HDDC3 Gene
protein-coding GIFtS: 45
GCID: GC15M091474
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HD domain containing 3
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Aliases
for HDDC3 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| HD Domain Containing 31 2 | | HD Domain-Containing Protein 32 3 | | Metazoan SpoT Homolog 12 3 | | MGC453861 | | Penta-Phosphate Guanosine-3'-Pyrophosphohydrolase2 3 | | Guanosine-3',5'-Bis(Diphosphate) 3'-Pyrophosphohydrolase MESH12 | | (PpGpp)Ase1 | | Metazoan SpoT Homolog-12 | | MESH12 3 | | EC 3.1.7.23 |
Export aliases for HDDC3 gene to outside databasesPrevious GC identifers: GC15M089276 GC15M067585 |
Summaries
for HDDC3 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: MESH1_HUMAN, Q8N4P3Function: ppGpp hydrolyzing enzyme involved in starvation response
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Genomic Views
for HDDC3 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000015.9 NC_018926.1 NT_010274.17
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the HDDC3 gene promoter:
E2F-4 E2F-3a E2F-5 AML1a AP-4 E2F-2 Nkx5-1 E2F E2F-1
Other transcription factors
Search SABiosciences Chromatin IP Primers for HDDC3
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HDDC3 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 15q26.1 Ensembl cytogenetic band: 15q26.1 HGNC cytogenetic band: 15q26.1HDDC3 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 15 GeneLoc Exon Structure GeneLoc location for GC15M091474: view genomic region
(about GC identifiers)
Start:
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91,474,148 bp from pter |
End:
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91,475,799 bp from pter |
Size:
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1,652 bases |
Orientation:
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minus strand |
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Proteins
for HDDC3 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: MESH1_HUMAN, Q8N4P3 (See
protein sequence)Recommended Name: Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase MESH1 Size: 179 amino acids; 20329 Da
Cofactor: Manganese
1 PDB 3D structure from  and Proteopedia  for HDDC3:3NR1 (3D)
Alternative splicing: 2 isoforms: Q8N4P3-1 Q8N4P3-2 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for HDDC3: NX_Q8N4P3
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8N4P3
HDDC3 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_940929.1
ENSEMBL proteins: ENSP00000377814 ENSP00000330721 ENSP00000454103 ENSP00000452937
Human Recombinant Protein Products:
HDDC3 Antibody Products:
Assay Products for HDDC3: |
Protein
Domains /
Families
for HDDC3 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
HDDC3 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8N4P3ProtoNet protein and cluster: Q8N4P3 1 Blocks protein family: IPB006674 Metal-dependent phosphohydrolase
UniProtKB/Swiss-Prot: MESH1_HUMAN, Q8N4P3Similarity: Belongs to the MESH1 familySimilarity: Contains 1 HD domain |
Function
for HDDC3 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: MESH1_HUMAN, Q8N4P3Function: ppGpp hydrolyzing enzyme involved in starvation responseCatalytic activity: Guanosine 3',5'-bis(diphosphate) + H(2)O = guanosine 5'-diphosphate + diphosphateEnzyme Number (IUBMB): EC 3.1.7.21
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HDDC3
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HDDC3
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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Synthesis Service for HDDC3 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDDC3 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HDDC3 |
Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003824 | catalytic activity |
-- | -- | | GO:0008081 | phosphoric diester hydrolase activity |
-- | -- | | GO:0008893 | guanosine-3',5'-bis(diphosphate) 3'-diphosphatase activity |
IEA | -- | | GO:0046872 | metal ion binding |
IEA | -- |
HDDC3 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for HDDC3:
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Pathways & Interactions
for HDDC3 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for HDDC3
STRING Interaction
Network Preview (showing 1 interactants - click image to see more details)
3 Interacting proteins for HDDC3 (Q8N4P32, 3 ENSP000003307214) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for HDDC3 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for HDDC3
Search CenterWatch for drugs/clinical trials and news about HDDC3 / MESH1
|
Transcripts
for HDDC3 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for HDDC3 gene: NM_198527.2 Unigene Cluster for HDDC3: HD domain containing 3 Hs.349979 [show with all ESTs]Unigene Representative Sequence: AK0575846 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000394272 ENST00000330334(uc002bqe.4) ENST00000494993 ENST00000559898
ENST00000559834 ENST00000561036
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HDDC3
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HDDC3
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: HDDC3 (NM_198527) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for HDDC3 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDDC3 |
Additional cDNA sequence: AK057584.1 BC033794.1 4 DOTS entries: DT.95165968 DT.100036151 DT.95165969 DT.100780829 24/92 AceView cDNA sequences (see all 92): BQ777217 BU165799 AI990363 AI799077 BG033389 BI830820 BX095354 CR625970 AA287658 AK057584 BM787605 AI362805 BM693865 CN481832 BE671742 BQ778167 BU633661 BM013692 BX363567 BM670927 AI824988 AW005351 AI916382 AA062563
GeneLoc Exon Structure
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Expression
for HDDC3 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| HDDC3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GTGGGATCTC
About this image
See HDDC3 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for HDDC3
SOURCE GeneReport for Unigene cluster: Hs.349979
SABiosciences Custom PCR Arrays for HDDC3
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for HDDC3
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat HDDC3 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat HDDC3 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat HDDC3 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HDDC3 |
Orthologs
for HDDC3 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the last universal common ancestor (LUCA).
Orthologs for HDDC3 gene from 7/20 species (see all 20) About this table
Species with no ortholog for HDDC3
ENSEMBL Gene Tree for HDDC3 (if available)
TreeFam Gene Tree for HDDC3 (if available) |
Paralogs
for HDDC3 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for HDDC3 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for HDDC3
2 CNVs: 49620 4909 | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for HDDC3 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
| -- |
Publications
for HDDC3 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for HDDC3 gene, integrated from 9 sources (see all 11):
(articles sorted by number of sources associating them with HDDC3) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- A metazoan ortholog of SpoT hydrolyzes ppGpp and functions in starvation responses. (PubMed id 20818390)1, 2 Sun D....Chung J. (2010)
- Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)1, 2 Zody M.C....Nusbaum C. (2006)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
- A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
- Lysine acetylation targets protein complexes and co-regulates major cellular functions. (PubMed id 19608861)2 Choudhary C.... Mann M. (2009)
- hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
- Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (2005)
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External Searches for HDDC3 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing HDDC3 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing HDDC3 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing HDDC3 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for HDDC3 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for HDDC3 gene:
Search GeneIP for patents involving HDDC3
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for HDDC3 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for HDDC3 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for HDDC3 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for HDDC3 | | | Browse OriGene Protein Over-expression Lysates | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for HDDC3 | | OriGene 3'-UTR Clone for HDDC3 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for HDDC3 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for HDDC3 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | OriGene Purified Protein for HDDC3 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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 | | | HDDC3 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HDDC3 |
|  |  |  | | | | Search ThermoFisher Antibodies for HDDC3 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDDC3 |
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