5MLC Ribosome date Dec 06, 2016
title Cryo-Em Structure Of The Spinach Chloroplast Ribosome Reveal Location Of Plastid-Specific Ribosomal Proteins And Extensi
authors M.Graf, S.Arenz, P.Huter, A.Doenhoefer, J.Novacek, D.N.Wilson
compound source
Molecule: 23s Ribosomal Rna, Chloroplastic
Chain: A
 Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 5s Ribosomal Rna, Chloroplastic
Chain: B
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 4.8s Ribosomal Rna, Chloroplastic
Chain: C
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L2, Chloroplastic
Chain: D
Synonym: Ribosomal Protein Cs-L4
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L3, Chloroplastic
Chain: E
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L4, Chloroplastic
Chain: F
Synonym: R-Protein L4
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L5, Chloroplastic
Chain: G
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L6, Chloroplastic
Chain: H
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L9, Chloroplastic
Chain: I
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L13, Chloroplastic
Chain: L
Synonym: Cl13
Other_details: Backbone Model Of The Nte.
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L14, Chloroplastic
Chain: M
Synonym: Ribosomal Protein Cs-L29
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L15, Chloroplastic
Chain: N
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L16, Chloroplastic
Chain: O
Synonym: Ribosomal Protein Cs-L24
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L17, Chloroplastic
Chain: P
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L18, Chloroplastic
Chain: Q
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L19, Chloroplastic
Chain: R
Synonym: Cl19
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L20, Chloroplastic
Chain: S
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L21, Chloroplastic
Chain: T
Synonym: Cl21,Cs-L7
Other_details: Backbone Model Of The Nte.
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L22, Chloroplastic
Chain: U
Synonym: Ribosomal Protein Cs-L13
Other_details: Backbone Model Of The Cte.
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L23, Chloroplastic
Chain: V
Synonym: Prpl23
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L24, Chloroplastic
Chain: W
Synonym: Cl24
Other_details: Backbone Model Of The Last Six Amino Acids.
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L27, Chloroplastic
Chain: X
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L28, Chloroplastic
Chain: Y
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L29, Chloroplastic
Chain: Z
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L32, Chloroplastic
Chain: 2
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L33, Chloroplastic
Chain: 3
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L34, Chloroplastic
Chain: 4
Synonym: Cl34
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L35, Chloroplastic
Chain: 5
Synonym: Cl35
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: 50s Ribosomal Protein L36, Chloroplastic
Chain: 6
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: Ribosome-Recycling Factor, Chloroplastic
Chain: 9
Synonym: Rrf,Cpfrr,Rrfhcp,Ribosome-Releasing Factor,Chlorop
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: Psrp5alpha, Chloroplastic
Chain: 7
Synonym: 50s Ribosomal Protein L40,Cl40,Plastid-Specific 50 Ribosomal Protein 5 Alpha,Psrp-5;
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562

Molecule: Psrp6, Chloroplastic
Chain: 8
Synonym: Cl25,Plastid-Specific 50s Ribosomal Protein 6,Psrp
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562
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 3.90 Å
Gene
Ontology
ChainFunctionProcessComponent
2


3


4


5


6


7


8


9


D


E


F


G


H


I


L


M


N


O


P


Q


R


S


T


U


V


W


X


Y


Z


Primary referenceCryo-EM structure of the spinach chloroplast ribosome reveals the location of plastid-specific ribosomal proteins and extensions., Graf M, Arenz S, Huter P, Donhofer A, Novacek J, Wilson DN, Nucleic Acids Res. 2016 Dec 15. pii: gkw1272. PMID:27986857
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1813 Kb) [Save to disk]
  • Biological Unit Coordinates (5mlc.pdb1.gz) 1797 Kb
  • CSU: Contacts of Structural Units for 5MLC
  • Retrieve 5MLC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MLC from S2C, [Save to disk]
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    • Visual 3D analysis of 5MLC
  • Ramachandran plot from PDBSum
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  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5mlc_H] [5mlc_F] [5mlc_7] [5mlc_L] [5mlc_2] [5mlc_T] [5mlc_S] [5mlc_O] [5mlc_3] [5mlc_6] [5mlc_B] [5mlc_R] [5mlc_N] [5mlc_8] [5mlc_Q] [5mlc_M] [5mlc_U] [5mlc_P] [5mlc_I] [5mlc_V] [5mlc_W] [5mlc_Y] [5mlc_C] [5mlc_D] [5mlc] [5mlc_E] [5mlc_X] [5mlc_G] [5mlc_9] [5mlc_Z] [5mlc_5] [5mlc_A] [5mlc_4]
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  • Domain organization of by SWISSPFAM
    • Other resources with information on 5MLC
  • Community annotation for 5MLC at PDBWiki (http://pdbwiki.org)

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