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 Diffraction	resolution	2.50 Å
ligand	A2M, GLP, GTP, MG	enzyme
Gene Ontology	Chain Function Process Component A, D, C, B nucleotide binding nucleic acid binding RNA binding protein binding snRNA binding mRNA splicing, via spliceoso... mRNA processing RNA splicing gene expression nucleus nucleoplasm spliceosomal complex ribonucleoprotein complex
Primary reference	Structural 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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_A] [2nz4_B] [2nz4_C] [2nz4_D] [2nz4_E] [2nz4_F] [2nz4_G] [2nz4_H] [2nz4_P] [2nz4_Q] [2nz4_R] [2nz4_S] 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)

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