ISDA

Deposition Date 2019-08-03

Release Date 2019-09-18

Last Version Date 2024-05-22

Entry Detail

PDB ID:

6SG9

Keywords:

RIBOSOME

Title:

Head domain of the mt-SSU assemblosome from Trypanosoma brucei

Biological Source:

Source Organism:

Trypanosoma brucei brucei (Taxon ID: 5702)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.10 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:9S rRNA
Chain IDs:G (auth: CA)
Chain Length:802
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:uS3m
Chain IDs:H (auth: CC)
Chain Length:74
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:uS5m
Chain IDs:A (auth: CE)
Chain Length:435
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uS9m
Gene (Uniprot):Tb08.28F14.630
Chain IDs:I (auth: CI)
Chain Length:181
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57W62 Pfam ID:PF00380

Polymer Type:polypeptide(L)
Molecule:uS10m
Chain IDs:J (auth: CJ)
Chain Length:817
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uS11m
Gene (Uniprot):Tb10.406.0510
Chain IDs:B (auth: CK)
Chain Length:874
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q389T7

Protein Blast

Polymer Type:polypeptide(L)
Molecule:uS14m
Gene (Uniprot):Tb08.29O9.64
Chain IDs:K (auth: CN)
Chain Length:166
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q580I0

Polymer Type:polypeptide(L)
Molecule:uS19m
Chain IDs:L (auth: CS)
Chain Length:244
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS29
Gene (Uniprot):Tb06.3A7.780
Chain IDs:M (auth: Cg)
Chain Length:498
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q585C2 Pfam ID:PF10236

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS33
Gene (Uniprot):Tb03.27F10.720
Chain IDs:N (auth: Ci)
Chain Length:181
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57WW0

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS35
Gene (Uniprot):Tb11.47.0024
Chain IDs:O (auth: Ck)
Chain Length:874
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q387C7

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS38
Gene (Uniprot):Tb07.29K4.740
Chain IDs:C (auth: Cn)
Chain Length:166
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57VQ9

Polymer Type:polypeptide(L)
Molecule:mS49
Chain IDs:P (auth: DB)
Chain Length:1181
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:mS50
Chain IDs:Q (auth: DC)
Chain Length:1165
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS52
Gene (Uniprot):Tb11.02.0130
Chain IDs:R (auth: DE)
Chain Length:747
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q386Q7

Polymer Type:polypeptide(L)
Molecule:mS53
Chain IDs:S (auth: DF)
Chain Length:666
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:mS54
Chain IDs:T (auth: DG)
Chain Length:631
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:mS55 (KRIPP8)
Chain IDs:U (auth: DH)
Chain Length:581
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS57
Gene (Uniprot):Tb06.4M18.330
Chain IDs:V (auth: DJ)
Chain Length:396
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q584U8

Polymer Type:polypeptide(L)
Molecule:mS58
Chain IDs:W (auth: DK)
Chain Length:324
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS67
Gene (Uniprot):Tb06.30P15.560
Chain IDs:X (auth: DT)
Chain Length:247
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q586G5 Pfam ID:PF00581

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS69
Gene (Uniprot):Tb08.4A8.150
Chain IDs:Y (auth: DV)
Chain Length:183
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57UZ6

Polymer Type:polypeptide(L)
Molecule:mS70
Chain IDs:Z (auth: DW)
Chain Length:179
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS71
Gene (Uniprot):Tb11.01.2920
Chain IDs:AA (auth: DX)
Chain Length:169
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q383G5

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mS72
Gene (Uniprot):Tb07.13M20.50
Chain IDs:BA (auth: DY)
Chain Length:163
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57YD4

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF1 (RSM22)
Gene (Uniprot):Tb11.02.2710
Chain IDs:CA (auth: F1)
Chain Length:1041
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q385R2 Pfam ID:PF09243

Polymer Type:polypeptide(L)
Molecule:mt-SAF4
Chain IDs:DA (auth: F4)
Chain Length:811
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF12 (KRIPP18)
Gene (Uniprot):Tb06.3D8.320
Chain IDs:EA (auth: FD)
Chain Length:579
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q583U2

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF14
Gene (Uniprot):Tb08.28F14.650
Chain IDs:FA (auth: FF)
Chain Length:474
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57W60 Pfam ID:PF01795

