5OA3 Translation date Jun 20, 2017
title Human 40s-Eif2d-Re-Initiation Complex
authors M.Weisser, T.Schaefer, M.Leibundgut, D.Boehringer, C.H.S.Aylett,
compound source
Molecule: Eukaryotic Translation Initiation Factor 2d
Chain
Synonym: Eif2d,Hepatocellular Carcinoma-Associated Antigen Ligatin;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eif2d, Hca56, Lgtn
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Initiator Met-Trna-I
Chain: 1

Organism_scientific: Saccharomyces Cerevisiae
Organism_taxid: 4932

Molecule: 18s Ribosomal Rna
Chain: 2

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Ires Mrna
Chain: 3
Fragment: (Delta Domain II Mutant, In Which Domain II Of Th Replaced With A Small Stem Loop;
Engineered: Yes
Other_details: Hcv Ires Mrna (Delta Domain II Mutant, In Wh II Of The Ires Is Replaced With A Small Stem Loop);

Synthetic: Yes
Organism_scientific: Hepatitis C Virus
Organism_taxid: 11103

Molecule: 40s Ribosomal Protein Sa
Chain: A
Synonym: 37 Kda Laminin Receptor Precursor,37lrp,3767 Kda Receptor,Lrplr,67 Kda Laminin Receptor,67lr,Colon Carcinom Binding Protein,Laminin Receptor 1,Lamr,Laminin-Binding Pro Precursor P40,Lbpp40,Multidrug Resistance-Associated Prote Ag,Nem1chd4,Small Ribosomal Subunit Protein Us2;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S3a
Chain: B
Synonym: Small Ribosomal Subunit Protein Es1,V-Fos Transfor Effector Protein,Fte-1;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S2
Chain: C
Synonym: 40s Ribosomal Protein S4,Protein Llrep3,Small Ribo Subunit Protein Us5;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S3
Chain: D
Synonym: Small Ribosomal Subunit Protein Us3
Ec: 4.2.99.18

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S4, X Isoform
Chain: E
Synonym: Scr10,Single Copy Abundant Mrna Protein,Small Ribo Subunit Protein Es4;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S5
Chain: F
Synonym: Small Ribosomal Subunit Protein Us7

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S6
Chain: G
Synonym: Phosphoprotein Np33,Small Ribosomal Subunit Protei

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S7
Chain: H
Synonym: Small Ribosomal Subunit Protein Es7

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S8
Chain: I
Synonym: Small Ribosomal Subunit Protein Es8

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S9
Chain: J
Synonym: Small Ribosomal Subunit Protein Us4

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S10
Chain: K
Synonym: Small Ribosomal Subunit Protein Es10

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S11
Chain: L
Synonym: Small Ribosomal Subunit Protein Us17

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S12
Chain: M
Synonym: Small Ribosomal Subunit Protein Es12

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S13
Chain: N
Synonym: Small Ribosomal Subunit Protein Us15

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S14
Chain: O
Synonym: Small Ribosomal Subunit Protein Us11

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S15
Chain: P
Synonym: Rig Protein,Small Ribosomal Subunit Protein Us19

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S16
Chain: Q
Synonym: Small Ribosomal Subunit Protein Us9

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S17
Chain: R
Synonym: Small Ribosomal Subunit Protein Es17

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S18
Chain: S
Synonym: Ke-3,Ke3,Small Ribosomal Subunit Protein Us13

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S19
Chain: T
Synonym: Small Ribosomal Subunit Protein Es19

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S20
Chain: U
Synonym: Small Ribosomal Subunit Protein Us10

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S21
Chain: V
Synonym: Small Ribosomal Subunit Protein Es21

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S15a
Chain: W
Synonym: Small Ribosomal Subunit Protein Us8

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S23
Chain: X
Synonym: Small Ribosomal Subunit Protein Us12

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S24
Chain: Y
Synonym: Small Ribosomal Subunit Protein Es24

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S25
Chain: Z
Synonym: Small Ribosomal Subunit Protein Es25

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S26
Chain: a
Synonym: Small Ribosomal Subunit Protein Es26

