6G4W Ribosome date Mar 28, 2018
title Cryo-Em Structure Of A Late Human Pre-40s Ribosomal Subunit
authors M.Ameismeier, J.Cheng, O.Berninghausen, R.Beckmann
compound source
Molecule: 18s Ribosomal Rna
Chain: 2
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S17
Chain: R
Synonym: Small Ribosomal Subunit Protein Es17

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S27
Chain: b
Synonym: Metallopan-Stimulin 1,Mps-1,Small Ribosomal Subuni Es27;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S3a
Chain: B
Synonym: Small Ribosomal Subunit Protein Es1,V-Fos Transfor Effector Protein,Fte-1;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S28
Chain: c
Synonym: Small Ribosomal Subunit Protein Es28

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S4, X Isoform
Chain: E
Synonym: Scr10,Single Copy Abundant Mrna Protein,Small Ribo Subunit Protein Es4;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S30
Chain: e
Synonym: Small Ribosomal Subunit Protein Es30

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S5
Chain: F
Synonym: Small Ribosomal Subunit Protein Us7

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S7
Chain: H
Synonym: Small Ribosomal Subunit Protein Es7

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S6
Chain: G
Synonym: Phosphoprotein Np33,Small Ribosomal Subunit Protei

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S25
Chain: Z
Synonym: Small Ribosomal Subunit Protein Es25

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S24
Chain: Y
Synonym: Small Ribosomal Subunit Protein Es24

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Rna-Binding Protein Pno1
Chain: x

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S23
Chain: X
Synonym: Small Ribosomal Subunit Protein Us12

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Bystin
Chain: w

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S15a
Chain: W
Synonym: Small Ribosomal Subunit Protein Us8

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Pre-Rrna-Processing Protein Tsr1 Homolog
Chain: u

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Unknown
Chain: t

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S19
Chain: T
Synonym: Small Ribosomal Subunit Protein Es19

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S18
Chain: S
Synonym: Ke-3,Ke3,Small Ribosomal Subunit Protein Us13

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S16
Chain: Q
Synonym: Small Ribosomal Subunit Protein Us9

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S15
Chain: P
Synonym: Rig Protein,Small Ribosomal Subunit Protein Us19

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S14
Chain: O
Synonym: Small Ribosomal Subunit Protein Us11

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S13
Chain: N
Synonym: Small Ribosomal Subunit Protein Us15

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S11
Chain: L
Synonym: Small Ribosomal Subunit Protein Us17

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S9
Chain: J
Synonym: Small Ribosomal Subunit Protein Us4

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: 40s Ribosomal Protein S8
Chain: I
Synonym: Small Ribosomal Subunit Protein Es8

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Rrp12
Chain: s

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Multifunctional Methyltransferase Subunit Trm112- Protein;
Chain: r
Synonym: Trna Methyltransferase 112 Homolog

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Probable 18s Rrna (Guanine-N(7))-Methyltransferas
Chain: q
Synonym: Bud Site Selection Protein 23 Homolog,Metastasis-R Methyltransferase 1,Williams-Beuren Syndrome Chromosomal Re Protein,Rrna Methyltransferase And Ribosome Maturation Fact
Ec: 2.1.1.-

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Unknown Helix
Chain: k

Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Cell_line: Hek293
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 4.50 Å
ligand
enzyme Transferase E.C.2.1.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
B

  • cytosolic small ribosomal su...
  • E

  • ribosome
  • cytosolic small ribosomal su...
  • F

  • cytosolic small ribosomal su...
  • G

  • cytosolic small ribosomal su...
  • H

  • cytosolic small ribosomal su...
  • I

  • cytosolic small ribosomal su...
  • J

  • cytosolic small ribosomal su...
  • L

  • cytosolic small ribosomal su...
  • N

  • cytosolic small ribosomal su...
  • O
  • translation regulator activi...

  • cytosolic small ribosomal su...
  • P

  • cytosolic small ribosomal su...
  • Q

  • cytosolic small ribosomal su...
  • R

  • cytosolic small ribosomal su...
  • S

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • T

  • cytosolic small ribosomal su...
  • W

  • cytosolic small ribosomal su...
  • X

  • cytosolic small ribosomal su...
  • Y

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • Z

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • b

  • cytosolic small ribosomal su...
  • c

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • e

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • q


    r


    u


    w


    x


    Primary referenceVisualizing late states of human 40S ribosomal subunit maturation., Ameismeier M, Cheng J, Berninghausen O, Beckmann R, Nature. 2018 Jun 6. pii: 10.1038/s41586-018-0193-0. doi:, 10.1038/s41586-018-0193-0. PMID:29875412
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (863 Kb) [Save to disk]
  • Biological Unit Coordinates (6g4w.pdb1.gz) 814 Kb
  • CSU: Contacts of Structural Units for 6G4W
  • Retrieve 6G4W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6G4W from S2C, [Save to disk]
  • View 6G4W in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 6G4W
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6g4w from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6g4w_c] [6g4w_T] [6g4w_b] [6g4w_H] [6g4w_w] [6g4w_s] [6g4w_L] [6g4w_r] [6g4w_E] [6g4w_W] [6g4w_F] [6g4w_R] [6g4w_B] [6g4w_Y] [6g4w_P] [6g4w_Z] [6g4w_u] [6g4w_t] [6g4w_S] [6g4w_e] [6g4w_q] [6g4w_x] [6g4w_X] [6g4w_2] [6g4w_N] [6g4w_O] [6g4w_I] [6g4w_k] [6g4w_Q] [6g4w_J] [6g4w_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6G4W
  • Community annotation for 6G4W at PDBWiki (http://pdbwiki.org)

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