5V7Q Ribosome date Mar 20, 2017
title Cryo-Em Structure Of The Large Ribosomal Subunit From Mycoba Tuberculosis Bound With A Potent Linezolid Analog
authors K.Yang, J.Y.Chang, Z.Cui, J.Zhang
compound source
Molecule: 50s Ribosomal Protein L32
Chain
 Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L33
Chain: 1
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L34
Chain: 2
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L35
Chain: 3
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L36
Chain: 4
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L31
Chain: 6
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 23s Rrna
Chain: A
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 5s Ribosomal Rna
Chain: B
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L2
Chain: C
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L3
Chain: D
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L4
Chain: E
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L5
Chain: F
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L6
Chain: G
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L9
Chain: H
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L13
Chain: J
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L14
Chain: K
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L15
Chain: L
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L16
Chain: M
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L17
Chain: N
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L18
Chain: O
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L19
Chain: P
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L20
Chain: Q
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: Lsu Ribosomal Protein L21p
Chain: R
Synonym: Ribosomal Protein L21 (Bl20)
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L22
Chain: S
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L23
Chain: T
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L24
Chain: U
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L25
Chain: V
Synonym: General Stress Protein Ctc
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L27
Chain: W
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L28
Chain: X
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L29
Chain: Y
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: 50s Ribosomal Protein L30
Chain: Z
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
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 3.70 Å
ligand 917 enzyme
Gene
Ontology
ChainFunctionProcessComponent
0


1


2


3


4


6


C


D


E


F


G


H


J


K


L


M


N


O


P


Q


R


S


T


U


V


W


X


Y


Z


Primary referenceStructural insights into species-specific features of the ribosome from the human pathogen Mycobacterium tuberculosis., Yang K, Chang JY, Cui Z, Li X, Meng R, Duan L, Thongchol J, Jakana J, Huwe CM, Sacchettini JC, Zhang J, Nucleic Acids Res. 2017 Oct 13;45(18):10884-10894. doi: 10.1093/nar/gkx785. PMID:28977617
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1620 Kb) [Save to disk]
  • Biological Unit Coordinates (5v7q.pdb1.gz) 1612 Kb
  • LPC: Ligand-Protein Contacts for 5V7Q
  • CSU: Contacts of Structural Units for 5V7Q
  • Retrieve 5V7Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5V7Q from S2C, [Save to disk]
    • View 5V7Q in 3D
  • Proteopedia, because life has more than 2D.
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  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 5V7Q
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5v7q_S] [5v7q_N] [5v7q_6] [5v7q_K] [5v7q_3] [5v7q_M] [5v7q_Y] [5v7q_A] [5v7q_4] [5v7q_H] [5v7q_D] [5v7q_O] [5v7q_C] [5v7q_L] [5v7q_B] [5v7q_2] [5v7q_T] [5v7q_P] [5v7q_V] [5v7q_0] [5v7q_J] [5v7q_X] [5v7q_W] [5v7q_R] [5v7q_G] [5v7q_Q] [5v7q_Z] [5v7q_1] [5v7q_U] [5v7q_F] [5v7q_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5V7Q
  • Community annotation for 5V7Q at PDBWiki (http://pdbwiki.org)

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