3PGW Splicing Dna Rna date Nov 02, 2010
title Crystal Structure Of Human U1 Snrnp
authors G.Weber, S.Trowitzsch, B.Kastner, R.Luehrmann, M.C.Wahl
compound source
Molecule: U1-A
Chain: A, P
Synonym: U1 Snrnp A, U1 Small Nuclear Ribonucleoprotein A,
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: U1-70k
Chain: S, L
Synonym: U1 Snrnp 70 Kda, Snrnp70, U1 Small Nuclear Ribonuc 70 Kda;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Sm-D3
Chain: Z, W
Synonym: Small Nuclear Ribonucleoprotein Sm D3, Snrnp Core D3;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Sm B
Chain: B, Q
Synonym: Small Nuclear Ribonucleoprotein Polypeptides B And

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Sm-D1
Chain: X, U
Synonym: Small Nuclear Ribonucleoprotein Sm D1, Sm-D Autoan Snrnp Core Protein D1;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Sm-D2
Chain: Y, V
Synonym: Small Nuclear Ribonucleoprotein Sm D2, Snrnp Core D2;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Sm-F
Chain: F, I
Synonym: Snrnp-F, Sm Protein F, Small Nuclear Ribonucleopro Smf;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Sm-E
Chain: E, H
Synonym: Snrnp-E, Sm Protein E, Small Nuclear Ribonucleopro Sme;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Sm G
Chain: G, J
Synonym: Small Nuclear Ribonucleoprotein Polypeptide G, Iso Cra_a;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: U1 Snrna
Chain: R, N

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Hela

Molecule: Dna 5'-D(Apgpgptpapapgptpa)-3'
Chain: D, M
Engineered: Yes

Synthetic: Yes
Other_details: Dna Oligonucleotide
symmetry Space Group: C 1 2 1
R_factor 0.299 R_Free 0.348
crystal
cell
length a length b length c angle alpha angle beta angle gamma
358.420 88.220 150.900 90.00 111.88 90.00
method X-Ray Diffractionresolution 4.40 Å
Gene
Ontology
ChainFunctionProcessComponent
A, P

  • spliceosomal complex
  • E, H

  • catalytic step 2 spliceosome...
  • F, I

  • catalytic step 2 spliceosome...
  • J, G

  • catalytic step 2 spliceosome...
  • Q, B

  • catalytic step 2 spliceosome...
  • S, L

  • spliceosomal complex
  • X, U

  • catalytic step 2 spliceosome...
  • Y, V

  • catalytic step 2 spliceosome...
  • Z, W

  • catalytic step 2 spliceosome...
  • Primary referenceFunctional organization of the Sm core in the crystal structure of human U1 snRNP., Weber G, Trowitzsch S, Kastner B, Luhrmann R, Wahl MC, EMBO J. 2010 Dec 15;29(24):4172-84. Epub 2010 Nov 26. PMID:21113136
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (60 Kb) [Save to disk]
  • Biological Unit Coordinates (3pgw.pdb1.gz) 26 Kb
  • Biological Unit Coordinates (3pgw.pdb2.gz) 26 Kb
  • CSU: Contacts of Structural Units for 3PGW
  • Structure Factors (230 Kb)
  • Retrieve 3PGW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PGW from S2C, [Save to disk]
  • View 3PGW 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 3PGW
  • 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
  • 3D motif for 3PGW, from MSDmotif at EBI
  • Fold representative 3pgw from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3pgw_W] [3pgw_N] [3pgw_J] [3pgw_S] [3pgw_A] [3pgw_E] [3pgw_M] [3pgw_V] [3pgw] [3pgw_R] [3pgw_L] [3pgw_X] [3pgw_Z] [3pgw_I] [3pgw_G] [3pgw_B] [3pgw_U] [3pgw_Q] [3pgw_Y] [3pgw_P] [3pgw_H] [3pgw_D] [3pgw_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3PGW: [RRM] [Sm ] by SMART
  • Other resources with information on 3PGW
  • Community annotation for 3PGW at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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