3KIJ	Oxidoreductase	date	Nov 02, 2009
title	Crystal Structure Of The Human Pdi-Peroxidase
authors	D.V.Nguyen, L.W.Ruddock
compound		source
Molecule: Probable Glutathione Peroxidase 8 Chain: A, B, C Fragment: Unp Residues 38-209 Ec: 1.11.1.9 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Strain: Homo Sapiens Gene: Gpx8, Gpx8_human, Unq847pro1785 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Plyssrare Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet23a
symmetry	Space Group: C 1 2 1	R_factor 0.209 R_Free 0.248
crystal cell	length a length b length c angle alpha angle beta angle gamma 90.430 122.300 70.180 90.00 117.90 90.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	SO4	enzyme	Oxidoreductase E.C.1.11.1.9 BRENDA
Gene	GPX8 (H. sapiens)
Gene Ontology	Chain Function Process Component A, C, B
Primary reference	Two Endoplasmic Reticulum PDI Peroxidases Increase the Efficiency of the Use of Peroxide during Disulfide Bond Formation., Nguyen VD, Saaranen MJ, Karala AR, Lappi AK, Wang L, Raykhel IB, Alanen HI, Salo KE, Wang CC, Ruddock LW, J Mol Biol. 2011 Feb 25;406(3):503-15. Epub 2011 Jan 5. PMID:21215271

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk] Biological Unit Coordinates (3kij.pdb1.gz) 32 Kb Biological Unit Coordinates (3kij.pdb2.gz) 33 Kb Biological Unit Coordinates (3kij.pdb3.gz) 32 Kb LPC: Ligand-Protein Contacts for 3KIJ CSU: Contacts of Structural Units for 3KIJ Structure Factors (937 Kb) Retrieve 3KIJ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3KIJ from S2C, [Save to disk] Re-refined 3kij structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3KIJ 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 3KIJ

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 3KIJ, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3kij_B] [3kij_A] [3kij_C] [3kij] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3KIJ

Community annotation for 3KIJ at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---