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Protein

5'(3')-deoxyribonucleotidase, cytosolic type

Gene

NT5C

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Dephosphorylates the 5' and 2'(3')-phosphates of deoxyribonucleotides, with a preference for dUMP and dTMP, intermediate activity towards dGMP, and low activity towards dCMP and dAMP.

Cofactori

Mg2+1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei10NucleophileCurated1
Metal bindingi10Magnesium1
Active sitei12Proton donorCurated1
Metal bindingi12Magnesium; via carbonyl oxygen1
Binding sitei18Substrate1
Binding sitei44Substrate1
Binding sitei65SubstrateBy similarity1
Binding sitei99SubstrateCurated1
Binding sitei134SubstrateCurated1
Metal bindingi145Magnesium1

GO - Molecular functioni

  • 5'-nucleotidase activity Source: Reactome
  • metal ion binding Source: UniProtKB-KW
  • nucleotidase activity Source: UniProtKB
  • pyrimidine nucleotide binding Source: UniProtKB

GO - Biological processi

  • dephosphorylation Source: UniProtKB
  • purine nucleotide catabolic process Source: Reactome
  • pyrimidine deoxyribonucleotide catabolic process Source: UniProtKB
  • pyrimidine nucleoside catabolic process Source: Reactome

Keywordsi

Molecular functionHydrolase
Biological processNucleotide metabolism
LigandMagnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-HSA-73621 Pyrimidine catabolism
R-HSA-74259 Purine catabolism
SABIO-RKQ8TCD5

Names & Taxonomyi

Protein namesi
Recommended name:
5'(3')-deoxyribonucleotidase, cytosolic type (EC:3.1.3.-)
Alternative name(s):
Cytosolic 5',3'-pyrimidine nucleotidase
Deoxy-5'-nucleotidase 1
Short name:
dNT-1
Gene namesi
Name:NT5C
Synonyms:DNT1, UMPH2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 17

Organism-specific databases

EuPathDBiHostDB:ENSG00000125458.6
HGNCiHGNC:17144 NT5C
MIMi191720 gene
neXtProtiNX_Q8TCD5

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Organism-specific databases

DisGeNETi30833
OpenTargetsiENSG00000125458
PharmGKBiPA31798

Chemistry databases

ChEMBLiCHEMBL3751653
DrugBankiDB00709 Lamivudine

Polymorphism and mutation databases

BioMutaiNT5C
DMDMi38258193

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001643711 – 2015'(3')-deoxyribonucleotidase, cytosolic typeAdd BLAST201

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei182PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8TCD5
PaxDbiQ8TCD5
PeptideAtlasiQ8TCD5
PRIDEiQ8TCD5

2D gel databases

OGPiQ8TCD5

PTM databases

DEPODiQ8TCD5
iPTMnetiQ8TCD5
PhosphoSitePlusiQ8TCD5

Expressioni

Tissue specificityi

Detected in skeletal muscle, heart and pancreas.1 Publication

Gene expression databases

BgeeiENSG00000125458
CleanExiHS_NT5C
ExpressionAtlasiQ8TCD5 baseline and differential
GenevisibleiQ8TCD5 HS

Organism-specific databases

HPAiHPA021581
HPA023632

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

BioGridi119049, 7 interactors
IntActiQ8TCD5, 1 interactor
STRINGi9606.ENSP00000245552

Structurei

Secondary structure

1201
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi5 – 9Combined sources5
Turni13 – 15Combined sources3
Helixi18 – 29Combined sources12
Helixi38 – 40Combined sources3
Helixi46 – 53Combined sources8
Helixi57 – 65Combined sources9
Turni68 – 73Combined sources6
Helixi80 – 89Combined sources10
Beta strandi93 – 99Combined sources7
Turni106 – 108Combined sources3
Helixi109 – 120Combined sources12
Helixi122 – 125Combined sources4
Beta strandi128 – 130Combined sources3
Helixi134 – 136Combined sources3
Beta strandi140 – 147Combined sources8
Beta strandi157 – 163Combined sources7
Helixi166 – 168Combined sources3
Beta strandi177 – 180Combined sources4
Helixi187 – 192Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2I7DX-ray1.20A/B3-195[»]
4L57X-ray1.08A/B1-195[»]
4YIHX-ray1.82A/B1-195[»]
ProteinModelPortaliQ8TCD5
SMRiQ8TCD5
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8TCD5

