	50S ribosomal protein L9 / Large ribosomal subunit protein bL9 Mass: 15789.020 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7R1
#33: Protein	50S ribosomal protein L11 / Large ribosomal subunit protein uL11 Mass: 14894.362 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7J7
#34: Protein	50S ribosomal protein L13 / Large ribosomal subunit protein uL13 Mass: 16050.606 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0AA10
#35: Protein	50S ribosomal protein L14 / Large ribosomal subunit protein uL14 Mass: 13565.067 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0ADY3
#36: Protein	50S ribosomal protein L15 Mass: 15008.471 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P02413
#37: Protein	50S ribosomal protein L16 / Large ribosomal subunit protein uL16 Mass: 15312.269 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0ADY7
#38: Protein	50S ribosomal protein L17 / Large ribosomal subunit protein bL17 Mass: 14393.657 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0AG44
#39: Protein	50S ribosomal protein L18 / Large ribosomal subunit protein uL18 Mass: 12794.668 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0C018
#40: Protein	50S ribosomal protein L19 / Large ribosomal subunit protein bL19 Mass: 13159.278 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7K6
#41: Protein	50S ribosomal protein L20 / Large ribosomal subunit protein bL20 Mass: 13528.024 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7L3
#42: Protein	50S ribosomal protein L21 / Large ribosomal subunit protein bL21 Mass: 11586.374 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0AG48
#43: Protein	50S ribosomal protein L22 / Large ribosomal subunit protein uL22 Mass: 12253.359 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P61175
#44: Protein	50S ribosomal protein L23 / Large ribosomal subunit protein uL23 Mass: 11222.160 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0ADZ0
#45: Protein	50S ribosomal protein L24 / Large ribosomal subunit protein uL24 Mass: 11339.250 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P60624
#46: Protein	50S ribosomal protein L25 / Large ribosomal subunit protein bL25 Mass: 10713.465 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P68919
#47: Protein	50S ribosomal protein L27 / Large ribosomal subunit protein bL27 Mass: 9146.540 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7L8
#48: Protein	50S ribosomal protein L28 / Large ribosomal subunit protein bL28 Mass: 9027.551 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7M2
#49: Protein	50S ribosomal protein L29 / Large ribosomal subunit protein uL29 Mass: 7286.464 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7M6
#50: Protein	50S ribosomal protein L30 / Large ribosomal subunit protein uL30 Mass: 6554.820 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0AG51

-
30S ribosomal protein ... , 20 types, 20 molecules GHIJKLMNOPQRSTUVWXYZ

#7: Protein	30S ribosomal protein S2 / Small ribosomal subunit protein uS2 Mass: 26781.670 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7V0
#8: Protein	30S ribosomal protein S3 / Small ribosomal subunit protein uS3 Mass: 26031.316 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7V3
#9: Protein	30S ribosomal protein S4 / Small ribosomal subunit protein uS4 Mass: 23514.199 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7V8
#10: Protein	30S ribosomal protein S5 / Small ribosomal subunit protein uS5 Mass: 17629.398 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7W1
#11: Protein	30S ribosomal protein S6, fully modified isoform Mass: 15727.512 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P02358
#12: Protein	30S ribosomal protein S7 / Small ribosomal subunit protein uS7 Mass: 20055.156 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P02359
#13: Protein	30S ribosomal protein S8 / Small ribosomal subunit protein uS8 Mass: 14146.557 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7W7
#14: Protein	30S ribosomal protein S9 / Small ribosomal subunit protein uS9 Mass: 14886.270 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7X3
#15: Protein	30S ribosomal protein S10 / Small ribosomal subunit protein uS10 / Transcription termination/antitermination protein NusE Mass: 11755.597 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7R5
#16: Protein	30S ribosomal protein S11 / Small ribosomal subunit protein uS11 Mass: 13870.975 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7R9
#17: Protein	30S ribosomal protein S12 / Small ribosomal subunit protein uS12 Mass: 13768.157 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7S3
#18: Protein	30S ribosomal protein S13 / Small ribosomal subunit protein uS13 Mass: 13128.467 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7S9
#19: Protein	30S ribosomal protein S14 / Small ribosomal subunit protein uS14 Mass: 11606.560 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0AG59
#20: Protein	30S ribosomal protein S15 / Small ribosomal subunit protein uS15 Mass: 10290.816 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0ADZ4
#21: Protein	30S ribosomal protein S16 / Small ribosomal subunit protein bS16 Mass: 9207.572 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7T3
#22: Protein	30S ribosomal protein S17 / Small ribosomal subunit protein uS17 Mass: 9724.491 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0AG63
#23: Protein	30S ribosomal protein S18 / Small ribosomal subunit protein bS18 Mass: 9005.472 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7T7
#24: Protein	30S ribosomal protein S19 / Small ribosomal subunit protein uS19 Mass: 10455.355 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7U3
#25: Protein	30S ribosomal protein S20 / Small ribosomal subunit protein bS20 Mass: 9708.464 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P0A7U7
#26: Protein	30S ribosomal protein S21 / Small ribosomal subunit protein bS21 Mass: 8524.039 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: UniProt: P68679

