ISDA: 7QWQ

Deposition Date 2022-01-25

Release Date 2022-03-16

Last Version Date 2024-07-17

Entry Detail

PDB ID:

7QWQ

Keywords:

RIBOSOME

Title:

Ternary complex of ribosome nascent chain with SRP and NAC

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)
Oryctolagus cuniculus (Taxon ID: 9986)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.83 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:SRP RNA 7SL
Chain IDs:A (auth: 1)
Chain Length:167
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polyribonucleotide
Molecule:28S rRNA
Chain IDs:I (auth: 5)
Chain Length:4754
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Polymer Type:polyribonucleotide
Molecule:5S ribosomal RNA
Chain IDs:UA (auth: 7)
Chain Length:120
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Polymer Type:polyribonucleotide
Molecule:5.8S ribosomal RNA
Chain IDs:WA (auth: 8)
Chain Length:156
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:L8
Gene (Uniprot):RPL8
Chain IDs:G (auth: A)
Chain Length:148
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TT27 Pfam ID:PF00181, PF03947

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uL3
Gene (Uniprot):RPL3
Chain IDs:J (auth: B)
Chain Length:223
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:G1TL06 Pfam ID:PF00297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L4
Gene (Uniprot):RPL4
Chain IDs:L (auth: C)
Chain Length:413
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SVW5 Pfam ID:PF00573, PF14374

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal_L18_c domain-containing protein
Chain IDs:N (auth: D)
Chain Length:125
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:P19949

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L6
Gene (Uniprot):RPL6
Chain IDs:P (auth: E)
Chain Length:291
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SKF7 Pfam ID:PF03868, PF01159

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uL30
Gene (Uniprot):RPL7
Chain IDs:R (auth: F)
Chain Length:225
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SV32 Pfam ID:PF08079, PF00327

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7a
Gene (Uniprot):RPL7A
Chain IDs:T (auth: G)
Chain Length:319
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1STW0 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L9
Gene (Uniprot):RPL9
Chain IDs:V (auth: H)
Chain Length:123
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SWI6 Pfam ID:PF00347

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L10
Gene (Uniprot):RPL10
Chain IDs:X (auth: I)
Chain Length:214
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:B7NZQ2 Pfam ID:PF00252

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L11
Gene (Uniprot):RPL11
Chain IDs:Z (auth: J)
Chain Length:97
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TUB8 Pfam ID:PF00281, PF00673

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13
Chain IDs:BA (auth: L)
Chain Length:210
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L14
Chain IDs:DA (auth: M)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SZ12 Pfam ID:PF01929

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L15
Gene (Uniprot):RPL15
Chain IDs:FA (auth: N)
Chain Length:204
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1T0C1 Pfam ID:PF00827

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13a
Gene (Uniprot):FLT3LG
Chain IDs:HA (auth: O)
Chain Length:500
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:A0A287B929 Pfam ID:PF02947

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L17
Chain IDs:JA (auth: P)
Chain Length:153
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Polymer Type:polypeptide(L)
Molecule:eL18
Chain IDs:LA (auth: Q)
Chain Length:144
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L19
Gene (Uniprot):RPL19
Chain IDs:NA (auth: R)
Chain Length:137
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:Q3T0W9 Pfam ID:PF01280

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18a
Chain IDs:OA (auth: S)
Chain Length:175
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L21
Gene (Uniprot):RPL21
Chain IDs:PA (auth: T)
Chain Length:160
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SHQ2 Pfam ID:PF01157

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L22
Chain IDs:QA (auth: U)
Chain Length:162
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L23
Gene (Uniprot):RPL23
Chain IDs:RA (auth: V)
Chain Length:140
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1T6D1 Pfam ID:PF00238

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L24
Gene (Uniprot):RPL24
Chain IDs:SA (auth: W)
Chain Length:157
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SE28 Pfam ID:PF01246

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal_L23eN domain-containing protein
Gene (Uniprot):RPL23A
Chain IDs:TA (auth: X)
Chain Length:156
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SE76 Pfam ID:PF03939, PF00276

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L26
Gene (Uniprot):RPL26
Chain IDs:VA (auth: Y)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SQH0 Pfam ID:PF16906, PF00467

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27
Gene (Uniprot):RPL27
Chain IDs:XA (auth: Z)
Chain Length:136
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TXF6 Pfam ID:PF00467, PF01777

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27a
Gene (Uniprot):RPL27A
Chain IDs:YA (auth: a)
Chain Length:148
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SNY0 Pfam ID:PF00828

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L29
Chain IDs:H (auth: b)
Chain Length:223
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SGR6 Pfam ID:PF01779

