ISDA

Deposition Date 2020-07-02

Release Date 2020-08-12

Last Version Date 2024-05-01

Entry Detail

PDB ID:

6ZME

Keywords:

VIRAL PROTEIN

Title:

SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complex

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)
Severe acute respiratory syndrome coronavirus 2 (Taxon ID: 2697049)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.00 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proliferation-associated protein 2G4
Gene (Uniprot):PA2G4
Chain IDs:EC (auth: CA)
Chain Length:394
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9UQ80 Pfam ID:PF00557

Polymer Type:polyribonucleotide
Molecule:tRNA
Chain IDs:FC (auth: CC)
Chain Length:75
Number of Molecules:1
Biological Source:Homo sapiens

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Coiled-coil domain-containing protein 124
Gene (Uniprot):CCDC124
Chain IDs:GC (auth: CE)
Chain Length:223
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q96CT7 Pfam ID:PF06244

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Non-structural protein 1
Gene (Uniprot):rep
Chain IDs:HC (auth: CF)
Chain Length:180
Number of Molecules:1
Biological Source:Severe acute respiratory syndrome coronavirus 2

UniProt ID:P0DTD1 Pfam ID:PF11501 EC:2.7.7.48

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Eukaryotic peptide chain release factor subunit 1
Gene (Uniprot):ETF1
Chain IDs:JC (auth: CH)
Chain Length:437
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62495 Pfam ID:PF03463, PF03464, PF03465

Protein Blast

Polymer Type:polypeptide(L)
Molecule:ATP-binding cassette sub-family E member 1
Gene (Uniprot):ABCE1
Chain IDs:IC (auth: CI)
Chain Length:599
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61221 Pfam ID:PF04068, PF00037, PF00005

Polymer Type:polyribonucleotide
Molecule:28S ribosomal RNA
Chain IDs:A (auth: L5)
Chain Length:5066
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polyribonucleotide
Molecule:5S ribosomal RNA
Chain IDs:B (auth: L7)
Chain Length:121
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polyribonucleotide
Molecule:5.8S ribosomal RNA
Chain IDs:C (auth: L8)
Chain Length:157
Number of Molecules:1
Biological Source:Homo sapiens

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L8
Gene (Uniprot):RPL8
Chain IDs:D (auth: LA)
Chain Length:148
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62917 Pfam ID:PF00181, PF03947

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L3
Gene (Uniprot):RPL3
Chain IDs:E (auth: LB)
Chain Length:159
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P39023 Pfam ID:PF00297

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L4
Gene (Uniprot):RPL4
Chain IDs:F (auth: LC)
Chain Length:427
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P36578 Pfam ID:PF00573, PF14374

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L5
Gene (Uniprot):RPL5
Chain IDs:G (auth: LD)
Chain Length:297
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P46777 Pfam ID:PF17144, PF14204

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L6
Gene (Uniprot):RPL6
Chain IDs:H (auth: LE)
Chain Length:288
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q02878 Pfam ID:PF03868, PF01159

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7
Gene (Uniprot):RPL7
Chain IDs:I (auth: LF)
Chain Length:110
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P18124 Pfam ID:PF08079, PF00327

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7a
Gene (Uniprot):RPL7A
Chain IDs:J (auth: LG)
Chain Length:117
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62424 Pfam ID:PF01248

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L9
Gene (Uniprot):RPL9, RPL9P7, RPL9P8, RPL9P9
Chain IDs:K (auth: LH)
Chain Length:123
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P32969 Pfam ID:PF00347

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L10-like
Gene (Uniprot):RPL10L
Chain IDs:L (auth: LI)
Chain Length:214
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q96L21 Pfam ID:PF00252

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L11
Gene (Uniprot):RPL11
Chain IDs:M (auth: LJ)
Chain Length:97
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62913 Pfam ID:PF00281, PF00673

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13
Gene (Uniprot):RPL13
Chain IDs:N (auth: LL)
Chain Length:211
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P26373 Pfam ID:PF01294

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L14
Gene (Uniprot):RPL14
Chain IDs:O (auth: LM)
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P50914 Pfam ID:PF01929

