2NZ4 Structural Protein Rna date Nov 22, 2006
title Structural Investigation Of The Glms Ribozyme Bound To Its C Cofactor
authors J.C.Cochrane
compound source
Molecule: Substrate Strand Rna 13-Mer
Chain: E, F, G, H
Engineered: Yes
Synthetic: Yes

Molecule: Glms Ribozyme
Chain: P, Q, R, S
Engineered: Yes

Synthetic: Yes
Other_details: In Vitro Syntesis From A Plasmid Dna Templat Natural Sequence From Bacillus Anthracis;

Molecule: U1 Small Nuclear Ribonucleoprotein A
Chain: A, B, C, D
Fragment: Rna Binding Domain
Synonym: U1 Snrnp Protein A; U1a Protein; U1-A
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snrpa
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11
symmetry Space Group: P 1 21 1
R_factor 0.222 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.127 234.157 105.003 90.00 90.65 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand A2M, GLP, GTP, MG enzyme
Primary referenceStructural Investigation of the GlmS Ribozyme Bound to Its Catalytic Cofactor., Cochrane JC, Lipchock SV, Strobel SA, Chem Biol. 2006 Dec 26;. PMID:17196404
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (330 Kb) [Save to disk]
  • Biological Unit Coordinates (2nz4.pdb1.gz) 82 Kb
  • Biological Unit Coordinates (2nz4.pdb2.gz) 83 Kb
  • Biological Unit Coordinates (2nz4.pdb3.gz) 83 Kb
  • Biological Unit Coordinates (2nz4.pdb4.gz) 82 Kb
  • LPC: Ligand-Protein Contacts for 2NZ4
  • CSU: Contacts of Structural Units for 2NZ4
  • Likely Quarternary Molecular Structure file(s) for 2NZ4
  • Structure Factors (1254 Kb)
  • Retrieve 2NZ4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2NZ4 from S2C, [Save to disk]
  • Re-refined 2nz4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2NZ4 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 2NZ4
  • 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 2NZ4, from MSDmotif at EBI
  • Fold representative 2nz4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2nz4_S] [2nz4_G] [2nz4_R] [2nz4_H] [2nz4] [2nz4_B] [2nz4_P] [2nz4_D] [2nz4_F] [2nz4_A] [2nz4_C] [2nz4_Q] [2nz4_E]
  • SWISS-PROT database: [P09012]
  • Domain organization of [SNRPA_HUMAN] by SWISSPFAM
  • Domain found in 2NZ4: [RRM ] by SMART
  • Alignments of the sequence of 2NZ4 with the sequences similar proteins can be viewed for 2NZ4's classification [SNRPA_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [SNRPA_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2NZ4
  • Community annotation for 2NZ4 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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