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NUDT13 nudix hydrolase 13 [ Homo sapiens (human) ]

Gene ID: 25961, updated on 10-Oct-2019

Summary

Official Symbol
NUDT13provided by HGNC
Official Full Name
nudix hydrolase 13provided by HGNC
Primary source
HGNC:HGNC:18827
See related
Ensembl:ENSG00000166321 MIM:609233
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Ubiquitous expression in testis (RPKM 2.0), skin (RPKM 1.9) and 25 other tissues See more
Orthologs

Genomic context

See NUDT13 in Genome Data Viewer
Location:
10q22.2
Exon count:
11
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (73110375..73131828)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (74870133..74891583)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein L17 pseudogene 50 Neighboring gene prolyl 4-hydroxylase subunit alpha 1 Neighboring gene small nucleolar RNA, H/ACA box 11F Neighboring gene ecdysoneless cell cycle regulator Neighboring gene family with sequence similarity 149 member B1 Neighboring gene uncharacterized LOC105378358

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Pathways from BioSystems

  • Metabolism, organism-specific biosystem (from REACTOME)
    Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
  • Metabolism of nucleotides, organism-specific biosystem (from REACTOME)
    Metabolism of nucleotides, organism-specific biosystemNucleotides and their derivatives are used for short-term energy storage (ATP, GTP), for intra- and extra-cellular signaling (cAMP; adenosine), as enzyme cofactors (NAD, FAD), and for the synthesis o...
  • Synthesis and interconversion of nucleotide di- and triphosphates, organism-specific biosystem (from REACTOME)
    Synthesis and interconversion of nucleotide di- and triphosphates, organism-specific biosystemAn array of kinases catalyze the reversible phosphorylation of nucleotide monophosphates to form nucleotide diphosphates and triphosphates.Nucleoside monophosphate kinases catalyze the reversible pho...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
NADH pyrophosphatase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
pyrophosphatase activity TAS
Traceable Author Statement
more info
 
Process Evidence Code Pubs
NADH metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
NADP catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleobase-containing small molecule interconversion TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
mitochondrial matrix TAS
Traceable Author Statement
more info
 
mitochondrion ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
nucleoside diphosphate-linked moiety X motif 13
Names
nudix (nucleoside diphosphate linked moiety X)-type motif 13
nudix motif 13

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001283014.2NP_001269943.1  nucleoside diphosphate-linked moiety X motif 13 isoform b

    See identical proteins and their annotated locations for NP_001269943.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate in-frame exons in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform b), compared to isoform a.
    Source sequence(s)
    AL050114, BC046173, DB035851
    Consensus CDS
    CCDS60552.1
    UniProtKB/Swiss-Prot
    Q86X67
    Related
    ENSP00000335326.6, ENST00000349051.9
    Conserved Domains (3) summary
    pfam09296
    Location:49162
    NUDIX-like; NADH pyrophosphatase-like rudimentary NUDIX domain
    pfam09297
    Location:166195
    zf-NADH-PPase; NADH pyrophosphatase zinc ribbon domain
    cl00447
    Location:198255
    Nudix_Hydrolase; Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+ ...
  2. NM_001283015.2NP_001269944.1  nucleoside diphosphate-linked moiety X motif 13 isoform c

    See identical proteins and their annotated locations for NP_001269944.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an exon in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (c) is shorter and has a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AL050114, BC038833, DB035851
    Consensus CDS
    CCDS60551.1
    UniProtKB/Swiss-Prot
    Q86X67
    Related
    ENSP00000362088.3, ENST00000372997.3
    Conserved Domains (2) summary
    pfam09296
    Location:49162
    NUDIX-like; NADH pyrophosphatase-like rudimentary NUDIX domain
    pfam09297
    Location:166195
    zf-NADH-PPase; NADH pyrophosphatase zinc ribbon domain
  3. NM_001283016.1NP_001269945.1  nucleoside diphosphate-linked moiety X motif 13 isoform d

    See identical proteins and their annotated locations for NP_001269945.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate exon in the 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (d) is shorter than isoform a.
    Source sequence(s)
    AK300980, AL050114, AW167819, DB035851
    Consensus CDS
    CCDS60553.1
    UniProtKB/Swiss-Prot
    Q86X67
    Related
    ENSP00000440760.1, ENST00000544879.5
    Conserved Domains (1) summary
    COG2816
    Location:9217
    NPY1; NADH pyrophosphatase NudC, Nudix superfamily [Nucleotide transport and metabolism]
  4. NM_001283017.1NP_001269946.1  nucleoside diphosphate-linked moiety X motif 13 isoform e

    See identical proteins and their annotated locations for NP_001269946.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains an alternate exon, lacks an alternate exon, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (e) is shorter than isoform a. Variants 5 and 6 encode the same isoform (e).
    Source sequence(s)
    AK316538, AL050114, AL521667, AW167819, DB035851
    Consensus CDS
    CCDS73148.1
    UniProtKB/Swiss-Prot
    Q86X67
    UniProtKB/TrEMBL
    B4E059
    Related
    ENSP00000438223.1, ENST00000537969.5
    Conserved Domains (1) summary
    cd03429
    Location:3147
    NADH_pyrophosphatase; NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for ...
  5. NM_001283019.2NP_001269948.1  nucleoside diphosphate-linked moiety X motif 13 isoform e

    See identical proteins and their annotated locations for NP_001269948.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an alternate exon and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (e) is shorter than isoform a. Variants 5 and 6 encode the same isoform (e).
    Source sequence(s)
    AK303235, AL050114, DB035851
    Consensus CDS
    CCDS73148.1
    UniProtKB/Swiss-Prot
    Q86X67
    UniProtKB/TrEMBL
    B4E059
    Conserved Domains (1) summary
    cd03429
    Location:3147
    NADH_pyrophosphatase; NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for ...
  6. NM_015901.6NP_056985.3  nucleoside diphosphate-linked moiety X motif 13 isoform a

    See identical proteins and their annotated locations for NP_056985.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AL050114, AL521667, BC046173, DB035851
    Consensus CDS
    CCDS31220.1
    UniProtKB/Swiss-Prot
    Q86X67
    Related
    ENSP00000349874.4, ENST00000357321.9
    Conserved Domains (4) summary
    COG2816
    Location:31343
    NPY1; NADH pyrophosphatase NudC, Nudix superfamily [Nucleotide transport and metabolism]
    cd03429
    Location:200344
    NADH_pyrophosphatase; NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for ...
    pfam09296
    Location:49162
    NUDIX-like; NADH pyrophosphatase-like rudimentary NUDIX domain
    pfam09297
    Location:166195
    zf-NADH-PPase; NADH pyrophosphatase zinc ribbon domain

RNA

  1. NR_104264.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC031224, BC038833, DB035851
    Related
    ENST00000488223.5

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

    Range
    73110375..73131828
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017016033.2XP_016871522.1  nucleoside diphosphate-linked moiety X motif 13 isoform X1

    UniProtKB/Swiss-Prot
    Q86X67
    Conserved Domains (2) summary
    pfam09296
    Location:49162
    NUDIX-like; NADH pyrophosphatase-like rudimentary NUDIX domain
    pfam09297
    Location:166195
    zf-NADH-PPase; NADH pyrophosphatase zinc ribbon domain
  2. XM_024447926.1XP_024303694.1  nucleoside diphosphate-linked moiety X motif 13 isoform X2

    Conserved Domains (1) summary
    COG2816
    Location:9217
    NPY1; NADH pyrophosphatase NudC, Nudix superfamily [Nucleotide transport and metabolism]

RNA

  1. XR_001747079.2 RNA Sequence

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