-
RNA chain , 6 types, 7 molecules 1234567

#51: RNA chain	23S rRNA Mass: 941611.438 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: GenBank: 1929590828
#52: RNA chain	5S rRNA Mass: 38813.133 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: GenBank: NR_103249
#53: RNA chain	16S rRNA Mass: 499690.031 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Escherichia coli K-12 (bacteria) / References: GenBank: 1789840096
#54: RNA chain	mRNA Mass: 14747.342 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others)
#63: RNA chain	tRNA(Phe) Mass: 24485.539 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Plasmid: pBS -Phe / Production host: Escherichia coli BL21(DE3) (bacteria) / References: GenBank: 1845258627
#64: RNA chain	tRNA(fMet) Mass: 24802.785 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Plasmid: pBS-fMet / Production host: Escherichia coli BL21(DE3) (bacteria) / References: GenBank: 1845258627

-
DNA chain , 2 types, 2 molecules 89

#55: DNA chain	templete DNA strand Mass: 11230.182 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others)
#56: DNA chain	non-templete DNA strand Mass: 11473.346 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others)

-
DNA-directed RNA polymerase subunit ... , 4 types, 5 molecules A1A2B1B2W0

#57: Protein	DNA-directed RNA polymerase subunit alpha / RNAP subunit alpha / RNA polymerase subunit alpha / Transcriptase subunit alpha Mass: 36558.680 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: rpoA / Plasmid: pVS10 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0A7Z4, DNA-directed RNA polymerase
#58: Protein	DNA-directed RNA polymerase subunit beta' / RNAP subunit beta' / RNA polymerase subunit beta' / Transcriptase subunit beta' Mass: 155366.781 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: rpoC / Plasmid: pVS10 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0A8T7, DNA-directed RNA polymerase
#59: Protein	DNA-directed RNA polymerase subunit beta / RNAP subunit beta / RNA polymerase subunit beta / Transcriptase subunit beta Mass: 150820.875 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) Gene: rpoB, groN, nitB, rif, ron, stl, stv, tabD, b3987, JW3950 Plasmid: pVS10 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0A8V2, DNA-directed RNA polymerase
#60: Protein	DNA-directed RNA polymerase subunit omega / RNAP omega subunit / RNA polymerase omega subunit / Transcriptase subunit omega Mass: 10249.547 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: rpoZ, b3649, JW3624 / Plasmid: pVS10 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0A800, DNA-directed RNA polymerase

-
Transcription termination/antitermination protein ... , 2 types, 2 molecules NANG

#61: Protein	Transcription termination/antitermination protein NusA / N utilization substance protein A / Transcription termination/antitermination L factor Mass: 54932.684 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: nusA, b3169, JW3138 / Plasmid: pET28a-NusA / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0AFF6
#62: Protein	Transcription termination/antitermination protein NusG Mass: 20560.523 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: nusG, b3982, JW3945 / Plasmid: pIA247 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0AFG0

#61: Protein

Transcription termination/antitermination protein NusA / N utilization substance protein A / Transcription termination/antitermination L factor

Mass: 54932.684 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.)

Escherichia coli K-12 (bacteria) / Gene: nusA, b3169, JW3138 / Plasmid: pET28a-NusA / Production host:

Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0AFF6

#62: Protein

Transcription termination/antitermination protein NusG

Mass: 20560.523 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.)

Escherichia coli K-12 (bacteria) / Gene: nusG, b3982, JW3945 / Plasmid: pIA247 / Production host:

Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P0AFG0

-
Polypeptide(D) / Non-polymers , 2 types, 2 molecules h

#65: Polypeptide(D)	viomycin Type: Oligopeptide / Class: Antibiotic / Mass: 703.707 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: pheV / Plasmid: pBS-Phe / Production host: Escherichia coli BL21(DE3) (bacteria) / References: Viomycin
#66: Chemical	ChemComp-MG / MAGNESIUM ION Mass: 24.305 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Formula: Mg / Feature type: SUBJECT OF INVESTIGATION

-
Details

Has ligand of interest	Y
Has protein modification	Y

-
Experimental details

-
Experiment

Experiment	Method: ELECTRON MICROSCOPY
EM experiment	Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

