1HD2	Antioxidant Enzyme	date	Nov 06, 2000
title	Human Peroxiredoxin 5
authors	J.P.Declercq, C.Evrard
compound		source
Molecule: Peroxiredoxin 5 Residues 54-214 Chain: A Fragment: Residues 54-214 Synonym: Prdx5, Prxv, Aoeb166, Pmp20, Arc1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Lung Organelle: Mitochondria-Cytosol-Peroxisome Cellular_location: Mitochondria-Cytosol-Peroxisome Gene: Prdx5, Aoeb166, Pmp20, Arc1 Expression_system: Escherichia Coli Expression_system_taxid: 1007065 Expression_system_strain: M15 Expression_system_plasmid: Pqe-30
symmetry	Space Group: P 41 21 2	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 66.607 66.607 123.327 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.50 Å
ligand	BEZ, BR	enzyme
related structures	by homologous chain: 1URM
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structure of human peroxiredoxin 5, a novel type of mammalian peroxiredoxin at 1.5 A resolution., Declercq JP, Evrard C, Clippe A, Stricht DV, Bernard A, Knoops B, J Mol Biol. 2001 Aug 24;311(4):751-9. PMID:11518528

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk] Biological Unit Coordinates (1hd2.pdb1.gz) 117 Kb LPC: Ligand-Protein Contacts for 1HD2 CSU: Contacts of Structural Units for 1HD2 Likely Quarternary Molecular Structure file(s) for 1HD2 Structure Factors (719 Kb) Retrieve 1HD2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1HD2 from S2C, [Save to disk] Re-refined 1hd2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1HD2 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 1HD2

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1HD2 from the CEP Server. Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1HD2, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1hd2a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1f1hd2, region D:101-468 [Jmol] [rasmolscript] [script source]     - Domain d1p1hd2, region D:323-437 [Jmol] [rasmolscript] [script source]     - Domain d1v1hd2, region D:457-483 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1hd2_A] [1hd2] SWISS-PROT database: [P30044] Domain organization of [PRDX5_HUMAN] by SWISSPFAM

Other resources with information on 1HD2

Community annotation for 1HD2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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