› 5opt

Electron Microscopy
4Å resolution

Structure of KSRP in context of Trypanosoma cruzi 40S

Released:
DOI: 10.2210/pdb5opt/pdb
PDB entry 5opt coloured by chain, front view.
PDB entry 5opt coloured by chain, side view.
PDB entry 5opt coloured by chain, top view.
Source organism: Trypanosoma cruzi strain CL Brener
Primary publication:
The cryo-EM Structure of a Novel 40S Kinetoplastid-Specific Ribosomal Protein.
Brito Querido J, Mancera-Martínez E, Vicens Q, Bochler A, Chicher J, Simonetti A, Hashem Y
Structure 25 1785-1794.e3 (2017)
PMID: 29107485
Related structures: EMD-3844

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 35-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175449 (preferred)
Entry contents:
34 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (35 distinct):
Activated protein kinase C receptor, putative Chain: p
Molecule details ›
Chain: p
Length: 318 amino acids
Theoretical weight: 35.07 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DTN2 (Residues: 1-318; Coverage: 100%)
Gene names: Tc00.1047053511211.120, Tc00.1047053511211.130
Sequence domains: WD domain, G-beta repeat
Structure domains: YVTN repeat-like/Quinoprotein amine dehydrogenase
Ribosomal protein S29, putative Chain: q
Molecule details ›
Chain: q
Length: 57 amino acids
Theoretical weight: 6.65 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4CXR4 (Residues: 1-57; Coverage: 100%)
Gene names: Tc00.1047053506025.14, Tc00.1047053511209.54, Tc00.1047053511805.15
Sequence domains: Ribosomal protein S14p/S29e
40S ribosomal protein S16, putative Chain: r
Molecule details ›
Chain: r
Length: 149 amino acids
Theoretical weight: 16.84 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DEK4 (Residues: 1-149; Coverage: 100%)
Gene names: Tc00.1047053503899.20, Tc00.1047053503899.30
Sequence domains: Ribosomal protein S9/S16
Structure domains: Ribosomal Protein S5; domain 2
40S ribosomal protein S15, putative Chain: t
Molecule details ›
Chain: t
Length: 152 amino acids
Theoretical weight: 17.55 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DGZ5 (Residues: 1-152; Coverage: 100%)
Gene names: Tc00.1047053511809.130, Tc00.1047053511809.99, Tc00.1047053511811.10
Sequence domains: Ribosomal protein S19
40S ribosomal protein S18, putative Chain: u
Molecule details ›
Chain: u
Length: 153 amino acids
Theoretical weight: 17.59 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4E093 (Residues: 1-153; Coverage: 100%)
Gene names: Tc00.1047053506679.100, Tc00.1047053506679.94
Sequence domains: Ribosomal protein S13/S18
40S ribosomal protein S4 Chain: L
Molecule details ›
Chain: L
Length: 273 amino acids
Theoretical weight: 30.94 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4D5P4 (Residues: 1-273; Coverage: 100%)
Gene names: Tc00.1047053509683.117, Tc00.1047053511051.39, Tc00.1047053511051.50
Sequence domains:
Structure domains:
40S ribosomal protein S23, putative Chain: M
Molecule details ›
Chain: M
Length: 143 amino acids
Theoretical weight: 15.96 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DTQ1 (Residues: 1-143; Coverage: 100%)
Gene names: Tc00.1047053504181.20, Tc00.1047053504181.30, Tc00.1047053509695.180, Tc00.1047053509695.184
Sequence domains: Ribosomal protein S12/S23
Small ribosomal subunit protein uS7 domain-containing protein Chain: O
Molecule details ›
Chain: O
Length: 190 amino acids
Theoretical weight: 21.29 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4E0Q3 (Residues: 1-190; Coverage: 100%)
Gene names: Tc00.1047053506297.150, Tc00.1047053506297.160
Sequence domains: Ribosomal protein S7p/S5e
Structure domains: Ribosomal protein S7 domain
40S ribosomal protein S7 Chain: Q
Molecule details ›
Chain: Q
Length: 211 amino acids
Theoretical weight: 24.9 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4CUC7 (Residues: 1-211; Coverage: 100%)
Gene name: Tc00.1047053506593.30
Sequence domains: Ribosomal protein S7e
Small ribosomal subunit protein uS15 N-terminal domain-containing protein Chain: R
Molecule details ›
Chain: R
Length: 151 amino acids
Theoretical weight: 17.3 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DC38 (Residues: 1-151; Coverage: 100%)
Gene name: Tc00.1047053511291.90
Sequence domains:
