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EMBL

was set up in 1974 as Europe’s flagship laboratory for the life sciences – an intergovernmental organisation with more than 80 independent research groups covering the spectrum of molecular biology:

Research:

perform basic research in molecular biology

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offer vital services to scientists in the member states

Training

scientists, students and visitors at all levels

Transfer

and development of technology

Develop

new instruments and methods

Integrating

life science research in Europe

More about EMBL

Six sites

represent EMBL in Europe.

Barcelona

Tissue biology and disease modelling

Grenoble

Structural biology

Hamburg

Structural biology

Heidelberg

Main laboratory

Hinxton

EMBL-EBI: European Bioinformatics Institute

Rome

Epigenetics and neurobiology

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sample_name:"SPERMINE" AND xref_links:"interpro" AND xref_links:"pfam" AND author_name:"Khawaja A"

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EMD-13170

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Human mitochondrial ribosome small subunit in complex with IF3, GMPPMP and streptomycin

Release date: July 27, 2022
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 7p2e
Q-score: 0.667

Itoh Y, Singh V, Khawaja A, Naschberger A, Nguyen MD, Rorbach J, Amunts A

eLife (2022) 11 [ Pubmed: 36480258 DOI: doi:10.7554/eLife.77460 ]

Sample:

28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
Translation initiation factor if-3, mitochondrial (Complex from Homo sapiens)
Small subunit of human mitochondrial ribosome in complex with initiation factor 3 (Complex)
28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
Spermine (202 Da, Ligand)
28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
[(2~{s},3~{s},4~{s},5~{r},6~{s})-2-[(2~{r},3~{r},4~{r},5~{s})-2-[(1~{r},2~{s},3~{r},4~{r},5~{s},6~{r})-2,4-bis[[azaniumylidene(azanyl)methyl]amino]-3,5,6-tris(oxidanyl)cyclohexyl]oxy-4-[bis(oxidanyl)methyl]-5-methyl-4-oxidanyl-oxolan-3-yl]oxy-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]-methyl-azanium (602 Da, Ligand)
Potassium ion (39 Da, Ligand)
28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
Adenosine-5'-triphosphate (507 Da, Ligand)
12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
Water (18 Da, Ligand)
Translation initiation factor if-3, mitochondrial (32 kDa, Protein from Homo sapiens)
28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
Fe2/s2 (inorganic) cluster (175 Da, Ligand)
Small subunit of human mitochondrial ribosome in complex (Complex from Homo sapiens)
28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Homo sapiens)

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EMD-10021

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Structure of human mitochondrial 28S ribosome in complex with mitochondrial IF3

Release date: June 3, 2020
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 6rw4
Q-score: 0.599

Khawaja A, Itoh Y, Remes C, Spahr H, Yukhnovets O, Hofig H, Amunts A, Rorbach J

Nat Commun (2020) 11 pp. 2932-2932 [ DOI: doi:10.1038/s41467-020-16503-2 Pubmed: 32522994 ]

Sample:

28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
Ribosome (Complex from Homo sapiens)
28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
If3 bound mitochondrial translation pre-initiation complex (1 MDa, Complex)
28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
If3 (Complex from Homo sapiens)
28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
Spermine (202 Da, Ligand)
28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
Potassium ion (39 Da, Ligand)
28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
Streptomycin (581 Da, Ligand)
Zinc ion (65 Da, Ligand)
Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
Adenosine-5'-triphosphate (507 Da, Ligand)
12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
Water (18 Da, Ligand)
Translation initiation factor if-3, mitochondrial (32 kDa, Protein from Homo sapiens)
28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
Fe2/s2 (inorganic) cluster (175 Da, Ligand)
28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Homo sapiens)

[Show more]

EMD-10022

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Structure of human mitochondrial 28S ribosome in complex with mitochondrial IF2 and IF3

Release date: June 3, 2020
Resolution: 3.14 Å
EM Method: Single-particle
Fitted PDBs: 6rw5
Q-score: 0.551

Khawaja A, Itoh Y, Remes C, Spahr H, Yukhnovets O, Hofig H, Amunts A, Rorbach J

Nat Commun (2020) 11 pp. 2932-2932 [ DOI: doi:10.1038/s41467-020-16503-2 Pubmed: 32522994 ]

Sample:

If3 (Complex from Homo sapiens)
Potassium ion (39 Da, Ligand)
28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Homo sapiens)
If2 (Complex from Homo sapiens)
28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
Translation initiation factor if-3, mitochondrial (32 kDa, Protein from Homo sapiens)
28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
Ribosome (Complex from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Adenosine-5'-triphosphate (507 Da, Ligand)
Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
Fe2/s2 (inorganic) cluster (175 Da, Ligand)
If2 and if3 bound mitochondrial translation pre-initiation complex (1 MDa, Complex)
28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
Streptomycin (581 Da, Ligand)
28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
Spermine (202 Da, Ligand)
28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
Translation initiation factor if-2, mitochondrial (77 kDa, Protein from Homo sapiens)
28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
Water (18 Da, Ligand)
28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)

[Show more]

Sort by: Download

Showing 1 - 3 of 3. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [3]

Format:

Select the script type:

Shell (Unix-based) Batch (Windows-based)

Preview first 10

Field: