2Q4D	Structural Genomics, Unknown Function	date	May 31, 2007
title	Ensemble Refinement Of The Crystal Structure Of A Lysine Decarboxylase-Like Protein From Arabidopsis Thaliana Gene A
authors	E.J.Levin, D.A.Kondrashov, G.E.Wesenberg, G.N.Phillips Jr., Cent Eukaryotic Structural Genomics (Cesg)
compound		source
Molecule: Lysine Decarboxylase-Like Protein At5g11950 Chain: A, B Engineered: Yes		Organism_scientific: Arabidopsis Thaliana Organism_common: Thale Cress Organism_taxid: 3702 Strain: Cv. Columbia Gene: At5g11950, F14f18.120 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: B834(De3) P(Laci+Rare) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pvp-13
symmetry	Space Group: C 1 2 1	R_factor 0.152 R_Free 0.207
crystal cell	length a length b length c angle alpha angle beta angle gamma 121.589 80.427 50.709 90.00 102.97 90.00
method	X-Ray Diffraction, 16 Models	resolution	2.15 Å
ligand	EDO, MSE, NO3	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	Ensemble refinement of protein crystal structures: validation and application., Levin EJ, Kondrashov DA, Wesenberg GE, Phillips GN Jr, Structure. 2007 Sep;15(9):1040-52. PMID:17850744

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (979 Kb) [Save to disk] Biological Unit Coordinates (2q4d.pdb1.gz) 63 Kb LPC: Ligand-Protein Contacts for 2Q4D CSU: Contacts of Structural Units for 2Q4D Likely Quarternary Molecular Structure file(s) for 2Q4D Structure Factors (807 Kb) Retrieve 2Q4D in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2Q4D from S2C, [Save to disk]

View 2Q4D 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 2Q4D

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2Q4D, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2q4d_A] [2q4d] [2q4d_B] SWISS-PROT database: [Q84MC2] Domain organization of [Y5195_ARATH] by SWISSPFAM

Other resources with information on 2Q4D

Community annotation for 2Q4D at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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