ISDA

Deposition Date 2020-04-20

Release Date 2020-09-30

Last Version Date 2024-10-16

Entry Detail

PDB ID:

6YS3

Keywords:

RIBOSOME

Title:

Cryo-EM structure of the 50S ribosomal subunit at 2.58 Angstroms with modeled GBC SecM peptide

Biological Source:

Source Organism:

Bos taurus (Taxon ID: 9913)
Escherichia coli BL21(DE3) (Taxon ID: 469008)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.58 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L28
Chain IDs:A (auth: 0)
Chain Length:78
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7M2 Pfam ID:PF00830

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L29
Chain IDs:B (auth: 1)
Chain Length:63
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7M6 Pfam ID:PF00831

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L30
Chain IDs:C (auth: 2)
Chain Length:59
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0AG51 Pfam ID:PF00327

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Chain IDs:D (auth: 3)
Chain Length:57
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7N4 Pfam ID:PF01783

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L33
Chain IDs:E (auth: 4)
Chain Length:55
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7N9 Pfam ID:PF00471

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L34
Chain IDs:F (auth: 6)
Chain Length:46
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7P5 Pfam ID:PF00468

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L35
Chain IDs:G (auth: 7)
Chain Length:65
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7Q1 Pfam ID:PF01632

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Chain IDs:H (auth: 8)
Chain Length:38
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7Q6 Pfam ID:PF00444

Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:I (auth: a)
Chain Length:120
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:J (auth: b)
Chain Length:2906
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L2
Chain IDs:K (auth: c)
Chain Length:273
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P60422 Pfam ID:PF00181, PF03947

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L3
Chain IDs:L (auth: d)
Chain Length:209
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P60438 Pfam ID:PF00297

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L4
Chain IDs:M (auth: e)
Chain Length:201
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P60723 Pfam ID:PF00573

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L5
Chain IDs:N (auth: f)
Chain Length:179
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P62399 Pfam ID:PF00281, PF00673

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L6
Chain IDs:O (auth: g)
Chain Length:177
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0AG55 Pfam ID:PF00347

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L9
Chain IDs:P (auth: h)
Chain Length:149
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7R1 Pfam ID:PF01281, PF03948

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L13
Chain IDs:Q (auth: j)
Chain Length:142
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0AA10 Pfam ID:PF00572

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L14
Chain IDs:R (auth: k)
Chain Length:123
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0ADY3 Pfam ID:PF00238

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L15
Chain IDs:S (auth: l)
Chain Length:144
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P02413 Pfam ID:PF00828

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L16
Chain IDs:T (auth: m)
Chain Length:136
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0ADY7 Pfam ID:PF00252

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L17
Chain IDs:U (auth: n)
Chain Length:127
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0AG44 Pfam ID:PF01196

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L18
Chain IDs:V (auth: o)
Chain Length:117
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0ADY7 Pfam ID:PF00252

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L19
Chain IDs:W (auth: p)
Chain Length:115
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7K6 Pfam ID:PF01245

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L20
Chain IDs:X (auth: q)
Chain Length:118
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7L3 Pfam ID:PF00453

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L21
Chain IDs:Y (auth: r)
Chain Length:103
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0AG48 Pfam ID:PF00829

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L22
Chain IDs:Z (auth: s)
Chain Length:110
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P61175 Pfam ID:PF00237

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L23
Chain IDs:AA (auth: t)
Chain Length:100
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0ADZ0 Pfam ID:PF00276

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L24
Chain IDs:BA (auth: u)
Chain Length:104
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P60624 Pfam ID:PF00467, PF17136

Polymer Type:polyribonucleotide
Molecule:glycine-tRNA glyT
Chain IDs:CA (auth: v)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L25
Chain IDs:DA (auth: w)
Chain Length:94
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P68919 Pfam ID:PF01386

Protein Blast

Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L27
Chain IDs:EA (auth: y)
Chain Length:85
Number of Molecules:1
Biological Source:Escherichia coli BL21(DE3)

UniProt ID:P0A7L8 Pfam ID:PF01016

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Gamma-crystallin B
Gene (Uniprot):CRYGB
Chain IDs:FA (auth: z)
Chain Length:61
Number of Molecules:1
Biological Source:Bos taurus

UniProt ID:P02526 Pfam ID:PF00030

Ligand Molecules

Primary Citation

Cryo-EM structure of the 50S ribosomal subunit at 2.58 Angstroms with modeled GBC SecM peptide

Schulte, L, Reitz, J, Mao, J, Sreeramulu, S, Kudlinzki, D, Hodirnau, V.V, Meier-Credo, J, Saxena, K, Buhr, F, Langer, J, Blackledge, M, Glaubitz, C, Frangakis, A, Schwalbe, H.Show

Nat Commun ? ? ? (2020)

Primary Citation of related structures