5FLX Ribosome date Oct 28, 2015
title Mammalian 40s Hcv-Ires Complex
authors H.Yamamoto, M.Collier, J.Loerke, J.Ismer, A.Schmidt, T.Hilal, T.Sp K.Yamamoto, T.Mielke, J.Burger, T.R.Shaikh, M.Dabrowski, P.W.Hil P.Scheerer, C.M.T.Spahn
compound source
Molecule: 18s Rrna
Chain: 1
Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: 40s Ribosomal Protein Sa
Chain: A
Synonym: 37 Kda Laminin Receptor Precursor, 37lrp, 3767 Kd Laminin Receptor, Lrplr, 67 Kda Laminin Receptor, 67lr, C Carcinoma Laminin-Binding Protein, Laminin Receptor 1,Lamr Laminin-Binding Protein Precursor P40,Lbpp40,Multidrug Resistance-Associated Protein Mgr1-Ag, Nem1chd4,40s Ribos Protein Us2;

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: 40s Ribosomal Protein S2
Chain: C
Synonym: 40s Ribosomal Protein S4,Protein Llrep3,40s Riboso Protein Us5;

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: 40s Ribosomal Protein S3a
Chain: B
Synonym: V-Fos Transformation Effector Protein, Fte-1,40s R Protein Es1;

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: 40s Ribosomal Protein S4, Y Isoform 1
Chain: E
Synonym: 40s Ribosomal Protein Es4

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: 40s Ribosomal Protein S6
Chain: G
Synonym: Phosphoprotein Np33,40s Ribosomal Protein Es6

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

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

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: Guanine Nucleotide-Binding Protein Subunit Beta-2
Chain: g
Synonym: Cell Proliferation-Inducing Gene 21 Protein, Guani Nucleotide-Binding Protein Subunit Beta-Like Protein 12.3, Lung Cancer Oncogene 7 Protein, Hlc-7,Receptor For Activat Kinase, Receptor Of Activated Protein Kinase C 1,Rack1,40s Ribosomal Protein Rack1;

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: Ubiquitin-40s Ribosomal Protein S27a
Chain: f
Synonym: Ubiquitin Carboxyl Extension Protein 80,40s Riboso Protein Es31;

Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986

Molecule: Hcv-Ires
Chain: z
Engineered: Yes

Organism_scientific: Hepatitis C Virus
Organism_common: Hcv
Organism_taxid: 11103
Expression_system: Oryctolagus Cuniculus
Expression_system_common: Rabbit
Expression_system_taxid: 9986
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
ligand MG, ZN enzyme Lyase E.C.4.2.99.18 BRENDA
Primary referenceMolecular architecture of the ribosome-bound Hepatitis C Virus internal ribosomal entry site RNA., Yamamoto H, Collier M, Loerke J, Ismer J, Schmidt A, Hilal T, Sprink T, Yamamoto K, Mielke T, Burger J, Shaikh TR, Dabrowski M, Hildebrand PW, Scheerer P, Spahn CM, EMBO J. 2015 Dec 14;34(24):3042-58. doi: 10.15252/embj.201592469. Epub 2015 Nov, 24. PMID:26604301
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1388 Kb) [Save to disk]
  • Biological Unit Coordinates (5flx.pdb1.gz) 1371 Kb
  • LPC: Ligand-Protein Contacts for 5FLX
  • CSU: Contacts of Structural Units for 5FLX
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  • Visual 3D analysis of 5FLX
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  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5flx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5flx_I] [5flx_L] [5flx_R] [5flx_c] [5flx_K] [5flx_g] [5flx_e] [5flx_X] [5flx_z] [5flx_D] [5flx_f] [5flx_F] [5flx_a] [5flx_1] [5flx_J] [5flx_Y] [5flx_V] [5flx_P] [5flx_G] [5flx_E] [5flx_U] [5flx_Z] [5flx_Q] [5flx_W] [5flx_b] [5flx_O] [5flx_d] [5flx_S] [5flx_T] [5flx_A] [5flx_B] [5flx_H] [5flx_M] [5flx] [5flx_C] [5flx_N]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5FLX: [KH] [Ribosomal_S10] [Ribosomal_S13_N] [Ribosomal_S15] [Ribosomal_S19e] [Ribosomal_S27] [Ribosomal_S3Ae] [Ribosomal_S4] [Ribosomal_S6e] [S4] [UBQ] [WD40 ] by SMART
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