3J0L Ribosome date Oct 04, 2011
title Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fit 9.8a Cryo-Em Map: Classic Pre State 1
authors T.Budkevich, J.Giesebrecht, R.Altman, J.Munro, T.Mielke, K.Nierha S.Blanchard, C.M.Spahn
compound source
Molecule: 40s Ribosomal Rna Fragment
Chain: a
Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: b

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: c

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: d

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: e

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: E

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: f

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: g

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: G

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 40s Ribosomal Rna Fragment
Chain: h

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein S5
Chain: T

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein S14
Chain: K

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein S23
Chain: L

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein S30
Chain: X

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein S15
Chain: S

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 1

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 2

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 3

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 4

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 5

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 6

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 7

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: 60s Ribosomal Rna Fragment
Chain: 8

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein L10a
Chain: B

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein L10
Chain: J

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Ribosomal Protein L36a
Chain: F

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Trna
Chain: Y, V, W

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Mrna Fragment
Chain: y, v

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver

Molecule: Mrna Fragment
Chain: w

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Liver
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 9.80 Å
Gene
Ontology
ChainFunctionProcessComponent
B


F


J


K


L


S


T


X


Primary referenceStructure and dynamics of the Mammalian ribosomal pretranslocation complex., Budkevich T, Giesebrecht J, Altman RB, Munro JB, Mielke T, Nierhaus KH, Blanchard SC, Spahn CM, Mol Cell. 2011 Oct 21;44(2):214-24. PMID:22017870
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (478 Kb) [Save to disk]
  • Biological Unit Coordinates (3j0l.pdb1.gz) 467 Kb
  • CSU: Contacts of Structural Units for 3J0L
  • Retrieve 3J0L in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3J0L from S2C, [Save to disk]
  • View 3J0L 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 3J0L
  • 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 3J0L, from MSDmotif at EBI
  • Fold representative 3j0l from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3j0l_W] [3j0l_w] [3j0l_2] [3j0l_f] [3j0l_B] [3j0l_S] [3j0l_7] [3j0l_d] [3j0l_G] [3j0l_h] [3j0l_K] [3j0l_T] [3j0l_v] [3j0l_g] [3j0l_Y] [3j0l_L] [3j0l_V] [3j0l_6] [3j0l_4] [3j0l_b] [3j0l_y] [3j0l_c] [3j0l_X] [3j0l_e] [3j0l_8] [3j0l] [3j0l_F] [3j0l_1] [3j0l_5] [3j0l_J] [3j0l_E] [3j0l_3] [3j0l_a]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3J0L
  • Community annotation for 3J0L at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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