ISDA: 9YPW

Deposition Date 2025-10-14

Release Date 2025-12-31

Last Version Date 2025-12-31

Entry Detail

PDB ID:

9YPW

Keywords:

RIBOSOME

Title:

GTPBP1*GDP*Phe-tRNA*ribosome in the post-GTP hydrolysis state, Structure IV

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)
Oryctolagus cuniculus (Taxon ID: 9986)
Saccharomyces cerevisiae (Taxon ID: 4932)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.90 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:MF mRNA
Chain IDs:AC (auth: 10)
Chain Length:185
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Polymer Type:polyribonucleotide
Molecule:Phe-tRNA
Chain IDs:BC (auth: 12)
Chain Length:76
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

Polymer Type:polyribonucleotide
Molecule:Met-tRNA
Chain IDs:CC (auth: 13), EC (auth: 11)
Chain Length:75
Number of Molecules:2
Biological Source:Homo sapiens

Polymer Type:polyribonucleotide
Molecule:28S ribosomal RNA
Chain IDs:A (auth: 5)
Chain Length:3601
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

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

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

Polymer Type:polyribonucleotide
Molecule:18S ribosomal RNA
Chain IDs:D (auth: 9)
Chain Length:1869
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L8
Gene (Uniprot):RPL8
Chain IDs:E (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:uS2 (SA)
Gene (Uniprot):RPSA
Chain IDs:TA (auth: AA)
Chain Length:295
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TLT8 Pfam ID:PF00318, PF16122

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L3
Gene (Uniprot):RPL3
Chain IDs:F (auth: B)
Chain Length:403
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TL06 Pfam ID:PF00297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S3a
Gene (Uniprot):RPS3A
Chain IDs:UA (auth: BB)
Chain Length:264
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SS70 Pfam ID:PF01015

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L4
Gene (Uniprot):RPL4
Chain IDs:G (auth: C)
Chain Length:425
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:Small ribosomal subunit protein uS5
Gene (Uniprot):RPS2
Chain IDs:VA (auth: CC)
Chain Length:293
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SWM1 Pfam ID:PF00333, PF03719

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL18
Gene (Uniprot):RPL5
Chain IDs:H (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:Ribosomal protein S3
Gene (Uniprot):RPS3
Chain IDs:WA (auth: DD)
Chain Length:56
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TNM3 Pfam ID:PF07650, PF00189

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L6
Gene (Uniprot):RPL6
Chain IDs:I (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:eS4 (S4 X isoform)
Gene (Uniprot):RPS4X
Chain IDs:XA (auth: EE)
Chain Length:263
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TK17 Pfam ID:PF08071, PF00900, PF00467, PF16121

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S5
Gene (Uniprot):RPS5
Chain IDs:YA (auth: FF)
Chain Length:204
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TFM5 Pfam ID:PF00177

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7a
Gene (Uniprot):RPL7A
Chain IDs:J (auth: G)
Chain Length:116
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:40S ribosomal protein S6
Gene (Uniprot):RPS6
Chain IDs:ZA (auth: GG)
Chain Length:317
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TM55 Pfam ID:PF01092

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L9
Gene (Uniprot):RPL9
Chain IDs:K (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:40S ribosomal protein S7
Gene (Uniprot):RPS7
Chain IDs:AB (auth: HH)
Chain Length:194
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SVB0

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L10
Gene (Uniprot):RPL10
Chain IDs:L (auth: I)
Chain Length:105
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:40S ribosomal protein S8
Gene (Uniprot):RPS8
Chain IDs:BB (auth: II)
Chain Length:208
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TJW1 Pfam ID:PF01201

Structures with similar UniProt ID

Protein Blast

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

UniProt ID:G1TUB8 Pfam ID:PF00281, PF00673

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S9 (Predicted)
Gene (Uniprot):RPS9
Chain IDs:CB (auth: JJ)
Chain Length:703
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:B7NZS8 Pfam ID:PF00163, PF01479

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7
Gene (Uniprot):LOC100341489
Chain IDs:N (auth: K)
Chain Length:70
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TUB1 Pfam ID:PF08079, PF00327

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS10
Gene (Uniprot):RPS10
Chain IDs:DB (auth: KK)
Chain Length:165
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1T168 Pfam ID:PF03501

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13
Chain IDs:O (auth: L)
Chain Length:51
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S11
Gene (Uniprot):RPS11
Chain IDs:EB (auth: LL)
Chain Length:158
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TRM4 Pfam ID:PF16205, PF00366

