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Epigenetics and neurobiology

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sample_name:"Nucleolar complex protein 3 homolog"

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EMD-29258

Download Map 3D View Raw data

Human nucleolar pre-60S ribosomal subunit (State D1) - Composite map

Release date: July 12, 2023
Resolution: 2.47 Å
EM Method: Single-particle
Fitted PDBs: 8fkv
Q-score: 0.549

Vanden Broeck A, Klinge S

Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]

Sample:

60s ribosomal protein l23 (14 kDa, Protein from human)
Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
60s ribosomal protein l18a (20 kDa, Protein from human)
Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
Pescadillo homolog (68 kDa, Protein from human)
60s ribosomal protein l18 (21 kDa, Protein from human)
Gtp-binding protein 4 (74 kDa, Protein from human)
Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
Wd repeat-containing protein 74 (42 kDa, Protein from human)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l23a (17 kDa, Protein from human)
Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
60s ribosomal protein l26 (17 kDa, Protein from human)
60s ribosomal protein l13a (23 kDa, Protein from human)
Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
60s ribosomal protein l21 (18 kDa, Protein from human)
60s ribosomal protein l12 (17 kDa, Protein from human)
28s rrna (1 MDa, RNA from human)
Iron/sulfur cluster (351 Da, Ligand)
Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
Its2 rrna (376 kDa, RNA from human)
60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
60s ribosomal protein l4 (47 kDa, Protein from human)
Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
60s ribosomal protein l36 (12 kDa, Protein from human)
Potassium ion (39 Da, Ligand)
Ribosomal rna processing protein 1 homolog a (52 kDa, Protein from human)
60s ribosomal protein l10a (24 kDa, Protein from human)
Nucleolar complex protein 3 homolog (92 kDa, Protein from human)
Protein llp homolog (15 kDa, Protein from human)
Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
60s ribosomal protein l35 (14 kDa, Protein from human)
60s ribosomal protein l32 (15 kDa, Protein from human)
Ribosome production factor 1 (40 kDa, Protein from human)
Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
Nucleolar protein 16 (21 kDa, Protein from human)
60s ribosomal protein l27a (16 kDa, Protein from human)
60s ribosomal protein l13 (24 kDa, Protein from human)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
Human nucleolar pre-60s ribosomal subunit (state d1) (Complex from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from human)
60s ribosomal protein l7 (29 kDa, Protein from human)
Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
60s ribosomal protein l9 (21 kDa, Protein from human)
60s ribosomal protein l31 (14 kDa, Protein from human)
Nucleolar complex protein 2 homolog (85 kDa, Protein from human)
Protein mak16 homolog (35 kDa, Protein from human)
Adenosine-5'-diphosphate (427 Da, Ligand)
60s ribosomal protein l15 (24 kDa, Protein from human)
60s ribosomal protein l7a (30 kDa, Protein from human)
60s ribosomal protein l37 (11 kDa, Protein from human)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l35a (12 kDa, Protein from human)
60s ribosomal protein l3 (46 kDa, Protein from human)
60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
Guanosine-5'-diphosphate (443 Da, Ligand)
Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
60s ribosomal protein l14 (23 kDa, Protein from human)
60s ribosomal protein l17 (21 kDa, Protein from human)
5.8s rrna (50 kDa, RNA from human)
Mrna turnover protein 4 homolog (27 kDa, Protein from human)

[Show more]

EMD-29259

Download Map 3D View Raw data

Human nucleolar pre-60S ribosomal subunit (State D2) - Composite map

Release date: July 12, 2023
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8fkw
Q-score: 0.546

Vanden Broeck A, Klinge S

Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]

Sample:

