5H1K Splicing Rna date Oct 10, 2016
title Crystal Structure Of Wd40 Repeat Domains Of Gemin5 In Comple Nt U4 Snrna Fragment
authors Y.Wang, W.Jin, C.P.Liu, N.Yang, M.Jin, Y.Cong, M.Wang, R.M.Xu
compound source
Molecule: Gem-Associated Protein 5
Chain: A, B
Fragment: Unp Residues 1-726
Synonym: Gemin5
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gemin5
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell: Sf21
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pfastbac-Htc

Molecule: U4 Snrna (5'-R(Gpcpapapupupupupupgpap
Chain: C, D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.170 R_Free 0.206
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.654 107.191 151.480 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
Primary referenceStructural basis for snRNA recognition by the double-WD40 repeat domain of Gemin5., Jin W, Wang Y, Liu CP, Yang N, Jin M, Cong Y, Wang M, Xu RM, Genes Dev. 2016 Nov 1;30(21):2391-2403. Epub 2016 Nov 10. PMID:27881601
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (257 Kb) [Save to disk]
  • Biological Unit Coordinates (5h1k.pdb1.gz) 127 Kb
  • Biological Unit Coordinates (5h1k.pdb2.gz) 128 Kb
  • CSU: Contacts of Structural Units for 5H1K
  • Structure Factors (5569 Kb)
  • Retrieve 5H1K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5H1K from S2C, [Save to disk]
  • Re-refined 5h1k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5H1K 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 5H1K
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5h1k_D] [5h1k_A] [5h1k_B] [5h1k_C] [5h1k]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5H1K: [WD40 ] by SMART
  • Other resources with information on 5H1K
  • Community annotation for 5H1K at PDBWiki (http://pdbwiki.org)

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