5OOM Ribosome date Aug 08, 2017
title Structure Of A Native Assembly Intermediate Of The Human Mit Ribosome With Unfolded Interfacial Rrna
authors A.Brown, S.Rathore, D.Kimanius, S.Aibara, X.C.Bai, J.Rorbach, A.Am V.Ramakrishnan
compound source
Molecule: 16s Ribosomal Rna
Chain: A
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Mitochondrial Trnaval
Chain: B

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L2, Mitochondrial
Chain: D
Synonym: Mrp-L2,Mitochondrial Large Ribosomal Subunit Prote

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L3, Mitochondrial
Chain: E
Synonym: Mrp-L3,Mitochondrial Large Ribosomal Subunit Prote

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L4, Mitochondrial
Chain: F
Synonym: Mrp-L4,Mitochondrial Large Ribosomal Subunit Prote

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L9, Mitochondrial
Chain: H
Synonym: Mrp-L9,Mitochondrial Large Ribosomal Subunit Prote

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L10, Mitochondrial
Chain: I
Synonym: Mrp-L10,39s Ribosomal Protein L8,Mitochondrial,Mrp Mitochondrial Large Ribosomal Subunit Protein Ul10m;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L11, Mitochondrial
Chain: J
Synonym: Mrp-L11,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L13, Mitochondrial
Chain: K
Synonym: Mrp-L13,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L14, Mitochondrial
Chain: L
Synonym: Mrp-L14,39s Ribosomal Protein L32,Mitochondrial,Mr Mitochondrial Large Ribosomal Subunit Protein Ul14m;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L15, Mitochondrial
Chain: M
Synonym: Mrp-L15,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L16, Mitochondrial
Chain: N
Synonym: Mrp-L16,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L17, Mitochondrial
Chain: O
Synonym: Mrp-L17,Lyst-Interacting Protein 2,Mitochondrial L Ribosomal Subunit Protein Bl17m;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L18, Mitochondrial
Chain: P
Synonym: Mrp-L18,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L19, Mitochondrial
Chain: Q
Synonym: Mrp-L19,39s Ribosomal Protein L15,Mitochondrial,Mr Mitochondrial Large Ribosomal Subunit Protein Bl19m;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L20, Mitochondrial
Chain: R
Synonym: Mrp-L20,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L21, Mitochondrial
Chain: S
Synonym: Mrp-L21,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L22, Mitochondrial
Chain: T
Synonym: Mrp-L22,39s Ribosomal Protein L25,Mitochondrial,Mr Mitochondrial Large Ribosomal Subunit Protein Ul22m;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L23, Mitochondrial
Chain: U
Synonym: Mrp-L23,L23 Mitochondrial-Related Protein,Mitochon Large Ribosomal Subunit Protein Ul23m,Ribosomal Protein L23

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L24, Mitochondrial
Chain: V
Synonym: Mrp-L24,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L27, Mitochondrial
Chain: W
Synonym: Mrp-L27,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L28, Mitochondrial
Chain: X
Synonym: Mrp-L28,Melanoma Antigen P15,Melanoma-Associated A Recognized By T-Lymphocytes,Mitochondrial Large Ribosomal S Protein Bl28m;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L47, Mitochondrial
Chain: Y
Synonym: Mrp-L47,Mitochondrial Large Ribosomal Subunit Prot Nasopharyngeal Carcinoma Metastasis-Related Protein 1;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L30, Mitochondrial
Chain: Z
Synonym: Mrp-L30,39s Ribosomal Protein L28,Mitochondrial,Mr Mitochondrial Large Ribosomal Subunit Protein Ul30m;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L32, Mitochondrial
Chain
Synonym: Mrp-L32,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L33, Mitochondrial
Chain: 1
Synonym: Mrp-L33,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L34, Mitochondrial
Chain: 2
Synonym: Mrp-L34,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L35, Mitochondrial
Chain: 3
Synonym: Mrp-L35,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L37, Mitochondrial
Chain: 5
Synonym: Mrp-L37,39s Ribosomal Protein L2,Mitochondrial,Mrp Mitochondrial Large Ribosomal Subunit Protein Ml37;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L38, Mitochondrial
Chain: 6
Synonym: Mrp-L38,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L39, Mitochondrial
Chain: 7
Synonym: Mrp-L39,39s Ribosomal Protein L5,Mitochondrial,Mrp Mitochondrial Large Ribosomal Subunit Protein Ml39;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L40, Mitochondrial
Chain: 8
Synonym: Mrp-L40,Mitochondrial Large Ribosomal Subunit Prot Nuclear Localization Signal-Containing Protein Deleted In Velocardiofacial Syndrome,Up-Regulated In Metastasis;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L41, Mitochondrial
Chain: 9
Synonym: Mrp-L41,39s Ribosomal Protein L27 Homolog,Bcl-2-In Mitochondrial Ribosomal Protein L41,Cell Proliferation-Indu Protein,Mrp-L27 Homolog,Mitochondrial Large Ribosomal Sub Protein Ml41;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L42, Mitochondrial
Chain: a
Synonym: Mrp-L42,39s Ribosomal Protein L31,Mitochondrial,Mr Mitochondrial Large Ribosomal Subunit Protein Ml42;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L43, Mitochondrial
Chain: b
Synonym: Mrp-L43,Mitochondrial Large Ribosomal Subunit Prot Mitochondrial Ribosomal Protein Bmrp36a;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L44, Mitochondrial
Chain: c
Synonym: Mrp-L44,Mitochondrial Large Ribosomal Subunit Prot
Ec: 3.1.26.-

