Human Gene PRDX2 (uc002mvd.4)
  Description: Homo sapiens peroxiredoxin 2 (PRDX2), nuclear gene encoding mitochondrial protein, mRNA.
RefSeq Summary (NM_005809): This gene encodes a member of the peroxiredoxin family of antioxidant enzymes, which reduce hydrogen peroxide and alkyl hydroperoxides. The encoded protein plays an antioxidant protective role in cells, and it may contribute to the antiviral activity of CD8(+) T-cells. The crystal structure of this protein has been resolved to 2.7 angstroms. This protein prevents hemolytic anemia from oxidative stress by stabilizing hemoglobin, thus making this gene a therapeutic target for patients with hemolytic anemia. This protein may have a proliferative effect and play a role in cancer development or progression. Related pseudogenes have been identified on chromosomes 5, 6, 10 and 13. [provided by RefSeq, Mar 2013].
Transcript (Including UTRs)
   Position: hg19 chr19:12,907,634-12,912,724 Size: 5,091 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr19:12,907,895-12,912,075 Size: 4,181 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:12,907,634-12,912,724)mRNA (may differ from genome)Protein (198 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIneXtProtOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PRDX2_HUMAN
DESCRIPTION: RecName: Full=Peroxiredoxin-2; EC=1.11.1.15; AltName: Full=Natural killer cell-enhancing factor B; Short=NKEF-B; AltName: Full=PRP; AltName: Full=Thiol-specific antioxidant protein; Short=TSA; AltName: Full=Thioredoxin peroxidase 1; AltName: Full=Thioredoxin-dependent peroxide reductase 1;
FUNCTION: Involved in redox regulation of the cell. Reduces peroxides with reducing equivalents provided through the thioredoxin system. It is not able to receive electrons from glutaredoxin. May play an important role in eliminating peroxides generated during metabolism. Might participate in the signaling cascades of growth factors and tumor necrosis factor-alpha by regulating the intracellular concentrations of H(2)O(2).
CATALYTIC ACTIVITY: 2 R'-SH + ROOH = R'-S-S-R' + H(2)O + ROH.
SUBUNIT: Homodimer; disulfide-linked, upon oxidation. May be found as a toroid-shaped decamer composed of 5 dimers, depending on pH and calcium concentration. Interacts with TIPIN.
SUBCELLULAR LOCATION: Cytoplasm.
MISCELLANEOUS: The active site is the redox-active Cys-51 oxidized to Cys-SOH. Cys-SOH rapidly reacts with Cys-172-SH of the other subunit to form an intermolecular disulfide with a concomitant homodimer formation. The enzyme may be subsequently regenerated by reduction of the disulfide by thioredoxin.
MISCELLANEOUS: Inactivated upon oxidative stress by overoxidation of Cys-51 to Cys-SO(2)H and Cys-SO(3)H. Cys-SO(2)H is retroreduced to Cys-SOH after removal of H(2)O(2), while Cys-SO(3)H may be irreversibly oxidized.
SIMILARITY: Belongs to the AhpC/TSA family.
SIMILARITY: Contains 1 thioredoxin domain.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/prdx2/";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): PRDX2
CDC HuGE Published Literature: PRDX2

-  MalaCards Disease Associations
  MalaCards Gene Search: PRDX2
Diseases sorted by gene-association score: in situ carcinoma (6), hereditary spherocytosis (6), vaginal cancer (5), fuchs' endothelial dystrophy (5), hemolytic anemia (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 330.52 RPKM in Adrenal Gland
Total median expression: 6103.42 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -73.40180-0.408 Picture PostScript Text
3' UTR -93.80261-0.359 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000866 - AhpC/TSA
IPR024706 - Peroxiredoxin_AhpC-typ
IPR019479 - Peroxiredoxin_C
IPR012336 - Thioredoxin-like_fold

Pfam Domains:
PF00578 - AhpC/TSA family
PF08534 - Redoxin
PF10417 - C-terminal domain of 1-Cys peroxiredoxin

SCOP Domains:
52833 - Thioredoxin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1QMV - X-ray


ModBase Predicted Comparative 3D Structure on P32119
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologGenome BrowserGenome BrowserGenome Browser
Gene Details  Gene DetailsGene DetailsGene Details
Gene Sorter  Gene SorterGene SorterGene Sorter
   FlyBaseWormBaseSGD
   Protein SequenceProtein SequenceProtein Sequence
   AlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004601 peroxidase activity
GO:0005515 protein binding
GO:0008379 thioredoxin peroxidase activity
GO:0016209 antioxidant activity
GO:0016491 oxidoreductase activity
GO:0051920 peroxiredoxin activity

