2YX4	Transcription Regulator	date	Apr 24, 2007
title	Crystal Structure Of T134a Of St1022 From Sulfolobus Tokodai
authors	T.S.Kumarevel, P.Karthe, N.Nakano, A.Shinkai, S.Yokoyama, Riken S Genomicsproteomics Initiative (Rsgi)
compound		source
Molecule: 150aa Long Hypothetical Transcriptional Regulator Chain: A Synonym: St1022 Engineered: Yes Mutation: Yes		Organism_scientific: Sulfolobus Tokodaii Organism_taxid: 111955 Gene: St1022 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_vector_type: Plasmid Expression_system_plasmid: Bl21(De3)
symmetry	Space Group: I 4 2 2	R_factor 0.251 R_Free 0.277
crystal cell	length a length b length c angle alpha angle beta angle gamma 103.999 103.999 74.587 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	GLN, MG	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structure of glutamine receptor protein from Sulfolobus tokodaii strain 7 in complex with its effector L-glutamine: implications of effector binding in molecular association and DNA binding., Kumarevel T, Nakano N, Ponnuraj K, Gopinath SC, Sakamoto K, Shinkai A, Kumar PK, Yokoyama S, Nucleic Acids Res. 2008 Aug;36(14):4808-20. Epub 2008 Jul 24. PMID:18653535

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk] Biological Unit Coordinates (2yx4.pdb1.gz) 210 Kb Biological Unit Coordinates (2yx4.pdb2.gz) 54 Kb LPC: Ligand-Protein Contacts for 2YX4 CSU: Contacts of Structural Units for 2YX4 Likely Quarternary Molecular Structure file(s) for 2YX4 Structure Factors (224 Kb) Retrieve 2YX4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2YX4 from S2C, [Save to disk] Re-refined 2yx4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2YX4 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 2YX4

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 3D motif for 2YX4, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1k2yx4, region X:368-463 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2yx4_A] [2yx4] SWISS-PROT database: [Q972W6] Domain organization of [Q972W6_SULTO] by SWISSPFAM Domain found in 2YX4: [HTH_ASNC ] by SMART

Other resources with information on 2YX4

Community annotation for 2YX4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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