3J7Y Ribosome date Aug 26, 2014
title Structure Of The Large Ribosomal Subunit From Human Mitochon
authors A.Brown, A.Amunts, X.C.Bai, Y.Sugimoto, P.C.Edwards, G.Murshudov, S.H.W.Scheres, V.Ramakrishnan
compound source
Molecule: 16s Rrna
Chain: A
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hek293

Molecule: Mt-Trnaval
Chain: B

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

Molecule: Ul2
Chain: D

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

Molecule: Ul3
Chain: E

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

Molecule: Ul4
Chain: F

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

Molecule: Bl9
Chain: H

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

Molecule: Ul10
Chain: I

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

Molecule: Ul11
Chain: J

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

Molecule: Ul13
Chain: K

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

Molecule: Ul14
Chain: L

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

Molecule: Ul15
Chain: M

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

Molecule: Ul16
Chain: N

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

Molecule: Bl17
Chain: O

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

Molecule: Ul18
Chain: P

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

Molecule: Bl19
Chain: Q

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

Molecule: Bl20
Chain: R

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

Molecule: Bl21
Chain: S

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

Molecule: Ul22
Chain: T

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

Molecule: Ul23
Chain: U

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

Molecule: Ul24
Chain: V

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

Molecule: Bl27
Chain: W

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

Molecule: Bl28
Chain: X

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

Molecule: Ul29
Chain: Y

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

Molecule: Ul30
Chain: Z

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

Molecule: Bl32
Chain

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

Molecule: Bl33
Chain: 1

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

Molecule: Bl34
Chain: 2

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

Molecule: Bl35
Chain: 3

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

Molecule: Bl36
Chain: 4

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

Molecule: Ml37
Chain: 5

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

Molecule: Ml38
Chain: 6

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

Molecule: Ml39
Chain: 7

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

Molecule: Ml40
Chain: 8

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

Molecule: Ml41
Chain: 9

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

Molecule: Ml42
Chain: a

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

Molecule: Ml43
Chain: b

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

Molecule: Ml44
Chain: c

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

Molecule: Ml45
Chain: d

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

Molecule: Ml46
Chain: e

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

Molecule: Ml48
Chain: f

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

Molecule: Ml49
Chain: g

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

Molecule: Ml50
Chain: h

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

Molecule: Ml51
Chain: I

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

Molecule: Ml52
Chain: j

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

Molecule: Ml53
Chain: k

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

Molecule: Ml63
Chain: o

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

Molecule: Ict1
Chain: p

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

Molecule: Crif1
Chain: q

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

Molecule: Bs18a
Chain: r

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

Molecule: Ms30
Chain: s

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

Molecule: Unknown Protein
Chain: t

Organism_scientific: Homo Sapiens
Organism_common: Human
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 3.40 Å
ligand A, MG, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
0


1


2


3


4


5


6


7


8


9


D


E


F


H


I


J


K


L


M


N


O


P


Q


R


S


T


U


V


W


X


Y


Z


a


b


c
  • nuclease activity
  • endonuclease activity
  • ribonuclease III activity


  • d


    e


    f


    g


    h


    i


    j


    k


    o


    p


    q


    r


    s


    Primary referenceStructure of the large ribosomal subunit from human mitochondria., Brown A, Amunts A, Bai XC, Sugimoto Y, Edwards PC, Murshudov G, Scheres SH, Ramakrishnan V, Science. 2014 Oct 2. pii: 1258026. PMID:25278503
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1885 Kb) [Save to disk]
  • Biological Unit Coordinates (3j7y.pdb1.gz) 1874 Kb
  • LPC: Ligand-Protein Contacts for 3J7Y
  • CSU: Contacts of Structural Units for 3J7Y
  • Retrieve 3J7Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3J7Y from S2C, [Save to disk]
  • View 3J7Y 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 3J7Y
  • 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 3J7Y, from MSDmotif at EBI
  • Fold representative 3j7y from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3j7y] [3j7y_f] [3j7y_k] [3j7y_J] [3j7y_3] [3j7y_M] [3j7y_W] [3j7y_R] [3j7y_E] [3j7y_i] [3j7y_Q] [3j7y_H] [3j7y_Z] [3j7y_T] [3j7y_S] [3j7y_d] [3j7y_c] [3j7y_8] [3j7y_7] [3j7y_s] [3j7y_X] [3j7y_2] [3j7y_p] [3j7y_Y] [3j7y_V] [3j7y_D] [3j7y_U] [3j7y_g] [3j7y_O] [3j7y_o] [3j7y_6] [3j7y_h] [3j7y_I] [3j7y_t] [3j7y_9] [3j7y_N] [3j7y_e] [3j7y_5] [3j7y_0] [3j7y_P] [3j7y_j] [3j7y_4] [3j7y_1] [3j7y_b] [3j7y_r] [3j7y_a] [3j7y_B] [3j7y_q] [3j7y_F] [3j7y_A] [3j7y_L] [3j7y_K]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3J7Y: [KOW] [L51_S25_CI-B8] [RIBOc] [RL11] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Tim44 ] by SMART
  • Other resources with information on 3J7Y
  • Community annotation for 3J7Y at PDBWiki (http://pdbwiki.org)

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