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L15
Gene (Uniprot):RPL15
Chain IDs:P (auth: LN)
Chain Length:204
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61313 Pfam ID:PF00827

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13a
Gene (Uniprot):RPL13A
Chain IDs:Q (auth: LO)
Chain Length:106
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P40429 Pfam ID:PF00572

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L17
Gene (Uniprot):RPL17
Chain IDs:R (auth: LP)
Chain Length:92
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P18621 Pfam ID:PF00237

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18
Gene (Uniprot):RPL18
Chain IDs:S (auth: LQ)
Chain Length:188
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q07020 Pfam ID:PF17135

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L19
Gene (Uniprot):RPL19
Chain IDs:T (auth: LR)
Chain Length:196
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P84098 Pfam ID:PF01280

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18a
Gene (Uniprot):RPL18A
Chain IDs:U (auth: LS)
Chain Length:176
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q02543 Pfam ID:PF01775

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L21
Gene (Uniprot):RPL21
Chain IDs:V (auth: LT)
Chain Length:160
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P46778 Pfam ID:PF01157

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L22
Gene (Uniprot):RPL22
Chain IDs:W (auth: LU)
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P35268 Pfam ID:PF01776

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L23
Gene (Uniprot):RPL23
Chain IDs:X (auth: LV)
Chain Length:140
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62829 Pfam ID:PF00238

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L24
Gene (Uniprot):RPL24
Chain IDs:Y (auth: LW)
Chain Length:157
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P83731 Pfam ID:PF01246

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L23a
Gene (Uniprot):RPL23A
Chain IDs:Z (auth: LX)
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62750 Pfam ID:PF03939, PF00276

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L26
Gene (Uniprot):RPL26
Chain IDs:AA (auth: LY)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61254 Pfam ID:PF16906, PF00467

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27
Gene (Uniprot):RPL27
Chain IDs:BA (auth: LZ)
Chain Length:136
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61353 Pfam ID:PF00467, PF01777

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27a
Gene (Uniprot):RPL27A
Chain IDs:CA (auth: La)
Chain Length:148
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P46776 Pfam ID:PF00828

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L29
Gene (Uniprot):RPL29
Chain IDs:DA (auth: Lb)
Chain Length:159
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P47914 Pfam ID:PF01779

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L30
Gene (Uniprot):RPL30
Chain IDs:EA (auth: Lc)
Chain Length:427
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62888 Pfam ID:PF01248

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L31
Gene (Uniprot):RPL31
Chain IDs:FA (auth: Ld)
Chain Length:297
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62899 Pfam ID:PF01198

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L32
Gene (Uniprot):RPL32
Chain IDs:GA (auth: Le)
Chain Length:288
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62910 Pfam ID:PF01655

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35a
Gene (Uniprot):RPL35A
Chain IDs:HA (auth: Lf)
Chain Length:110
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P18077 Pfam ID:PF01247

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L34
Gene (Uniprot):RPL34
Chain IDs:IA (auth: Lg)
Chain Length:117
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P49207 Pfam ID:PF01199

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35
Gene (Uniprot):RPL35
Chain IDs:JA (auth: Lh)
Chain Length:123
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P42766 Pfam ID:PF00831

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L36
Gene (Uniprot):RPL36
Chain IDs:KA (auth: Li)
Chain Length:214
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9Y3U8 Pfam ID:PF01158

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L37
Gene (Uniprot):RPL37
Chain IDs:LA (auth: Lj)
Chain Length:97
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61927 Pfam ID:PF01907

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L38
Gene (Uniprot):RPL38
Chain IDs:MA (auth: Lk)
Chain Length:70
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P63173 Pfam ID:PF01781

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L39
Gene (Uniprot):RPL39
Chain IDs:NA (auth: Ll)
Chain Length:211
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62891 Pfam ID:PF00832

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin-60S ribosomal protein L40
Gene (Uniprot):UBA52
Chain IDs:OA (auth: Lm)
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62987 Pfam ID:PF00240, PF01020