60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
Protein llp homolog (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
Nucleolar protein 16 (21 kDa, Protein from Homo sapiens)
Atp-dependent rna helicase ddx54 (98 kDa, Protein from Homo sapiens)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
Ribosome biogenesis protein bop1 (83 kDa, Protein from Homo sapiens)
5.8s rrna (50 kDa, RNA from Homo sapiens)
Human nucleolar pre-60s ribosomal subunit (state d2) (Complex from Homo sapiens)
Nucleolar complex protein 2 homolog (85 kDa, Protein from Homo sapiens)
Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from Homo sapiens)
Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from Homo sapiens)
Mrna turnover protein 4 homolog (27 kDa, Protein from Homo sapiens)
Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l12 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
Its2 rrna (376 kDa, RNA from Homo sapiens)
Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from Homo sapiens)
60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
Atp-dependent rna helicase ddx18 (75 kDa, Protein from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
Potassium ion (39 Da, Ligand)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from Homo sapiens)
Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
Nucleolar complex protein 3 homolog (92 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
28s rrna (1 MDa, RNA from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from Homo sapiens)
Gtp-binding protein 4 (74 kDa, Protein from Homo sapiens)
Adenosine-5'-diphosphate (427 Da, Ligand)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
Probable rrna-processing protein ebp2 (34 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l7-like 1 (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
Pescadillo homolog (68 kDa, Protein from Homo sapiens)
Guanosine-5'-diphosphate (443 Da, Ligand)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from Homo sapiens)

[Show more]

EMD-29260

Download Map 3D View Raw data

Human nucleolar pre-60S ribosomal subunit (State E) - Composite map

Release date: July 12, 2023
Resolution: 2.59 Å
EM Method: Single-particle
Fitted PDBs: 8fkx
Q-score: 0.535

Vanden Broeck A, Klinge S

Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]

Sample:

60s ribosomal protein l23 (14 kDa, Protein from human)
Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
60s ribosomal protein l18a (20 kDa, Protein from human)
Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
Pescadillo homolog (68 kDa, Protein from human)
60s ribosomal protein l18 (21 kDa, Protein from human)
Gtp-binding protein 4 (74 kDa, Protein from human)
Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l23a (17 kDa, Protein from human)
Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
60s ribosomal protein l26 (17 kDa, Protein from human)
60s ribosomal protein l13a (23 kDa, Protein from human)
Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
60s ribosomal protein l21 (18 kDa, Protein from human)
60s ribosomal protein l12 (17 kDa, Protein from human)
Human nucleolar pre-60s ribosomal subunit (state e) (Complex from Homo sapiens)
28s rrna (1 MDa, RNA from human)
Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
Its2 rrna (376 kDa, RNA from human)
60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
60s ribosomal protein l4 (47 kDa, Protein from human)
Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
60s ribosomal protein l36 (12 kDa, Protein from human)
Potassium ion (39 Da, Ligand)
60s ribosomal protein l28 (15 kDa, Protein from human)
60s ribosomal protein l10a (24 kDa, Protein from human)
Nucleolar complex protein 3 homolog (92 kDa, Protein from human)
Protein llp homolog (15 kDa, Protein from human)
Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
60s ribosomal protein l35 (14 kDa, Protein from human)
60s ribosomal protein l32 (15 kDa, Protein from human)
Nucleolar protein 16 (21 kDa, Protein from human)
Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
60s ribosomal protein l27a (16 kDa, Protein from human)
60s ribosomal protein l13 (24 kDa, Protein from human)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
60s ribosomal protein l7 (29 kDa, Protein from human)
60s ribosomal protein l6 (32 kDa, Protein from human)
60s ribosomal protein l9 (21 kDa, Protein from human)
Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
60s ribosomal protein l31 (14 kDa, Protein from human)
Nucleolar complex protein 2 homolog (85 kDa, Protein from human)
Adenosine-5'-diphosphate (427 Da, Ligand)
60s ribosomal protein l15 (24 kDa, Protein from human)
60s ribosomal protein l7a (30 kDa, Protein from human)
60s ribosomal protein l37 (11 kDa, Protein from human)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l35a (12 kDa, Protein from human)
60s ribosomal protein l3 (46 kDa, Protein from human)
60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
Guanosine-5'-diphosphate (443 Da, Ligand)
Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
60s ribosomal protein l14 (23 kDa, Protein from human)
60s ribosomal protein l17 (21 kDa, Protein from human)
5.8s rrna (50 kDa, RNA from human)
Mrna turnover protein 4 homolog (27 kDa, Protein from human)