Polymer Type:polypeptide(L)
Molecule:mt-SAF15
Chain IDs:GA (auth: FG)
Chain Length:463
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:mt-SAF16
Chain IDs:HA (auth: FH)
Chain Length:457
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:mt-SAF17
Chain IDs:IA (auth: FI)
Chain Length:445
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF18
Gene (Uniprot):TbgDal_XI11890
Chain IDs:D (auth: FJ)
Chain Length:362
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:D0A8R9

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF19
Gene (Uniprot):Tb07.21H15.310
Chain IDs:JA (auth: FK)
Chain Length:372
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57XS8 Pfam ID:PF02330

Polymer Type:polypeptide(L)
Molecule:mt-SAF20
Chain IDs:KA (auth: FL)
Chain Length:353
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF25
Gene (Uniprot):Tb10.70.6030
Chain IDs:LA (auth: FV)
Chain Length:264
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q38C60

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF28
Gene (Uniprot):DPX39_060023800
Chain IDs:E (auth: FY)
Chain Length:188
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:A0A3L6L5M9

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF30
Gene (Uniprot):Tb07.29K4.100
Chain IDs:F (auth: Fa)
Chain Length:171
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q57VU7

Protein Blast

Polymer Type:polypeptide(L)
Molecule:mt-SAF34
Gene (Uniprot):Tb11.03.0725
Chain IDs:MA (auth: Fe)
Chain Length:123
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

UniProt ID:Q387L0

Polymer Type:polypeptide(L)
Molecule:UNK-a
Chain IDs:NA (auth: Ua)
Chain Length:70
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-b
Chain IDs:OA (auth: Ub)
Chain Length:42
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-c
Chain IDs:PA (auth: Uc)
Chain Length:12
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-d
Chain IDs:QA (auth: Ud)
Chain Length:59
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-e
Chain IDs:RA (auth: Ue)
Chain Length:29
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-f
Chain IDs:SA (auth: Uf)
Chain Length:9
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-g
Chain IDs:TA (auth: Ug)
Chain Length:167
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-h
Chain IDs:UA (auth: Uh)
Chain Length:255
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-i
Chain IDs:VA (auth: Ui)
Chain Length:32
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-j
Chain IDs:WA (auth: Uj)
Chain Length:19
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-k
Chain IDs:XA (auth: Uk)
Chain Length:27
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-l
Chain IDs:YA (auth: Ul)
Chain Length:14
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-m
Chain IDs:ZA (auth: Um)
Chain Length:11
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Polymer Type:polypeptide(L)
Molecule:UNK-x
Chain IDs:AB (auth: Ux)
Chain Length:108
Number of Molecules:1
Biological Source:Trypanosoma brucei brucei

Ligand Molecules

GTP

SAH

Primary Citation

Mitoribosomal small subunit biogenesis in trypanosomes involves an extensive assembly machinery.

Saurer, M, Ramrath, D.J.F, Niemann, M, Calderaro, S, Prange, C, Mattei, S, Scaiola, A, Leitner, A, Bieri, P, Horn, E.K, Leibundgut, M, Boehringer, D, Schneider, A, Ban, N.Show

Science 365 1144 1149 (2019)

PMID: 31515389 DOI: 10.1126/science.aaw5570

Abstact

Mitochondrial ribosomes (mitoribosomes) are large ribonucleoprotein complexes that synthesize proteins encoded by the mitochondrial genome. An extensive cellular machinery responsible for ribosome assembly has been described only for eukaryotic cytosolic ribosomes. Here we report that the assembly of the small mitoribosomal subunit in Trypanosoma brucei involves a large number of factors and proceeds through the formation of assembly intermediates, which we analyzed by using cryo-electron microscopy. One of them is a 4-megadalton complex, referred to as the small subunit assemblosome, in which we identified 34 factors that interact with immature ribosomal RNA (rRNA) and recognize its functionally important regions. The assembly proceeds through large-scale conformational changes in rRNA coupled with successive incorporation of mitoribosomal proteins, providing an example for the complexity of the ribosomal assembly process in mitochondria.

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Protein

Chemical

Disease

Primary Citation of related structures