Structure domains: S15/NS1, RNA-binding
40S ribosomal protein S27, putative Chain: S
Molecule details ›
Chain: S
Length: 86 amino acids
Theoretical weight: 9.58 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DN73 (Residues: 1-86; Coverage: 100%)
Gene names: Tc00.1047053506963.14, Tc00.1047053511233.14, Tc00.1047053511277.175
Sequence domains: Ribosomal protein S27
Structure domains: Zn-binding ribosomal proteins
40S ribosomal protein S26 Chain: T
Molecule details ›
Chain: T
Length: 112 amino acids
Theoretical weight: 12.79 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4CYE4 (Residues: 1-112; Coverage: 100%)
Gene names: Tc00.1047053503801.20, Tc00.1047053508817.60
Sequence domains: Ribosomal protein S26e
Structure domains: Ribosomal protein S26e
40S ribosomal protein S33, putative Chain: U
Molecule details ›
Chain: U
Length: 112 amino acids
Theoretical weight: 12.43 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4D7C8 (Residues: 1-112; Coverage: 100%)
Gene name: Tc00.1047053511237.60
Sequence domains: Ribosomal protein S28e
Structure domains: Nucleic acid-binding proteins
40S ribosomal protein S14, putative Chain: V
Molecule details ›
Chain: V
Length: 144 amino acids
Theoretical weight: 15.6 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4D6I5 (Residues: 1-144; Coverage: 100%)
Gene names: Tc00.1047053409117.20, Tc00.1047053506945.230, Tc00.1047053508823.50
Sequence domains: Ribosomal protein S11
Structure domains: Ribosomal protein S11
Small ribosomal subunit protein eS1B Chain: W
Molecule details ›
Chain: W
Length: 261 amino acids
Theoretical weight: 29.91 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DZ41 (Residues: 1-261; Coverage: 100%)
Gene names: Tc00.1047053511001.18, Tc00.1047053511001.9
Sequence domains: Ribosomal S3Ae family
Small ribosomal subunit protein uS17 N-terminal domain-containing protein Chain: X
Molecule details ›
Chain: X
Length: 173 amino acids
Theoretical weight: 20.02 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4D0U7 (Residues: 1-173; Coverage: 100%)
Gene names: Tc00.1047053508319.70, Tc00.1047053508405.40
Sequence domains:
Structure domains: OB fold (Dihydrolipoamide Acetyltransferase, E2P)
40S ribosomal protein S24 Chain: Y
Molecule details ›
Chain: Y
Length: 137 amino acids
Theoretical weight: 15.71 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DW38 (Residues: 1-137; Coverage: 100%)
Gene names: Tc00.1047053507681.150, Tc00.1047053507681.160
Sequence domains: Ribosomal protein S24e
Structure domains: Alpha-Beta Plaits
40S ribosomal protein S8 Chain: Z
Molecule details ›
Chain: Z
Length: 221 amino acids
Theoretical weight: 25.25 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DU83 (Residues: 1-221; Coverage: 100%)
Gene name: Tc00.1047053511903.110
Sequence domains: Ribosomal protein S8e
40S ribosomal protein S9, putative Chain: b
Molecule details ›
Chain: b
Length: 190 amino acids
Theoretical weight: 22.18 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4D4S1 (Residues: 1-190; Coverage: 100%)
Gene names: Tc00.1047053504163.30, Tc00.1047053506401.120
Sequence domains:
Small ribosomal subunit protein uS2 Chain: f
Molecule details ›
Chain: f
Length: 245 amino acids
Theoretical weight: 27.89 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4CQ63 (Residues: 1-245; Coverage: 100%)
Gene name: Tc00.1047053510425.19
Sequence domains: Ribosomal protein S2
Structure domains: Glucose-6-phosphate isomerase like protein; domain 1
S5 DRBM domain-containing protein Chain: d
Molecule details ›
Chain: d
Length: 263 amino acids
Theoretical weight: 28.57 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DIZ9 (Residues: 1-263; Coverage: 100%)
Gene names: Tc00.1047053503833.40, Tc00.1047053506213.60, Tc00.1047053511287.120, Tc00.1047053511287.40
Sequence domains:
Structure domains:
40S ribosomal protein S15a, putative Chain: e
Molecule details ›
Chain: e
Length: 130 amino acids
Theoretical weight: 14.68 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4E0N6 (Residues: 1-130; Coverage: 100%)
Gene name: Tc00.1047053506297.330
Sequence domains: Ribosomal protein S8
Structure domains:
40S ribosomal protein S21, putative Chain: g
Molecule details ›
Chain: g
Length: 236 amino acids