-
Sample preparation

Component	Name: Ternary complex of transcription-translation coupling complex Type: COMPLEX / Entity ID: #1-#65 / Source: MULTIPLE SOURCES
Molecular weight	Value: 3 MDa / Experimental value: NO
Source (natural)	Organism: Escherichia coli K-12 (bacteria)
Source (recombinant)	Organism: Escherichia coli BL21(DE3) (bacteria)
Buffer solution	pH: 7.4
Specimen	Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
Vitrification	Cryogen name: ETHANE

-
Electron microscopy imaging

Experimental equipment	Model: Talos Arctica / Image courtesy: FEI Company
Microscopy	Model: FEI TALOS ARCTICA
Electron gun	Electron source: FIELD EMISSION GUN / Accelerating voltage: 200 kV / Illumination mode: FLOOD BEAM
Electron lens	Mode: BRIGHT FIELD / Nominal defocus max: 1500 nm / Nominal defocus min: 500 nm
Image recording	Electron dose: 47 e/Å² / Film or detector model: FEI FALCON III (4k x 4k)

-
Processing

CTF correction	Type: NONE
3D reconstruction	Resolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 23000 / Symmetry type: POINT

+
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

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

+
Jul 12, 2017. Major update of PDB

-
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

-
Movie

-
Structure viewers

+
Viewer log

-
This page

-
This web site

-
Options

+
Open data

-
Basic information

-
Structure visualization

-
Downloads & links

-
Download

-
Validation report

-
Related structure data

-
Links

-
Assembly

-
Components

+
50S ribosomal protein ... , 30 types, 30 molecules ABCDEFbcdefgijklmnopqrstuvwxyz

-
30S ribosomal protein ... , 20 types, 20 molecules GHIJKLMNOPQRSTUVWXYZ

-
RNA chain , 6 types, 7 molecules 1234567

-
DNA chain , 2 types, 2 molecules 89

-
DNA-directed RNA polymerase subunit ... , 4 types, 5 molecules A1A2B1B2W0

-
Transcription termination/antitermination protein ... , 2 types, 2 molecules NANG

-
Polypeptide(D) / Non-polymers , 2 types, 2 molecules h

-
Details

-
Experimental details

-
Experiment

-
Sample preparation

-
Electron microscopy imaging

-
Processing

+
About Yorodumi

-
News

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

-
Aug 12, 2020. Covid-19 info

+
Mar 5, 2020. Novel coronavirus structure data

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

+
Jul 12, 2017. Major update of PDB

-
Yorodumi

-Movie

-Structure viewers

+Viewer log

-This page

-This web site

-Options

+Open data

-Basic information

-Structure visualization

-Downloads & links

-Download

-Validation report

-Related structure data

-Links

-Assembly

-Components

+50S ribosomal protein ... , 30 types, 30 molecules ABCDEFbcdefgijklmnopqrstuvwxyz

-30S ribosomal protein ... , 20 types, 20 molecules GHIJKLMNOPQRSTUVWXYZ

-RNA chain , 6 types, 7 molecules 1234567

-DNA chain , 2 types, 2 molecules 89

-DNA-directed RNA polymerase subunit ... , 4 types, 5 molecules A1A2B1B2W0

-Transcription termination/antitermination protein ... , 2 types, 2 molecules NANG

-Polypeptide(D) / Non-polymers , 2 types, 2 molecules h

-Details

-Experimental details

-Experiment

-Sample preparation

-Electron microscopy imaging

-Processing

+About Yorodumi

-News

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

-Aug 12, 2020. Covid-19 info

+Mar 5, 2020. Novel coronavirus structure data

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

+Jul 12, 2017. Major update of PDB

-Yorodumi

-
Movie

-
Structure viewers

+
Viewer log

-
This page

-
This web site

-
Options

+
Open data

-
Basic information

-
Structure visualization

-
Downloads & links

-
Download

-
Validation report

-
Related structure data

-
Links

-
Assembly

-
Components

+
50S ribosomal protein ... , 30 types, 30 molecules ABCDEFbcdefgijklmnopqrstuvwxyz

-
30S ribosomal protein ... , 20 types, 20 molecules GHIJKLMNOPQRSTUVWXYZ

-
RNA chain , 6 types, 7 molecules 1234567

-
DNA chain , 2 types, 2 molecules 89

-
DNA-directed RNA polymerase subunit ... , 4 types, 5 molecules A1A2B1B2W0

-
Transcription termination/antitermination protein ... , 2 types, 2 molecules NANG

-
Polypeptide(D) / Non-polymers , 2 types, 2 molecules h

-
Details

-
Experimental details

-
Experiment

-
Sample preparation

-
Electron microscopy imaging

-
Processing

+
About Yorodumi

-
News

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

-
Aug 12, 2020. Covid-19 info

+
Mar 5, 2020. Novel coronavirus structure data

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

+
Jul 12, 2017. Major update of PDB

-
Yorodumi