Biological Process:
GO:0006979 response to oxidative stress
GO:0019430 removal of superoxide radicals
GO:0034599 cellular response to oxidative stress
GO:0042744 hydrogen peroxide catabolic process
GO:0042981 regulation of apoptotic process
GO:0043066 negative regulation of apoptotic process
GO:0045454 cell redox homeostasis
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  LF208188 - JP 2014500723-A/15691: Polycomb-Associated Non-Coding RNAs.
BC000452 - Homo sapiens peroxiredoxin 2, mRNA (cDNA clone MGC:8456 IMAGE:2821457), complete cds.
BC003022 - Homo sapiens peroxiredoxin 2, mRNA (cDNA clone MGC:4104 IMAGE:2821457), complete cds.
BC064138 - Homo sapiens peroxiredoxin 2, mRNA (cDNA clone IMAGE:6176908).
EU668325 - Homo sapiens epididymis secretory sperm binding protein Li 2a (HEL-S-2a) mRNA, complete cds.
AK293957 - Homo sapiens cDNA FLJ60461 complete cds, highly similar to Peroxiredoxin-2 (EC 1.11.1.15).
BC039428 - Homo sapiens peroxiredoxin 2, mRNA (cDNA clone MGC:44699 IMAGE:5303023), complete cds.
L19185 - Human natural killer cell enhancing factor (NKEFB) mRNA, complete cds.
X82321 - H.sapiens mRNA for thiol-specific antioxidant.
LF373343 - JP 2014500723-A/180846: Polycomb-Associated Non-Coding RNAs.
Z22548 - H.sapiens thiol-specific antioxidant protein mRNA.
JD057257 - Sequence 38281 from Patent EP1572962.
JD379359 - Sequence 360383 from Patent EP1572962.
JD173042 - Sequence 154066 from Patent EP1572962.
JD232429 - Sequence 213453 from Patent EP1572962.
JD561495 - Sequence 542519 from Patent EP1572962.
JD422517 - Sequence 403541 from Patent EP1572962.
JD503787 - Sequence 484811 from Patent EP1572962.
JD074042 - Sequence 55066 from Patent EP1572962.
EU176327 - Synthetic construct Homo sapiens clone IMAGE:100006437; FLH184066.01X; RZPDo839B07251D peroxiredoxin 2 (PRDX2) gene, encodes complete protein.
CR541789 - Homo sapiens full open reading frame cDNA clone RZPDo834H0930D for gene PRDX2, peroxiredoxin 2; complete cds, incl. stopcodon.
DQ895403 - Synthetic construct Homo sapiens clone IMAGE:100009863; FLH184059.01L; RZPDo839B10143D peroxiredoxin 2 (PRDX2) gene, encodes complete protein.
CR450356 - Homo sapiens full open reading frame cDNA clone RZPDo834A083D for gene PRDX2, peroxiredoxin 2; complete cds; without stopcodon.
AB528486 - Synthetic construct DNA, clone: pF1KB3606, Homo sapiens PRDX2 gene for peroxiredoxin 2, without stop codon, in Flexi system.
AK022395 - Homo sapiens cDNA FLJ12333 fis, clone MAMMA1002198, highly similar to THIOREDOXIN PEROXIDASE 1.
AK289485 - Homo sapiens cDNA FLJ76507 complete cds, highly similar to Homo sapiens peroxiredoxin 2 (PRDX2), transcript variant 3, mRNA.
CU687852 - Synthetic construct Homo sapiens gateway clone IMAGE:100022751 5' read PRDX2 mRNA.
KJ892264 - Synthetic construct Homo sapiens clone ccsbBroadEn_01658 PRDX2 gene, encodes complete protein.
MA608920 - JP 2018138019-A/180846: Polycomb-Associated Non-Coding RNAs.
MA443765 - JP 2018138019-A/15691: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P32119 (Reactome details) participates in the following event(s):

R-HSA-8868573 CDK5:p25 phosphorylates PRDX2
R-HSA-3341343 PRDX1,2,5 catalyze TXN reduced + H2O2 => TXN oxidized + 2H2O
R-HSA-8862803 Deregulated CDK5 triggers multiple neurodegenerative pathways in Alzheimer's disease models
R-HSA-8863678 Neurodegenerative Diseases
R-HSA-1643685 Disease
R-HSA-3299685 Detoxification of Reactive Oxygen Species
R-HSA-5628897 TP53 Regulates Metabolic Genes
R-HSA-2262752 Cellular responses to stress
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-8953897 Cellular responses to external stimuli
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: A8K0C0, NKEFB, NM_005809, NP_005800, P31945, P32118, P32119, P35701, PRDX2_HUMAN, Q6FHG4, Q92763, Q9UC23, TDPX1, uc002mvd.3
UCSC ID: uc002mvd.4
RefSeq Accession: NM_005809
Protein: P32119 (aka PRDX2_HUMAN)
CCDS: CCDS12281.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_005809.5
exon count: 6CDS single in 3' UTR: no RNA size: 1052
ORF size: 597CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1394.00frame shift in genome: no % Coverage: 98.67
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.