3WGD	Isomerase	date	Aug 04, 2013
title	Crystal Structure Of Erp46 Trx1
authors	K.Inaba, M.Suzuki, R.Kojima
compound		source
Molecule: Thioredoxin Domain-Containing Protein 5 Chain: A, B, C, D, E, F, G, H, I Fragment: Trx1 Domain, Unp Residues 62-170 Synonym: Erp46, Endoplasmic Reticulum Resident Protein 46, 46, Thioredoxin-Like Protein P46; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Txndc5 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: C41(De3)Ripl Expression_system_vector_type: Plasmid Expression_system_plasmid: Poptg
symmetry	Space Group: P 1 21 1	R_factor 0.188 R_Free 0.235
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.440 94.680 142.020 90.00 90.85 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	GOL, K, PO4	enzyme
Primary reference	Radically different thioredoxin domain arrangement of ERp46, an efficient disulfide bond introducer of the mammalian PDI family., Kojima R, Okumura M, Masui S, Kanemura S, Inoue M, Saiki M, Yamaguchi H, Hikima T, Suzuki M, Akiyama S, Inaba K, Structure. 2014 Mar 4;22(3):431-43. doi: 10.1016/j.str.2013.12.013. Epub 2014 Jan, 23. PMID:24462249

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (361 Kb) [Save to disk] Biological Unit Coordinates (3wgd.pdb1.gz) 42 Kb Biological Unit Coordinates (3wgd.pdb2.gz) 42 Kb Biological Unit Coordinates (3wgd.pdb3.gz) 42 Kb Biological Unit Coordinates (3wgd.pdb4.gz) 42 Kb Biological Unit Coordinates (3wgd.pdb5.gz) 42 Kb Biological Unit Coordinates (3wgd.pdb6.gz) 41 Kb Biological Unit Coordinates (3wgd.pdb7.gz) 41 Kb Biological Unit Coordinates (3wgd.pdb8.gz) 41 Kb Biological Unit Coordinates (3wgd.pdb9.gz) 42 Kb LPC: Ligand-Protein Contacts for 3WGD CSU: Contacts of Structural Units for 3WGD Structure Factors (806 Kb) Retrieve 3WGD in mmCIF format [Save to disk] Re-refined 3wgd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3WGD 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 3WGD

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 3WGD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3wgd_H] [3wgd_C] [3wgd_I] [3wgd_A] [3wgd_D] [3wgd_F] [3wgd_G] [3wgd_B] [3wgd_E] [3wgd] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3WGD

Community annotation for 3WGD at PDBWiki (http://pdbwiki.org)

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