3J3A Ribosome date Feb 27, 2013
title Structure Of The Human 40s Ribosomal Proteins
authors A.M.Anger, J.P.Armache, O.Berninghausen, M.Habeck, M.Subklewe, D.N.Wilson, R.Beckmann
compound source
Molecule: Elongation Factor 2
Chain: z
Synonym: Ef-2
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Guanine Nucleotide-Binding Protein Subunit Beta-2
Chain: g
Synonym: Cell Proliferation-Inducing Gene 21 Protein, Guani Nucleotide-Binding Protein Subunit Beta-Like Protein 12.3, Cancer Oncogene 7 Protein, Hlc-7, Receptor For Activated C Receptor Of Activated Protein Kinase C 1, Rack1;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S20
Chain: U

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S10
Chain: K

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S14
Chain: O

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S23
Chain: X

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S12
Chain: M

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

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

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S29
Chain: d

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S13
Chain: N

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S11
Chain: L

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S17
Chain: R

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S15
Chain: P
Synonym: Rig Protein

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S19
Chain: T

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S3a
Chain: B
Synonym: V-Fos Transformation Effector Protein, Fte-1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein Sa
Chain: A
Synonym: 37 Kda Laminin Receptor Precursor, 37lrp, 3767 Kd Receptor, Lrplr, 67 Kda Laminin Receptor, 67lr, Colon Carc Laminin-Binding Protein, Laminin Receptor 1, Lamr, Laminin- Protein Precursor P40, Lbpp40, Multidrug Resistance-Associ Protein Mgr1-Ag, Nem1chd4;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S21
Chain: V

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S24
Chain: Y

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S25
Chain: Z

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S26
Chain: a

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

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

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S28
Chain: c

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S3
Chain: D

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S30
Chain: e

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S27a
Chain: f

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S9
Chain: J

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S4, X Isoform
Chain: E
Synonym: Scr10, Single Copy Abundant Mrna Protein

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S2
Chain: C
Synonym: 40s Ribosomal Protein S4, Protein Llrep3

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S6
Chain: G
Synonym: Phosphoprotein Np33

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S5
Chain: F
Synonym: 40s Ribosomal Protein S5, N-Terminally Processed

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S7
Chain: H

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S15a
Chain: W

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S8
Chain: I

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S16
Chain: Q

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Plasminogen Activator Inhibitor 1 Rna-Binding Pro
Chain: h
Synonym: Pai1 Rna-Binding Protein 1, Pai-Rbp1, Serpine1 Mrn Protein 1

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
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 5.00 Å
Gene
Ontology
ChainFunctionProcessComponent
A

  • cytosolic small ribosomal su...
  • B

  • cytosolic small ribosomal su...
  • C

  • cytosolic small ribosomal su...
  • D

  • 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...
  • K

  • cytosolic small ribosomal su...
  • L

  • cytosolic small ribosomal su...
  • M

  • cytosolic small ribosomal su...
  • N

  • cytosolic small ribosomal su...
  • O

  • 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...
  • U

  • cytosolic small ribosomal su...
  • V

  • 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...
  • a

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

  • cytosolic small ribosomal su...
  • c

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • d

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

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • g


    h


    z


    Primary referenceStructures of the human and Drosophila 80S ribosome., Anger AM, Armache JP, Berninghausen O, Habeck M, Subklewe M, Wilson DN, Beckmann R, Nature. 2013 May 2;497(7447):80-5. doi: 10.1038/nature12104. PMID:23636399
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (822 Kb) [Save to disk]
  • Biological Unit Coordinates (3j3a.pdb1.gz) 807 Kb
  • CSU: Contacts of Structural Units for 3J3A
  • Retrieve 3J3A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3J3A from S2C, [Save to disk]
  • View 3J3A 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 3J3A
  • 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
  • 3D motif for 3J3A, from MSDmotif at EBI
  • Fold representative 3j3a from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3j3a_Y] [3j3a_I] [3j3a_e] [3j3a_A] [3j3a_V] [3j3a] [3j3a_Z] [3j3a_F] [3j3a_Q] [3j3a_L] [3j3a_M] [3j3a_C] [3j3a_h] [3j3a_N] [3j3a_D] [3j3a_G] [3j3a_B] [3j3a_O] [3j3a_H] [3j3a_W] [3j3a_X] [3j3a_J] [3j3a_f] [3j3a_c] [3j3a_K] [3j3a_U] [3j3a_P] [3j3a_S] [3j3a_a] [3j3a_d] [3j3a_g] [3j3a_E] [3j3a_R] [3j3a_T] [3j3a_z] [3j3a_b]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3J3A: [S4 ] by SMART
  • Other resources with information on 3J3A
  • Community annotation for 3J3A at PDBWiki (http://pdbwiki.org)

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