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L41
Gene (Uniprot):RPL41
Chain IDs:PA (auth: Ln)
Chain Length:204
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62945 Pfam ID:PF05162

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L36a
Gene (Uniprot):RPL36A
Chain IDs:QA (auth: Lo)
Chain Length:106
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P83881 Pfam ID:PF00935

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L37a
Gene (Uniprot):RPL37A
Chain IDs:RA (auth: Lp)
Chain Length:92
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61513 Pfam ID:PF01780

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L28
Gene (Uniprot):RPL28
Chain IDs:SA (auth: Lr)
Chain Length:196
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P46779 Pfam ID:PF01778

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S acidic ribosomal protein P0
Gene (Uniprot):RPLP0
Chain IDs:TA (auth: Ls)
Chain Length:176
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P05388 Pfam ID:PF00466, PF17777, PF00428

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L12
Gene (Uniprot):RPL12
Chain IDs:UA (auth: Lt)
Chain Length:160
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P30050 Pfam ID:PF03946, PF00298

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L10a
Gene (Uniprot):RPL10A
Chain IDs:VA (auth: Lz)
Chain Length:136
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62906 Pfam ID:PF00687

Polymer Type:polyribonucleotide
Molecule:18S ribosomal RNA
Chain IDs:WA (auth: S2)
Chain Length:1869
Number of Molecules:1
Biological Source:Homo sapiens

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein SA
Gene (Uniprot):RPSA
Chain IDs:XA (auth: SA)
Chain Length:115
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P08865 Pfam ID:PF00318, PF16122

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S3a
Gene (Uniprot):RPS3A
Chain IDs:YA (auth: SB)
Chain Length:264
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P61247 Pfam ID:PF01015

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S2
Gene (Uniprot):RPS2
Chain IDs:SB (auth: SC)
Chain Length:69
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P15880 Pfam ID:PF00333, PF03719

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S3
Gene (Uniprot):RPS3
Chain IDs:ZA (auth: SD)
Chain Length:243
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P23396 Pfam ID:PF07650, PF00189

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S4, X isoform
Gene (Uniprot):RPS4X
Chain IDs:AB (auth: SE)
Chain Length:263
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62701 Pfam ID:PF08071, PF00900, PF00467, PF16121

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S5
Gene (Uniprot):RPS5
Chain IDs:BB (auth: SF)
Chain Length:204
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P46782 Pfam ID:PF00177

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S6
Gene (Uniprot):RPS6
Chain IDs:TB (auth: SG)
Chain Length:317
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62753 Pfam ID:PF01092

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S7
Gene (Uniprot):RPS7
Chain IDs:CB (auth: SH)
Chain Length:194
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62081 Pfam ID:PF01251

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S8
Gene (Uniprot):RPS8
Chain IDs:DB (auth: SI)
Chain Length:208
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62241 Pfam ID:PF01201

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S9
Gene (Uniprot):RPS9
Chain IDs:UB (auth: SJ)
Chain Length:194
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P46781 Pfam ID:PF00163, PF01479

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S10
Gene (Uniprot):RPS10
Chain IDs:EB (auth: SK)
Chain Length:165
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P46783 Pfam ID:PF03501

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S11
Gene (Uniprot):RPS11
Chain IDs:FB (auth: SL)
Chain Length:158
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62280 Pfam ID:PF16205, PF00366

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S12
Gene (Uniprot):RPS12
Chain IDs:VB (auth: SM)
Chain Length:132
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P25398 Pfam ID:PF01248

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S13
Gene (Uniprot):RPS13
Chain IDs:WB (auth: SN)
Chain Length:151
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62277 Pfam ID:PF08069, PF00312

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S14
Gene (Uniprot):RPS14
Chain IDs:XB (auth: SO)
Chain Length:151
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62263 Pfam ID:PF00411

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S15
Gene (Uniprot):RPS15
Chain IDs:GB (auth: SP)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62841 Pfam ID:PF00203

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S16
Gene (Uniprot):RPS16
Chain IDs:HB (auth: SQ)
Chain Length:146
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62249 Pfam ID:PF00380