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L14
Gene (Uniprot):RPL14
Chain IDs:P (auth: M)
Chain Length:102
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:40S ribosomal protein S12
Gene (Uniprot):RPS12
Chain IDs:FB (auth: MM)
Chain Length:132
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SFR8 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L15
Gene (Uniprot):RPL15
Chain IDs:Q (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:Ribosomal protein S13
Gene (Uniprot):RPS13
Chain IDs:GB (auth: NN)
Chain Length:151
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SP51 Pfam ID:PF08069, PF00312

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL13
Gene (Uniprot):RPL13A
Chain IDs:R (auth: O)
Chain Length:106
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TVS8

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS11
Gene (Uniprot):RPS14
Chain IDs:HB (auth: OO)
Chain Length:168
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1T1F0 Pfam ID:PF00411

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL22
Gene (Uniprot):RPL17
Chain IDs:S (auth: P)
Chain Length:184
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SCJ6 Pfam ID:PF00237

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uS19
Gene (Uniprot):RPS15
Chain IDs:IB (auth: PP)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1U0Q2 Pfam ID:PF00203

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L18
Gene (Uniprot):RPL18
Chain IDs:T (auth: Q)
Chain Length:188
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TFE0 Pfam ID:PF17135

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uS9
Gene (Uniprot):RPS16
Chain IDs:JB (auth: QQ)
Chain Length:146
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SGX4 Pfam ID:PF00380

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L19
Gene (Uniprot):LOC100352118
Chain IDs:U (auth: R)
Chain Length:196
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TJR3 Pfam ID:PF01280

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eS17
Gene (Uniprot):RPS17
Chain IDs:KB (auth: RR)
Chain Length:135
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TU13 Pfam ID:PF00833

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18a
Gene (Uniprot):RPL18A
Chain IDs:V (auth: S)
Chain Length:176
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TTY7 Pfam ID:PF01775

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uS13
Gene (Uniprot):RPS18
Chain IDs:LB (auth: SS)
Chain Length:152
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TPG3 Pfam ID:PF00416

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL21
Gene (Uniprot):RPL21
Chain IDs:W (auth: T)
Chain Length:160
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SHQ2 Pfam ID:PF01157

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eS19
Gene (Uniprot):RPS19
Chain IDs:MB (auth: TT)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TN62 Pfam ID:PF01090

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL22
Gene (Uniprot):RPL22
Chain IDs:X (auth: U)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TSG1 Pfam ID:PF01776

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uS10
Gene (Uniprot):RPS20
Chain IDs:NB (auth: UU)
Chain Length:119
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SIZ2 Pfam ID:PF00338

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L23
Gene (Uniprot):RPL23
Chain IDs:Y (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:eS21
Gene (Uniprot):RPS21
Chain IDs:OB (auth: VV)
Chain Length:83
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TM82 Pfam ID:PF01249

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL24
Gene (Uniprot):RPL24
Chain IDs:Z (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 protein S15a
Gene (Uniprot):RPS15A
Chain IDs:PB (auth: WW)
Chain Length:130
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TG89 Pfam ID:PF00410

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL23
Gene (Uniprot):RPL23A
Chain IDs:AA (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:uS12
Gene (Uniprot):RPS23
Chain IDs:QB (auth: XX)
Chain Length:143
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SZ47 Pfam ID:PF00164

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uL24
Gene (Uniprot):RPL26
Chain IDs:BA (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:Small ribosomal subunit protein eS24
Gene (Uniprot):RPS24
Chain IDs:RB (auth: YY)
Chain Length:130
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:A0A5F9D2E6 Pfam ID:PF01282

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27
Gene (Uniprot):RPL27
Chain IDs:CA (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:eS25
Gene (Uniprot):RPS25
Chain IDs:SB (auth: ZZ)
Chain Length:125
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TDB3 Pfam ID:PF03297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27a
Gene (Uniprot):RPL27A
Chain IDs:DA (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:40S ribosomal protein S26
Gene (Uniprot):RPS26
Chain IDs:TB (auth: aa)
Chain Length:295
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TFE8 Pfam ID:PF01283

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL29
Gene (Uniprot):RPL29
Chain IDs:EA (auth: b)
Chain Length:403
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:40S ribosomal protein S27
Gene (Uniprot):RPS27
Chain IDs:UB (auth: bb)
Chain Length:264
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TZ76 Pfam ID:PF01667

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL30
Gene (Uniprot):RPL30
Chain IDs:FA (auth: c)
Chain Length:425
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 S28
Gene (Uniprot):RPS28
Chain IDs:VB (auth: cc)
Chain Length:293
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TIB4 Pfam ID:PF01200