[Show more]

EMD-29261

Download Map 3D View Raw data

Human nucleolar pre-60S ribosomal subunit (State F) - Composite map

Release date: July 12, 2023
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 8fky
Q-score: 0.519

Vanden Broeck A, Klinge S

Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]

Sample:

60s ribosomal protein l23 (14 kDa, Protein from human)
Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
60s ribosomal protein l18a (20 kDa, Protein from human)
Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
Pescadillo homolog (68 kDa, Protein from human)
60s ribosomal protein l18 (21 kDa, Protein from human)
Gtp-binding protein 4 (74 kDa, Protein from human)
Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l23a (17 kDa, Protein from human)
Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
60s ribosomal protein l26 (17 kDa, Protein from human)
60s ribosomal protein l13a (23 kDa, Protein from human)
Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
60s ribosomal protein l21 (18 kDa, Protein from human)
Ribosome biogenesis protein wdr12 (47 kDa, Protein from human)
60s ribosomal protein l12 (17 kDa, Protein from human)
60s ribosomal protein l19 (23 kDa, Protein from human)
60s ribosomal protein l30 (12 kDa, Protein from human)
Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
Its2 rrna (376 kDa, RNA from human)
60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
60s ribosomal protein l4 (47 kDa, Protein from human)
Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
60s ribosomal protein l36 (12 kDa, Protein from human)
Potassium ion (39 Da, Ligand)
60s ribosomal protein l27 (15 kDa, Protein from human)
60s ribosomal protein l28 (15 kDa, Protein from human)
60s ribosomal protein l10a (24 kDa, Protein from human)
Nucleolar complex protein 3 homolog (92 kDa, Protein from human)
Protein llp homolog (15 kDa, Protein from human)
Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
60s ribosomal protein l35 (14 kDa, Protein from human)
60s ribosomal protein l32 (15 kDa, Protein from human)
Nucleolar protein 16 (21 kDa, Protein from human)
Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
60s ribosomal protein l27a (16 kDa, Protein from human)
60s ribosomal protein l13 (24 kDa, Protein from human)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
60s ribosomal protein l7 (29 kDa, Protein from human)
60s ribosomal protein l6 (32 kDa, Protein from human)
60s ribosomal protein l9 (21 kDa, Protein from human)
Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
60s ribosomal protein l31 (14 kDa, Protein from human)
Nucleolar complex protein 2 homolog (85 kDa, Protein from human)
Adenosine-5'-diphosphate (427 Da, Ligand)
60s ribosomal protein l15 (24 kDa, Protein from human)
28s rrna (1 MDa, RNA from human)
60s ribosomal protein l7a (30 kDa, Protein from human)
60s ribosomal protein l34 (13 kDa, Protein from human)
Wd repeat-containing protein 55 (42 kDa, Protein from human)
60s ribosomal protein l37 (11 kDa, Protein from human)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l35a (12 kDa, Protein from human)
60s ribosomal protein l3 (46 kDa, Protein from human)
60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
Guanosine-5'-diphosphate (443 Da, Ligand)
Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
Human nucleolar pre-60s ribosomal subunit (state f) (Complex from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from human)
60s ribosomal protein l17 (21 kDa, Protein from human)
5.8s rrna (50 kDa, RNA from human)
Mrna turnover protein 4 homolog (27 kDa, Protein from human)

[Show more]

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Showing 1 - 4 of 4. Page 1 of 1

Display: Statistics

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Select database:

EMDB [4]

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

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