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S17
Gene (Uniprot):RPS17
Chain IDs:IB (auth: SR)
Chain Length:135
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P08708 Pfam ID:PF00833

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S18
Gene (Uniprot):RPS18
Chain IDs:JB (auth: SS)
Chain Length:152
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62269 Pfam ID:PF00416

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S19
Gene (Uniprot):RPS19
Chain IDs:KB (auth: ST)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P39019 Pfam ID:PF01090

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S20
Gene (Uniprot):RPS20
Chain IDs:LB (auth: SU)
Chain Length:119
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P60866 Pfam ID:PF00338

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S21
Gene (Uniprot):RPS21
Chain IDs:MB (auth: SV)
Chain Length:83
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P63220 Pfam ID:PF01249

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S15a
Gene (Uniprot):RPS15A
Chain IDs:YB (auth: SW)
Chain Length:130
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62244 Pfam ID:PF00410

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S23
Gene (Uniprot):RPS23
Chain IDs:NB (auth: SX)
Chain Length:143
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62266 Pfam ID:PF00164

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24
Gene (Uniprot):RPS24
Chain IDs:ZB (auth: SY)
Chain Length:133
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62847 Pfam ID:PF01282

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S25
Gene (Uniprot):RPS25
Chain IDs:AC (auth: SZ)
Chain Length:125
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62851 Pfam ID:PF03297

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S26
Gene (Uniprot):RPS26
Chain IDs:OB (auth: Sa)
Chain Length:115
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62854 Pfam ID:PF01283

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S27
Gene (Uniprot):RPS27
Chain IDs:BC (auth: Sb)
Chain Length:264
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P42677 Pfam ID:PF01667

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S28
Gene (Uniprot):RPS28
Chain IDs:PB (auth: Sc)
Chain Length:69
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62857 Pfam ID:PF01200

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S29
Gene (Uniprot):RPS29
Chain IDs:QB (auth: Sd)
Chain Length:243
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62273 Pfam ID:PF00253

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S30
Gene (Uniprot):FAU
Chain IDs:CC (auth: Se)
Chain Length:263
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62861 Pfam ID:PF04758

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin-40S ribosomal protein S27a
Gene (Uniprot):RPS27A
Chain IDs:DC (auth: Sf)
Chain Length:204
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P62979 Pfam ID:PF00240, PF01599

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Receptor of activated protein C kinase 1
Gene (Uniprot):RACK1
Chain IDs:RB (auth: Sg)
Chain Length:317
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P63244 Pfam ID:PF00400

Ligand Molecules

ADP

SF4

Primary Citation

Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2.

Thoms, M, Buschauer, R, Ameismeier, M, Koepke, L, Denk, T, Hirschenberger, M, Kratzat, H, Hayn, M, Mackens-Kiani, T, Cheng, J, Straub, J.H, Sturzel, C.M, Frohlich, T, Berninghausen, O, Becker, T, Kirchhoff, F, Sparrer, K.M.J, Beckmann, R.Show

Science 369 1249 1255 (2020)

PMID: 32680882 DOI: 10.1126/science.abc8665

Abstact

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the causative agent of the current coronavirus disease 2019 (COVID-19) pandemic. A major virulence factor of SARS-CoVs is the nonstructural protein 1 (Nsp1), which suppresses host gene expression by ribosome association. Here, we show that Nsp1 from SARS-CoV-2 binds to the 40S ribosomal subunit, resulting in shutdown of messenger RNA (mRNA) translation both in vitro and in cells. Structural analysis by cryo-electron microscopy of in vitro-reconstituted Nsp1-40S and various native Nsp1-40S and -80S complexes revealed that the Nsp1 C terminus binds to and obstructs the mRNA entry tunnel. Thereby, Nsp1 effectively blocks retinoic acid-inducible gene I-dependent innate immune responses that would otherwise facilitate clearance of the infection. Thus, the structural characterization of the inhibitory mechanism of Nsp1 may aid structure-based drug design against SARS-CoV-2.

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Protein

Chemical

Disease

Primary Citation of related structures