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL31
Gene (Uniprot):RPL31
Chain IDs:GA (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:eS29
Gene (Uniprot):RPS29
Chain IDs:WB (auth: dd)
Chain Length:56
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1U7M4 Pfam ID:PF00253

Structures with similar UniProt ID

Protein Blast

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

UniProt ID:A0AAA9WVN6

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S30
Gene (Uniprot):FAU
Chain IDs:XB (auth: ee)
Chain Length:263
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1T8A2 Pfam ID:PF00240, PF04758

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL33
Gene (Uniprot):RPL35A
Chain IDs:IA (auth: f)
Chain Length:110
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:Ribosomal protein S27a
Gene (Uniprot):RPS27A
Chain IDs:YB (auth: ff)
Chain Length:204
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SK22 Pfam ID:PF00240, PF01599

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL34
Gene (Uniprot):RPL34
Chain IDs:JA (auth: g)
Chain Length:116
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:RACK1
Gene (Uniprot):RACK1
Chain IDs:ZB (auth: gg)
Chain Length:317
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1SJB4 Pfam ID:PF00400

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL35
Gene (Uniprot):RPL35
Chain IDs:KA (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:LA (auth: i)
Chain Length:105
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:DC (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:GTP-binding protein 1
Gene (Uniprot):GTPBP1
Chain IDs:FC (auth: jj)
Chain Length:703
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:O00178 Pfam ID:PF00009, PF03144

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL38
Gene (Uniprot):LOC127490272
Chain IDs:MA (auth: k)
Chain Length:70
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1U3J0 Pfam ID:PF01781

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL39
Gene (Uniprot):LOC100343258
Chain IDs:NA (auth: l)
Chain Length:51
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1TTN1 Pfam ID:PF00832

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin-ribosomal protein eL40 fusion protein
Gene (Uniprot):UBA52
Chain IDs:OA (auth: m)
Chain Length:102
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:P0DXC2

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL41
Gene (Uniprot):RPL41
Chain IDs:PA (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:Large ribosomal subunit protein eL42
Gene (Uniprot):RPL36A
Chain IDs:QA (auth: o)
Chain Length:106
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1T040 Pfam ID:PF00935

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:eL43
Gene (Uniprot):RPL37A
Chain IDs:RA (auth: p)
Chain Length:184
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:eL28
Gene (Uniprot):RPL28
Chain IDs:SA (auth: r)
Chain Length:196
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:G1U7L1 Pfam ID:PF01778

Ligand Molecules

ATP

GDP

GTP

MET

PHE

SPD

Primary Citation

Structural mechanism of mRNA decoding by mammalian GTPase GTPBP1.

Susorov, D, Miscicka, A, Golovenko, D, Loveland, A.B, Zinoviev, A, Pestova, T.V, Korostelev, A.A, Liebschner, D, Afonine, P.V, Baker, M.L, Bunkoczi, G, Chen, V.B, Croll, T.I, Hintze, B, Hung, L.W, Jain, S, McCoy, A.J, Moriarty, N.W, Oeffner, R.D, Poon, B.K, Prisant, M.G, Read, R.J, Richardson, J.S, Richardson, D.C, Sammito, M.D, Sobolev, O.V, Stockwell, D.H, Terwilliger, T.C, Urzhumtsev, A.G, Videau, L.L, Williams, C.J, Adams, P.D.Show

Nat Commun ? ? ? (2025)

PMID: 41350250 DOI: 10.1038/s41467-025-66833-2

Abstact

GTP-binding protein 1 (GTPBP1) is a widespread translational GTPase closely related to elongation factor eEF1A. The loss of GTPBP1 leads to neurodevelopmental and neurodegenerative disorders in animals. Although linked to translation and quality control mechanisms, GTPBP1 molecular functions remain largely obscure. Similarly to eEF1A, GTPBP1 delivers aminoacyl-tRNA to the ribosome, but the ensuing GTPBP1-mediated elongation is slow. Here, using cryo-EM of mammalian 80S ribosomal complexes bound to GTPBP1 and aa-tRNA with GTP or the non-hydrolysable analog GDPCP, we show that the distinct GTPBP1 architecture and interactions with tRNA underlie slow GTPBP1 dissociation after GTP hydrolysis, resulting in delayed tRNA accommodation. Slow dissociation correlates with an extended proofreading stage and higher accuracy of GTPBP1-mediated decoding, potentially allowing GTPBP1 to elicit its putative quality control functions. GTPBP1 visualization provides the foundation for mapping and elucidating GTPBP1 mutations associated with human diseases.

Legend

Protein

Chemical

Disease

Primary Citation of related structures

Abstact

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