4F7U Splicing date May 16, 2012
title The 6s Snrnp Assembly Intermediate
authors C.Grimm, J.P.Pelz
compound source
Molecule: Small Nuclear Ribonucleoprotein Sm D1
Chain: A, C
Synonym: Sm-D1, Sm-D Autoantigen, Snrnp Core Protein D1
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Snrpd1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Small Nuclear Ribonucleoprotein Sm D2
Chain: B, D
Synonym: Sm-D2, Snrnp Core Protein D2
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Snrpd2
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Small Nuclear Ribonucleoprotein E
Chain: E, H
Synonym: Snrnp-E, Sm Protein E, Sm-E, Sme
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Snrpe
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Small Nuclear Ribonucleoprotein F
Chain: F, I
Synonym: Snrnp-F, Sm Protein F, Sm-F, Smf
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Gene: Snrpf
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Small Nuclear Ribonucleoprotein G
Chain: G, J
Synonym: Snrnp-G, Sm Protein G, Sm-G, Smg
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Snrpg
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Methylosome Subunit Picln
Chain: Q, P
Synonym: Sd10511p
Engineered: Yes

Organism_scientific: Drosophila Melanogaster
Organism_common: Fruit Fly
Organism_taxid: 7227
Gene: Cg4924, Icln
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: C 1 2 1
R_factor 0.181 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
180.720 65.298 99.346 90.00 92.47 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand P6G enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


B, D


E, H


F, I


J, G


P, Q


Primary referenceStructural Basis of Assembly Chaperone- Mediated snRNP Formation., Grimm C, Chari A, Pelz JP, Kuper J, Kisker C, Diederichs K, Stark H, Schindelin H, Fischer U, Mol Cell. 2013 Jan 15. pii: S1097-2765(12)01018-0. doi:, 10.1016/j.molcel.2012.12.009. PMID:23333303
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (366 Kb) [Save to disk]
  • Biological Unit Coordinates (4f7u.pdb1.gz) 175 Kb
  • Biological Unit Coordinates (4f7u.pdb2.gz) 177 Kb
  • LPC: Ligand-Protein Contacts for 4F7U
  • CSU: Contacts of Structural Units for 4F7U
  • Structure Factors (1097 Kb)
  • Retrieve 4F7U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4F7U from S2C, [Save to disk]
  • Re-refined 4f7u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4F7U 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 4F7U
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4F7U, from MSDmotif at EBI
  • Fold representative 4f7u from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4f7u_J] [4f7u_D] [4f7u_Q] [4f7u_H] [4f7u_I] [4f7u_A] [4f7u_G] [4f7u] [4f7u_E] [4f7u_F] [4f7u_P] [4f7u_B] [4f7u_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4F7U: [Sm ] by SMART
  • Other resources with information on 4F7U
  • Community annotation for 4F7U at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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