Theoretical weight: 26.09 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4E3M0 (Residues: 1-236; Coverage: 100%)
Gene name: Tc00.1047053510101.420
Sequence domains: Ribosomal protein S21e
Structure domains: Hypothetical Cytosolic Protein; Chain: A;
40S ribosomal protein S25 Chain: a
Molecule details ›
Chain: a
Length: 110 amino acids
Theoretical weight: 12.38 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DTX6 (Residues: 1-110; Coverage: 100%)
Gene names: Tc00.1047053504105.94, Tc00.1047053509233.190
Sequence domains: S25 ribosomal protein
40S ribosomal protein S12 Chain: i
Molecule details ›
Chain: i
Length: 141 amino acids
Theoretical weight: 15.79 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4CSL1 (Residues: 1-141; Coverage: 100%)
Gene names: Tc00.1047053503395.50, Tc00.1047053506181.59
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Structure domains: 60s Ribosomal Protein L30; Chain: A;
Ubiquitin-ribosomal protein eL40 fusion protein Chain: j
Molecule details ›
Chain: j
Length: 150 amino acids
Theoretical weight: 16.61 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4D1T6 (Residues: 1-150; Coverage: 100%)
Gene name: Tc00.1047053510409.39
Sequence domains:
40S ribosomal protein S6 Chain: P
Molecule details ›
Chain: P
Length: 250 amino acids
Theoretical weight: 28.34 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DSU0 (Residues: 1-250; Coverage: 100%)
Gene name: Tc00.1047053510769.49
Sequence domains: Ribosomal protein S6e
40S ribosomal protein S17, putative Chain: k
Molecule details ›
Chain: k
Length: 196 amino acids
Theoretical weight: 22.68 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DK40 (Residues: 1-196; Coverage: 100%)
Gene name: Tc00.1047053508827.70
Sequence domains: Ribosomal S17
Structure domains: Ribosomal protein S17e-like
Small ribosomal subunit protein uS10 domain-containing protein Chain: l
Molecule details ›
Chain: l
Length: 117 amino acids
Theoretical weight: 13.25 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4D6H7 (Residues: 1-117; Coverage: 100%)
Gene names: Tc00.1047053508475.10, Tc00.1047053508823.120, Tc00.1047053508823.140
Sequence domains: Ribosomal protein S10p/S20e
Structure domains: Ribosomal protein S10 domain
40S ribosomal protein S3 Chain: m
Molecule details ›
Chain: m
Length: 214 amino acids
Theoretical weight: 24.19 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DMK9 (Residues: 1-214; Coverage: 100%)
Gene names: Tc00.1047053504021.109, Tc00.1047053507677.39, Tc00.1047053509353.30
Sequence domains:
Structure domains:
Plectin/eS10 N-terminal domain-containing protein Chain: n
Molecule details ›
Chain: n
Length: 161 amino acids
Theoretical weight: 18.28 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4E088 (Residues: 1-161; Coverage: 100%)
Gene names: Tc00.1047053506679.140, Tc00.1047053506679.150
Sequence domains: Plectin/S10 domain
Structure domains: Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Ribosomal protein S19, putative Chain: o
Molecule details ›
Chain: o
Length: 167 amino acids
Theoretical weight: 18.86 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DJY1 (Residues: 1-167; Coverage: 100%)
Gene name: Tc00.1047053510879.20
Sequence domains: Ribosomal protein S19e
40S ribosomal protein S30 Chain: c
Molecule details ›
Chain: c
Length: 66 amino acids
Theoretical weight: 7.45 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DA48 (Residues: 1-66; Coverage: 100%)
Gene names: Tc00.1047053507019.83, Tc00.1047053507019.86
Sequence domains: Ribosomal protein S30
RRM domain-containing protein Chain: h
Molecule details ›
Chain: h
Length: 257 amino acids
Theoretical weight: 27.68 KDa
Source organism: Trypanosoma cruzi strain CL Brener
Expression system: Trypanosoma cruzi
UniProt:
  • Canonical: Q4DY32 (Residues: 1-257; Coverage: 100%)
Gene name: Tc00.1047053511727.270
Sequence domains: RNA recognition motif
18S Ribosomal RNA Chain: E
Molecule details ›
Chain: E
Length: 2319 nucleotides
Theoretical weight: 746.7 KDa
Sequence domains: Eukaryotic small subunit ribosomal RNA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4Å
Relevant EMDB volumes: EMD-3844
Expression system: Trypanosoma cruzi

Quick links

Citations

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