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG410IHG0 Eukaryota
ENOG410XQYS LUCA
GeneTreeiENSGT00390000011596
HOGENOMiHOG000236944
HOVERGENiHBG045599
KOiK01081
OMAiCHNQHLA
OrthoDBiEOG091G0L73
PhylomeDBiQ8TCD5
TreeFamiTF331117

Family and domain databases

Gene3Di3.40.50.1000, 2 hits
InterProiView protein in InterPro
IPR010708 5'(3')-deoxyribonucleotidase
IPR036412 HAD-like_sf
IPR023214 HAD_sf
PfamiView protein in Pfam
PF06941 NT5C, 1 hit
SUPFAMiSSF56784 SSF56784, 1 hit

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8TCD5-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MARSVRVLVD MDGVLADFEA GLLRGFRRRF PEEPHVPLEQ RRGFLAREQY
60 70 80 90 100
RALRPDLADK VASVYEAPGF FLDLEPIPGA LDAVREMNDL PDTQVFICTS
110 120 130 140 150
PLLKYHHCVG EKYRWVEQHL GPQFVERIIL TRDKTVVLGD LLIDDKDTVR
160 170 180 190 200
GQEETPSWEH ILFTCCHNRH LVLPPTRRRL LSWSDNWREI LDSKRGAAQR

E
Length:201
Mass (Da):23,383
Last modified:October 31, 2003 - v2
Checksum:iC4C289BBDEC0FA89
GO
Isoform 2 (identifier: Q8TCD5-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     93-100: Missing.
     113-125: YRWVEQHLGPQFV → VWLPRPYSARGAA
     126-201: Missing.

Note: No experimental confirmation available. May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.
Show »
Length:117
Mass (Da):13,299
Checksum:i014A63DE1B5347F6
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_04810268P → L1 PublicationCorresponds to variant dbSNP:rs11541956Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_00871093 – 100Missing in isoform 2. 1 Publication8
Alternative sequenceiVSP_008711113 – 125YRWVE…GPQFV → VWLPRPYSARGAA in isoform 2. 1 PublicationAdd BLAST13
Alternative sequenceiVSP_008712126 – 201Missing in isoform 2. 1 PublicationAdd BLAST76

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF154829 mRNA Translation: AAF36534.2
AK000419 mRNA Translation: BAA91151.1
AC022211 Genomic DNA No translation available.
BC008183 mRNA Translation: AAH08183.1
BC017454 mRNA Translation: AAH17454.1
BC022334 mRNA Translation: AAH22334.1
BK000192 Genomic DNA Translation: DAA00070.1
CCDSiCCDS11715.1 [Q8TCD5-1]
RefSeqiNP_001239306.1, NM_001252377.1
NP_055410.1, NM_014595.2 [Q8TCD5-1]
UniGeneiHs.67201

Genome annotation databases

EnsembliENST00000245552; ENSP00000245552; ENSG00000125458 [Q8TCD5-1]
ENST00000580758; ENSP00000462123; ENSG00000125458 [Q8TCD5-2]
GeneIDi30833
KEGGihsa:30833
UCSCiuc060jte.1 human [Q8TCD5-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiNT5C_HUMAN
AccessioniPrimary (citable) accession number: Q8TCD5
Secondary accession number(s): Q96HS6, Q9NP82
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 31, 2003
Last sequence update: October 31, 2003
Last modified: May 23, 2018
This is version 143 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

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