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S27
Chain: b
Synonym: Metallopan-Stimulin 1,Mps-1,Small Ribosomal Subuni Es27;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S28
Chain: c
Synonym: Small Ribosomal Subunit Protein Es28

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S29
Chain: d
Synonym: Small Ribosomal Subunit Protein Us14

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: 40s Ribosomal Protein S30
Chain: e
Synonym: Small Ribosomal Subunit Protein Es30

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Ribosomal Protein S27a
Chain: f

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Receptor Of Activated Protein C Kinase 1
Chain: g
Synonym: Cell Proliferation-Inducing Gene 21 Protein,Guanin Nucleotide-Binding Protein Subunit Beta-2-Like 1,Guanine Nu Binding Protein Subunit Beta-Like Protein 12.3,Human Lung C Oncogene 7 Protein,Hlc-7,Receptor For Activated C Kinase,Sm Ribosomal Subunit Protein Rack1;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Ribosomal Protein El41
Chain: h

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 4.30 Å
ligand
enzyme Lyase E.C.4.2.99.18 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
0


A
  • virus receptor activity

  • cytosolic small ribosomal su...
  • B

  • cytosolic small ribosomal su...
  • C

  • cytosolic small ribosomal su...
  • D

  • cytosolic small ribosomal su...
  • E

  • ribosome
  • cytosolic small ribosomal su...
  • F

  • cytosolic small ribosomal su...
  • G

  • cytosolic small ribosomal su...
  • H

  • cytosolic small ribosomal su...
  • I

  • cytosolic small ribosomal su...
  • J

  • cytosolic small ribosomal su...
  • K

  • cytosolic small ribosomal su...
  • L

  • cytosolic small ribosomal su...
  • M

  • cytosolic small ribosomal su...
  • N

  • cytosolic small ribosomal su...
  • O
  • translation regulator activi...

  • cytosolic small ribosomal su...
  • P

  • cytosolic small ribosomal su...
  • Q

  • cytosolic small ribosomal su...
  • R

  • cytosolic small ribosomal su...
  • S

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • T

  • cytosolic small ribosomal su...
  • U

  • cytosolic small ribosomal su...
  • V

  • cytosolic small ribosomal su...
  • W

  • cytosolic small ribosomal su...
  • X

  • cytosolic small ribosomal su...
  • Y

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • Z

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • a


    b

  • cytosolic small ribosomal su...
  • c


    d

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • e

  • small ribosomal subunit
  • cytosolic small ribosomal su...
  • f


    g
  • protein tyrosine kinase inhi...
  • cellular response to glucose...

  • h


    Primary referenceStructural and Functional Insights into Human Re-initiation Complexes., Weisser M, Schafer T, Leibundgut M, Bohringer D, Aylett CHS, Ban N, Mol Cell. 2017 Aug 3;67(3):447-456.e7. doi: 10.1016/j.molcel.2017.06.032. Epub, 2017 Jul 18. PMID:28732596
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1529 Kb) [Save to disk]
  • Biological Unit Coordinates (5oa3.pdb1.gz) 1516 Kb
  • CSU: Contacts of Structural Units for 5OA3
  • Retrieve 5OA3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5OA3 from S2C, [Save to disk]
  • View 5OA3 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 5OA3
  • 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
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r5oa3, region A:215-459 [Jmol] [rasmolscript] [script source]
  • Fold representative 5oa3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5oa3_A] [5oa3_C] [5oa3_S] [5oa3_X] [5oa3_d] [5oa3_B] [5oa3_e] [5oa3_P] [5oa3_R] [5oa3_V] [5oa3_a] [5oa3_Z] [5oa3_E] [5oa3_c] [5oa3_U] [5oa3_1] [5oa3_T] [5oa3_O] [5oa3_Q] [5oa3_f] [5oa3_N] [5oa3_H] [5oa3_M] [5oa3_F] [5oa3_K] [5oa3_D] [5oa3_2] [5oa3_g] [5oa3_I] [5oa3_b] [5oa3_h] [5oa3_0] [5oa3_L] [5oa3_Y] [5oa3_W] [5oa3_G] [5oa3_3] [5oa3_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5OA3
  • Community annotation for 5OA3 at PDBWiki (http://pdbwiki.org)

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