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L45, Mitochondrial
Chain: d
Synonym: Mrp-L45,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L46, Mitochondrial
Chain: e
Synonym: Mrp-L46,Mitochondrial Large Ribosomal Subunit Prot P2ecsl;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L48, Mitochondrial
Chain: f
Synonym: Mrp-L48,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L49, Mitochondrial
Chain: g
Synonym: Mrp-L49,Mitochondrial Large Ribosomal Subunit Prot Neighbor Of Fau,Nof,Protein Nof1;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L50, Mitochondrial
Chain: h
Synonym: Mrp-L50,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L51, Mitochondrial
Chain: I
Synonym: Mrp-L51,Mitochondrial Large Ribosomal Subunit Prot Bmrp-64,Bmrp64;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L52, Mitochondrial
Chain: j
Synonym: Mrp-L52,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L53, Mitochondrial
Chain: k
Synonym: Mrp-L53,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L54, Mitochondrial
Chain: l
Synonym: Mrp-L54,Mitochondrial Large Ribosomal Subunit Prot

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein L55, Mitochondrial
Chain: m
Synonym: Mrp-L55,Mitochondrial Large Ribosomal Subunit Prot Mitochondrial Large Ribosomal Subunit Protein Ml55;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Ribosomal Protein 63, Mitochondrial
Chain: o
Synonym: Hmrp63,Mitochondrial Large Ribosomal Subunit Prote Mitochondrial Ribosomal Protein 63,Mitochondrial Ribosomal L57;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Peptidyl-Trna Hydrolase Ict1, Mitochondrial
Chain: p
Synonym: 39s Ribosomal Protein L58,Mitochondrial,Mrp-L58,Di Substraction 1,Ds-1,Immature Colon Carcinoma Transcript 1 P Mitochondrial Large Ribosomal Subunit Protein Ml62;
Ec: 3.1.1.29

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Growth Arrest And Dna Damage-Inducible Proteins-I Protein 1;
Chain: q
Synonym: 39s Ribosomal Protein L59,Mitochondrial,Mrp-L59,Ck Associating Protein,Cr6-Interacting Factor 1,Crif1,Mitochon Large Ribosomal Subunit Protein Ml64,Papillomavirus L2-Inte Nuclear Protein 1,Plinp-1,P53-Responsive Gene 6 Protein;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein S18a, Mitochondrial
Chain: r
Synonym: S18mt-A,39s Ribosomal Protein S18-3,Mitochondrial, Mitochondrial Large Ribosomal Subunit Protein Bs18a,Mitocho Large Ribosomal Subunit Protein Ml66;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 39s Ribosomal Protein S30, Mitochondrial
Chain: s
Synonym: S30mt,Mitochondrial Large Ribosomal Subunit Protei Mitochondrial Large Ribosomal Subunit Protein Ms30,Programm Death Protein 9;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Unknown Protein Or Protein Extension
Chain: t

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Mitochondrial Assembly Of Ribosomal Large Subunit 1;
Chain: u

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Mief1 Upstream Open Reading Frame Protein
Chain: v

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Acyl Carrier Protein, Mitochondrial
Chain: w
Synonym: Acp,Ci-Sdap,Nadh-Ubiquinone Oxidoreductase 9.6 Kda

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 3.03 Å
ligand
enzyme Hydrolase E.C.3.1.26 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
0


1


2


3


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


    l


    m


    o


    p


    q


    r


    s


    u


    v


    w


    Primary referenceStructures of the human mitochondrial ribosome in native states of assembly., Brown A, Rathore S, Kimanius D, Aibara S, Bai XC, Rorbach J, Amunts A, Ramakrishnan V, Nat Struct Mol Biol. 2017 Sep 11. doi: 10.1038/nsmb.3464. PMID:28892042
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1648 Kb) [Save to disk]
  • Biological Unit Coordinates (5oom.pdb1.gz) 1620 Kb
  • CSU: Contacts of Structural Units for 5OOM
  • Retrieve 5OOM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5OOM from S2C, [Save to disk]
  • View 5OOM 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 5OOM
  • 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
  • Fold representative 5oom from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5oom_Z] [5oom_o] [5oom_J] [5oom_X] [5oom_L] [5oom_e] [5oom_O] [5oom_h] [5oom_6] [5oom_k] [5oom_P] [5oom_B] [5oom_j] [5oom_1] [5oom_Y] [5oom_3] [5oom_w] [5oom_F] [5oom_p] [5oom_E] [5oom_l] [5oom_c] [5oom_A] [5oom_v] [5oom_5] [5oom_7] [5oom_S] [5oom_M] [5oom_q] [5oom_g] [5oom_8] [5oom_u] [5oom_d] [5oom_m] [5oom_W] [5oom_9] [5oom_N] [5oom_K] [5oom_i] [5oom_Q] [5oom_H] [5oom_R] [5oom_I] [5oom_V] [5oom_f] [5oom_U] [5oom_a] [5oom_b] [5oom_r] [5oom_2] [5oom_0] [5oom_s] [5oom_T] [5oom_D] [5oom_t]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
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  • Community annotation for 5OOM at PDBWiki (http://pdbwiki.org)

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