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L30
Gene (Uniprot):RPL30
Chain IDs:K (auth: c)
Chain Length:413
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TDL2 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L31
Gene (Uniprot):RPL31
Chain IDs:M (auth: d)
Chain Length:125
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SHG0 Pfam ID:PF01198

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L32
Gene (Uniprot):RPL32
Chain IDs:O (auth: e)
Chain Length:291
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TUN8 Pfam ID:PF01655

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35a
Gene (Uniprot):RPL35A
Chain IDs:Q (auth: f)
Chain Length:225
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SF08 Pfam ID:PF01247

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L34
Chain IDs:S (auth: g)
Chain Length:319
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TXG5 Pfam ID:PF01199

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35
Gene (Uniprot):RPL35
Chain IDs:U (auth: h)
Chain Length:123
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SIT5 Pfam ID:PF00831

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L36
Gene (Uniprot):RPL36
Chain IDs:W (auth: i)
Chain Length:214
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TTQ5 Pfam ID:PF01158

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L37
Gene (Uniprot):RPL37
Chain IDs:Y (auth: j)
Chain Length:97
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:U3KPD5 Pfam ID:PF01907

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L38
Gene (Uniprot):RPL38
Chain IDs:AA (auth: k)
Chain Length:69
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:B5FYZ2 Pfam ID:PF01781

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L39
Gene (Uniprot):RPL39
Chain IDs:CA (auth: l)
Chain Length:210
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SYU7 Pfam ID:PF00832

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin A-52 residue ribosomal protein fusion product 1
Gene (Uniprot):UBA52
Chain IDs:EA (auth: m)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:A0A2U3YV30 Pfam ID:PF00240, PF01020

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60s ribosomal protein l41
Gene (Uniprot):RPL41
Chain IDs:GA (auth: n)
Chain Length:204
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:A0A087WNH4 Pfam ID:PF05162

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL42
Chain IDs:IA (auth: o)
Chain Length:500
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:A0A5F9D391 Pfam ID:PF00935

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL43
Gene (Uniprot):RPL37A
Chain IDs:KA (auth: p)
Chain Length:153
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SY53 Pfam ID:PF01780

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Signal recognition particle 19 kDa protein
Gene (Uniprot):SRP19
Chain IDs:B (auth: q)
Chain Length:144
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P09132 Pfam ID:PF01922

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L28
Gene (Uniprot):RPL28
Chain IDs:MA (auth: r)
Chain Length:137
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1U7L1 Pfam ID:PF01778

Polymer Type:polypeptide(L)
Molecule:Nascent chain preprolactin
Chain IDs:C (auth: s)
Chain Length:175
Number of Molecules:1
Biological Source:Homo sapiens

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Nascent polypeptide-associated complex subunit alpha
Gene (Uniprot):NACA
Chain IDs:ZA (auth: t)
Chain Length:160
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q13765 Pfam ID:PF01849, PF19026

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Isoform 2 of Transcription factor BTF3
Gene (Uniprot):BTF3
Chain IDs:D (auth: u)
Chain Length:162
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P20290 Pfam ID:PF01849

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Signal recognition particle subunit SRP68
Gene (Uniprot):SRP68
Chain IDs:E (auth: v)
Chain Length:140
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9UHB9 Pfam ID:PF16969

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Signal recognition particle 54 kDa protein
Gene (Uniprot):SRP54
Chain IDs:F (auth: x)
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61011 Pfam ID:PF02881, PF00448, PF02978

Ligand Molecules

Primary Citation

Mechanism of signal sequence handover from NAC to SRP on ribosomes during ER-protein targeting.

Jomaa, A, Gamerdinger, M, Hsieh, H.H, Wallisch, A, Chandrasekaran, V, Ulusoy, Z, Scaiola, A, Hegde, R.S, Shan, S.O, Ban, N, Deuerling, E.Show

Science 375 839 844 (2022)

PMID: 35201867 DOI: 10.1126/science.abl6459

Abstact

The nascent polypeptide-associated complex (NAC) interacts with newly synthesized proteins at the ribosomal tunnel exit and competes with the signal recognition particle (SRP) to prevent mistargeting of cytosolic and mitochondrial polypeptides to the endoplasmic reticulum (ER). How NAC antagonizes SRP and how this is overcome by ER targeting signals are unknown. Here, we found that NAC uses two domains with opposing effects to control SRP access. The core globular domain prevented SRP from binding to signal-less ribosomes, whereas a flexibly attached domain transiently captured SRP to permit scanning of nascent chains. The emergence of an ER-targeting signal destabilized NAC's globular domain and facilitated SRP access to the nascent chain. These findings elucidate how NAC hands over the signal sequence to SRP and imparts specificity of protein localization.

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Protein

Chemical

Disease

Primary Citation of related structures